age
float64 26
69
| reference_genome
large_stringclasses 1
value | gene_annotation_version
large_stringclasses 1
value | alignment_software
large_stringclasses 1
value | intronic_reads_counted
large_stringclasses 1
value | donor_id
large_stringclasses 3
values | donor_age
large_stringclasses 3
values | self_reported_ethnicity_ontology_term_id
large_stringclasses 1
value | donor_cause_of_death
large_stringclasses 1
value | donor_living_at_sample_collection
large_stringclasses 1
value | sample_id
large_stringclasses 3
values | sample_preservation_method
large_stringclasses 1
value | tissue_ontology_term_id
large_stringclasses 1
value | development_stage_ontology_term_id
large_stringclasses 3
values | sample_collection_method
large_stringclasses 1
value | tissue_type
large_stringclasses 1
value | suspension_depleted_cell_types
large_stringclasses 1
value | suspension_derivation_process
large_stringclasses 1
value | suspension_dissociation_reagent
large_stringclasses 1
value | suspension_dissociation_time
large_stringclasses 1
value | suspension_uuid
large_stringclasses 3
values | suspension_type
large_stringclasses 1
value | tissue_handling_interval
large_stringclasses 1
value | library_id
large_stringclasses 3
values | assay_ontology_term_id
large_stringclasses 1
value | sequenced_fragment
large_stringclasses 1
value | institute
large_stringclasses 1
value | library_id_repository
large_stringclasses 1
value | sequencing_platform
large_stringclasses 1
value | is_primary_data
bool 1
class | cell_type_ontology_term_id
large_stringclasses 19
values | author_cell_type
large_stringclasses 20
values | disease_ontology_term_id
large_stringclasses 1
value | sex_ontology_term_id
large_stringclasses 2
values | nCount_RNA
float64 656
70.6k
| nFeature_RNA
int32 501
5.97k
| Treatment
large_stringclasses 1
value | AgeGroup
large_stringclasses 1
value | relALBChange
float64 0
1
⌀ | nuclear_fraction
float64 0.05
0.82
| cell_status
large_stringclasses 3
values | percent.mt
float64 0
25
| S.Score
float64 -0.13
0.91
| G2M.Score
float64 -0.15
1.49
| Phase
large_stringclasses 3
values | seurat_clusters
large_stringclasses 33
values | age_condition
large_stringclasses 1
value | Dissociation
large_stringclasses 1
value | cell_type
large_stringclasses 19
values | assay
large_stringclasses 1
value | disease
large_stringclasses 1
value | sex
large_stringclasses 2
values | tissue
large_stringclasses 1
value | self_reported_ethnicity
large_stringclasses 1
value | development_stage
large_stringclasses 3
values | observation_joinid
large_stringlengths 10
10
| cell_sentence
large_stringlengths 12.2k
13.8k
| dataset_id
large_stringclasses 1
value | collection_id
large_stringclasses 1
value | publication_title
large_stringclasses 1
value | publication_doi
null | publication_description
large_stringclasses 1
value | publication_contact_name
large_stringclasses 1
value | publication_contact_email
large_stringclasses 1
value |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
26
|
GRCh38
|
v92
|
Cell Ranger count v3.1.0
|
no
|
C82
|
26 years
|
unknown
|
unknown
|
False
|
5d7af9f2-45b2-4c68-b967-204db4d5f2cc
|
fresh
|
UBERON:0001117
|
HsapDv:0000120
|
surgical resection
|
tissue
|
na
|
enzymatic dissociation
|
unknown
|
unknown
|
19f2ef36-b787-4fe9-ad8e-f8c7b5a40983
|
cell
|
unknown
|
2b12dc3e-e1b6-49e8-804a-dbd24e59b042
|
EFO:0009922
|
3 prime tag
|
University of Toronto
|
nan
|
Illumina NovaSeq 6000 (EFO:0008637)
| false
|
CL:1000398
|
LSEC
|
PATO:0000461
|
PATO:0000384
| 10,431.377173
| 2,921
|
Healthy
|
Adult
| 0.254958
| 0.245226
|
cell
| 0.916918
| -0.067414
| -0.062695
|
G1
|
11
|
Adult Healthy
|
Perfusion
|
endothelial cell of hepatic sinusoid
|
10x 3' v3
|
normal
|
male
|
caudate lobe of liver
|
unknown
|
26-year-old stage
|
3&<xL8YjWj
|
RPL10 EEF1A1 RPS18 TPT1 RPL13 FTL RPLP1 RPS8 S100A9 RPS14 VIM RPS12 RPS2 RPS9 TMSB10 RPL41 RPL11 MGP RPL29 RPL32 RPL28 RPS23 RPS28 MT-CO1 RPL34 RPL19 RPS27 RPS3A RPL37 RPL30 RPL12 RPL9 RPS6 RPL18 RPL13A RPL3 RPS27A RPS15 RPS24 RPS4X FTH1 RPL26 RPL7A RPL18A RPS19 S100A6 RPS3 ACTB TMSB4X RPL39 RPL35A RPL8 RPS11 RPL15 RPL10A RPL6 RPLP2 RPL24 RPL27A RPS13 NACA RPL7 RACK1 RPL37A B2M PTMA RPS29 RPL35 RPL21 IGFBP7 S100A8 MT2A RPS5 RPS25 RPL23 RPS7 FAU ADIRF GAPDH UBA52 RPL27 RPS16 RPS15A S100A10 RPL23A RPL38 EIF1 RPL5 SH3BGRL3 RPL14 RPL36 PFDN5 CLU TXNIP ATP5F1E RPLP0 CTSS RPS20 LYZ TM4SF1 ITM2B HLA-E RPL22 MYL6 H3-3A MT-ND1 S100A4 GSTP1 CD9 NOP53 AHNAK SRGN CD63 HLA-C CST3 TOMM7 RPL4 SLC25A6 CALM1 EEF1D EEF1B2 HLA-B RPS26 CCN2 SPARCL1 EEF2 RNASE1 HMGB1 LGALS1 COX4I1 GNG5 BTF3 CEBPD H3-3B VCAN EIF3E MGST3 ANXA2 ARPC2 TMA7 POLR2L IFITM2 ACTG1 IFITM3 S100A11 RPSA PFN1 TYROBP CPE SLC25A3 HSPG2 ARPC5 CHCHD2 DDX5 MYL12B MT1E RPL36AL CFL1 RPS21 HYAL2 NAP1L1 SNCG SRPX ARF1 NHERF2 EIF3K YWHAB PABPC1 TSPO MYL12A ARHGDIB UBC RPL31 OAZ1 SERF2 NEAT1 YBX3 CTNNAL1 CAV1 CRIP2 HSPA1A WSB1 EIF3L EID1 DUSP1 TXN PKM CD81 CCDC85B HSP90AB1 RPS4Y1 ATP5MC2 PRDX1 GNAS ARPC3 LIFR FN1 SAT1 LAPTM5 HLA-A TIMP1 CTSD CALD1 TYMP CYBA MT-ND4 HRCT1 CCND1 CYB5R3 HMGN3 JUN NSA2 CD59 ANP32B PRXL2A SET HSPB1 SERP1 NEDD8 PRDX2 ALKBH7 RABAC1 OST4 HMGB2 VWF TALDO1 EGFL7 PRSS23 CLIC1 TGM2 MZT2B CEBPB GPX4 PRELID1 GUK1 YBX1 PPIA NNMT PSAP AIF1 MALAT1 BMX DNAJC10 PRKDC PLAC9 SNHG7 HES1 ARL6IP5 NUCB2 TOMM20 RBM8A TINAGL1 DEK LAMTOR1 WASF2 TM9SF3 RNF130 CD151 COMMD6 TSC22D3 PRR13 CD99 SUMO2 EPAS1 RHOC KLF6 NDUFS5 SERBP1 JUNB GNAI2 RPS10 PSME1 TRA2B RBM3 PTPRB ATP6V0E1 TLE5 PSME2 PSMA7 EIF3A ATP5PF NFKBIA COX5B ARL6IP4 NUCKS1 HNRNPA2B1 RAC1 UBB COXFA4 ID1 JUND ELOB COX7C UQCRQ PTMS HINT1 IFI27 PRRC2C EVI2B MT1X COTL1 CD14 MPEG1 MS4A6A HCLS1 ITGB2 FCN1 MT-ND5 METRNL CAVIN3 TCN2 TPRKB IGFBP6 XRN2 NPDC1 RRAS ANXA3 SWAP70 SOX18 VAMP2 IQGAP1 MTIF3 ADGRF5 TMEM50A PYURF ATP5F1A NFKB1 DPM3 WDR1 PTGS1 CAVIN1 XRCC5 PSMB7 LMNA BMPR2 UBXN4 ROCK1 PECAM1 NOP10 UTRN MTPN MYH9 ANAPC11 EIF3F DYNLL1 UXT LIMS2 SH3BGRL CDV3 PNRC1 ANXA1 CIMAP1B CHMP2A MOB1A KTN1 NFIC TKT ARLN CNBP ANKRD12 SLC38A2 EIF3G ZFAS1 SEC62 ENO1 FLNA C19orf53 CAVIN2 ZFP36L2 GSTK1 NPC2 TRIR TPM3 NDUFB10 MSN HNRNPA1 DDIT4 TGOLN2 PGD SLC25A5 ACTR2 UQCRH SRP14 BTG1 ATP6V1F ZFP36L1 BST2 ATP5MF ATP5MJ DDX17 CALM2 BRI3 MGLL HLA-DRB1 ATP5MG ATP5F1D GPX3 ARRB2 SPI1 MT-ND4L FCER1G EIF4A3 SLC48A1 NQO1 LTBP4 BMP4 PMP22 NOL7 LYST HOTAIRM1 SNHG32 AAMDC SLC75A1 YIPF3 CAV2 OMD SOCS3 ESAM NDRG1 BGN PTEN CCDC12 COL8A1 CASP4 TEK HEG1 NBDY SIPA1 DDX18 KHDRBS1 ACSL4 RAMP2 PNPLA2 MTRF1L RTRAF RAD21 PHACTR2 MMRN2 GARRE1 CHMP2B ARL4A YPEL3 OGN KDELR1 CCT5 STING1 PSMB8 SSB DSTN CITED2 PHB2 VDAC2 PLP2 ITLN2 NDUFA5 TSG101 EFNA1 HIPK3 TRMT112 FBL TMOD3 PSMC1 OTC CAPZA2 BNIP3L TOP2B NPR1 SOX4 EIF2S2 SYNGR2 STOM WARS1 NR2F2 CLTB SEC11A NUDT16 RAB5C RTN3 EIF1AX MTLN MCL1 IL33 EHBP1 MORF4L1 FOXP1 MRPS34 ACAP2 ARID4B DRAP1 OAZ2 PSMD1 NDUFA1 PSMC5 RHOG DAD1 GNG11 SERPINB6 TCEAL4 PRKAR1A RNF7 EIF4B GIMAP7 SEC61G C7 SHKBP1 CSDE1 PHIP SNHG8 PLD3 SYF2 SARAF TAGLN2 QKI ZYX TBCA RAP1B CLTC AGTPBP1 SMIM26 GRB2 YME1L1 SNRPB AFDN SNF8 LDHA MRPL52 ALDH2 YY1 SSR2 EHBP1L1 GDI2 PARK7 TPM4 ATP5MK SMDT1 ATP5MC3 APLP2 RHOB TPP1 SUB1 NUP214 CHD8 VAMP5 YWHAZ SNRPD2 RNASEH2C FGL2 SERPINB1 USP15 PSMB9 PHC2 MACF1 HIGD2A RHOA NDUFB7 COX7A2 NDUFV2 SCAND1 N4BP2L2 PPDPF SPCS1 COX6C TPI1 KLF2 ZNHIT1 LRRFIP1 NPM1 EIF4EBP1 DDT FIS1 RPS27L COX8A HRH2 IL6ST PPP1CA GRK2 UQCRB TAF10 MACROH2A1 GOLGA4 HSP90B1 PLCG2 RBM39 CYRIB EFHD2 PRDX6 PEBP1 PYCARD THBS1 FKBP5 NCF2 TGFBI C5AR1 MSR1 CD37 CD163 CORO1A S100A12 ALB LAMA5 ARFGEF3 RAB11FIP5 DUSP14 SNCAIP ADGRE1 NLRP1 PLVAP SPRY1 THBD TCEAL8 ITPR1 MLLT1 ACSM3 EVA1C CDK4 MYOF ZFYVE21 TMEM184C ST8SIA6 FXYD6 NUBP1 COPS2 LHFPL6 OSER1 GBP4 TCEAL1 GSTM3 ATL3 AP3S1 SVIL PLSCR1 CDKN1C HDGFL3 SLC26A7 SHISA3 ERF PCMTD1 FEZ2 GPM6A CDC42EP5 MAGED2 TMOD1 PROCR STN1 TCEAL9 NCOA7 CTBP2 TMCO1 MIF4GD PALMD TMA16 CHMP4B REV1 DCTN2 PPP2CB PIEZO1 LIMS1 UBL4A EPB41L4A-AS1 RYBP INTS3 FNBP1L DNMBP MAPK3 ADAMTS1 UQCC5 TMEM230 CDIPT CDC42EP3 RBM22 GUCY1A1 ZNF22 LDB2 SF3B2 TSC22D1 ZNF217 ZMAT1 NRN1 MAP3K3 PSMA3 GYG1 NAXE TM9SF2 EBPL MCFD2 FBXW2 DKK3 PRKRA ZDHHC3 GLOD4 EIF2AK2 CEP85L PDHA1 RANBP1 TOMM22 SHC1 CCDC90B USP33 TMEM129 BTF3L4 APH1A C11orf96 SLC3A2 SERTAD1 MCTS1 CCNY GOLPH3 BLVRA NMI ZBTB44 SELENOT IP6K2 ADSS2 PGM2 RAPGEF2 MATN2 GSK3B SMIM30 ARL6IP1 REPS1 USP4 GIMAP1 NDUFC1 SVIP AKR1B1 HDAC7 GIMAP6 COX7A1 PRPF8 CWC15 FLII FLOT1 TGFBR3 GJA4 LSM14A JMJD1C DAAM1 DHRS3 FBXO21 KCTD12 FAM114A1 ARL2BP ECI2 LEPROT USP22 ZBTB38 CD47 MKNK2 LETMD1 BEX3 GOLM2 IGBP1 DYNC1LI1 ATP1B1 RERE HCFC1R1 RBBP4 MDH1 WNK1 IFRD2 NCBP3 RSRP1 PAK2 TMEM18 PDLIM1 PEF1 COA4 NSMCE1 ZMYND8 TRIOBP CLEC14A UBE2I NFE2L2 BACH1 LRRFIP2 MRPL21 SNAP23 ETS2 USE1 MRPL47 PRMT1 RIPOR1 STX11 LGALS9 CCNDBP1 TMEM179B CUEDC2 TTBK2 LTC4S PDCD4 BANF1 CSNK2B CDKN2D SCOC PDZK1IP1 CALCRL PLTP RAB11A PQBP1 MOCS2 CRTAP MAP1LC3B CCT7 SEPTIN11 EIF2S3 DGUOK RNF11 RBPJ PRMT2 LMO2 CDC42BPB PSMC6 BAG5 SRSF7 PSMC3 PPM1G MARCHF6 PGK1 IFI6 CD34 RNH1 ERH DDX24 VCP SLX9 NCOA4 CYSTM1 PSENEN BAG1 GNB2 CRYZL1 HPS1 FAM217B LRP10 HIF1A SPRING1 VTI1B RPL22L1 SMS FLNB DUT ZC3H15 FAM89B GCA ATG13 PAFAH1B1 PSMD12 IST1 FOXO3 LAMTOR5 DNAJC8 COPRS SUPT16H EIF2AK1 ATP5PB NDUFAB1 MBD2 S100A16 ZCRB1 TGS1 IDH3G PRNP SNRK ALG5 ZFP36 ERGIC3 GANAB SKP1 PNKD OGFR COX7A2L WDR45B FIBP PDCD5 LRPAP1 ATP6V1G1 LSM4 REX1BD CCND3 LARP1 SSH2 PSMD7 SRRM1 STX8 TGFBR2 PSMB4 LSM8 BORCS7 RBCK1 IMPDH1 VASP GEMIN6 SLIRP RPL36A APP BRK1 SRSF5 GHITM PCBP1 WDR33 HNRNPR PDAP1 LSM7 WWP1 EIF4G2 AUP1 PSMA5 PAPOLA ECE1 DNAJC7 TOR1A CCNI IL13RA1 HNRNPAB UFC1 SBNO1 PICALM CHMP1B YWHAE CD93 C2orf49 SDCBP PRP4K SNX6 NDUFAF2 SNU13 H4C3 CDH23 SELENOH NISCH TSPAN4 MAP3K11 SGK3 STMP1 EMP2 RNPEP TNFSF10 TAX1BP1 DHX8 DNPH1 HACL2 BCORL1 MXD4 TAPBP SMIM19 DGCR6L MAP2K2 ATP5PO RHOQ GIMAP4 SRSF10 IFNAR1 KANSL1 C11orf58 MRPL57 CGGBP1 SAMHD1 SAP18 PPP4R3B CTDNEP1 DBNL TFDP2 MDH2 PHF3 HNRNPA3 NUDT3 CDK11B CXCL2 HP1BP3 DDX46 ARHGAP18 KDM2A PTBP3 CYC1 RBIS IARS2 MBNL1 FKBP1A JTB KDM5A VPS28 NAA10 SUMO3 LAGE3 PCBP2 UBE2K DPP7 MYLIP GLUL BPNT2 LGALS3 CHCHD7 NDUFA2 CLDN5 GTF2F1 HDLBP SMCHD1 SAR1A HNRNPF EIF5 MAPKAPK2 CLTA RBX1 LSM5 XRN1 KIAA2013 SUMF2 EIF5A PPP2R1A CAPZB HADHA EMC3 CGNL1 CTNNBL1 HDDC3 PER1 NDUFS8 MICOS13 IGF2R GIGYF2 CDC42 MRPL14 CNOT7 MAP3K7CL NDFIP1 STAT3 RPS19BP1 SEC11C HSPA5 CAP1 PPP1R14B MRPL54 EPN1 POLR2I SPTBN1 ANKRD44 GTF2I MRPS12 ERC1 TNFRSF1B CNPY3 BCAP31 XPC CSTB ASAH1 DPYD NTHL1 UBE2D3 TLN1 MSL3 TCIRG1 WDR13 LPXN CIRBP EIF4G1 CHCHD5 PDXK ZBTB20 GYPC GSTO1 CIDEB CTSH PPIB HEBP2 PLEC ID3 HLX LACTB VSIR COX6A1 AGTRAP UBL5 FNDC3B FXYD5 MAFB PABPC4 ATP6V1B2 TIMP3 TCF25 PNISR PGLS SLC66A2 ATP6V0B NDUFB11 GRINA ZEB2 BID FPGS SCLT1 HSP90AA1 SOD1 SFPQ LAMTOR4 CD302 MRPL41 BLOC1S1 GNL3L AKAP13 UQCR11 FCGRT P2RY13 MED16 SRRM2 EDF1 LILRB2 TMBIM6 P4HB RXRA CTSB ABRACL NOTCH2 SMAP2 CYB5A CD300LF RGS2 CHCHD10 SCP2 MT-ND6 SSR4 IGSF6 CD74 STXBP2 PRKCB NFAM1 SLC11A1 LY86 CD33 TMT1A CD53 CPVL FCGR2A TBXAS1 HMOX1 ZC3H13 CLEC7A ASGR1 PTPRC LCP1 UCP2 C1orf162 FPR1 MYO1F LST1 HCST CES1 SERPINA1 TOMM40L BORCS5 VWA5A AP4M1 LRFN3 ZFP37 SERGEF MAP2K1 CALML4 WDCP TMEM44-AS2 SH3GL3 SERTAD4-AS1 BCL2L13 RTN4IP1 ENTREP2 COPS7A ERCC6L2-AS1 SAE1 LINC01354 SERTAD3 SPEG AGAP5 MFAP3 ADGRA2 TPBG PM20D2 COA6-AS1 TUBG2 ZNF790-AS1 MAP4K2 WDR44 ORC2 RNF212 ADORA3 SMAGP B4GALT2 AVEN DPH5 CHST1 CCRL2 VSTM1 HCG11 DCUN1D5 DNM3 APAF1 RCC2 GABARAP LINC02021 ZNG1A RAB20 STK33 TNFRSF10A CLDN15 MIGA2 ERP27 RAB9B TRAPPC13 RTL6 FKBP7 RIPK2 ZNF225 TLR5 VILMIR PSPN LURAP1 PUDP DUSP11 TRIM7 GNAZ BPNT1 COIL NT5C3A NAA30 HOXB2 HK2 CFAP20DC HTR1F RPF1 KPNA5 AFDN-DT CCDC102A NARS2 MICAL1 HELLS DLEU7 ZNF138 ZNF865 CGREF1 NGRN ACVRL1 ATN1 TNFSF12 PPIC SULF1 C22orf39 FHL1 FGF12 FBXO34 TERF2 SMAD9 NAXD THSD4 ISYNA1 MGST2 CEP112 PDGFA BMP2 SH2D3C PIGBOS1 FRG1 DDX60 GLT8D1 SLC25A36 SLC35A1 COLEC12 AHSA1 GATA6 AVPI1 ICA1 NCK1 SERPINE2 VGLL4 CSGALNACT1 MRPL45 GLT8D2 MANBAL ABI3BP SLCO2A1 MBD6 NUDCD2 NXPE3 DHX29 EFEMP1 FAM98B ST7L C15orf39 CASP6 CLEC3B CREB5 TSPAN2 CDH11 SULF2 PPP1R11 RNF25 LANCL1 ASAP2 RNF8 ZNF205 GIPC1 PDE6D ZFAND3 CMKLR1 S1PR1 SCFD1 P3H1 NIFK GFOD1 PDLIM4 CCDC6 MRPS6 ZNF581 ZC3H3 EIF2A CARD10 B4GALT5 CHD3 BLOC1S4 C14orf119 ORC4 GAS6 TPCN2 ITGA5 FAM13B PNMA1 CD40 MBIP GRK5 CDH13 CNOT4 TUBB6 ABRAXAS2 SGMS2 JAM2 CCDC68 SGCE ELK1 LRP5 BTBD6 WDR11 METTL25 FYCO1 PEX10 IL15 CPNE3 CNOT10 CARD19 MAP7D3 LSM14B GORASP1 EHD4 NTN1 GINM1 VTA1 ADPRS ATP1B3 MISP3 PGAM1 UVRAG OTUB1 FADS3 HEXA THAP3 ZBTB1 CCDC97 SPPL3 MTF1 MAPK9 PPP1R16B LRRC8A NCSTN SHROOM4 ZNF518B LINC00667 BCAP29 MECOM PHAX NMD3 GTPBP8 EPHA2 EMP1 CD99L2 UBE2Q2 SNAPIN BCR NCAPD3 CD2BP2 C5orf24 BEX4 DNAJB4 SLC12A9 UBE2D1 ITPKC GMPS BOD1 TCEAL3 APPL1 FAM107A UNC45A SETD6 NTN4 UBTD2 PPP1R13B TTC9C TPRA1 SLC25A28 VPS35 NUDCD1 RFX1 SMIM20 SPNS1 ERLEC1 GABARAPL1 CHMP5 DDAH2 ECSCR BCAR3 DPEP2 LZTS2 SAP30BP CHTF8 ACBD3 PPIP5K2 FBLN2 TMED9 DNAAF9 ATP11A SGCB HOXA-AS2 APOL3 FAM43A PPIH GLS CCL28 GPR160 ING1 TMEM138 CEP89 THUMPD1 FAM167B REEP3 PXDN ZBTB25 DCTD MALL HEBP1 RBMS1 IL15RA FBXL7 DIPK1B MTCH1 UBR3 SNRNP35 GOLGA7 NT5C3B IER5L LINC01003 DAPK3 DAG1 CLDND1 GATAD2B WAC-AS1 CITED4 GET1 DNAJB12 COMMD2 AKR1C3 EIF4H KPNA3 SURF1 DDX1 DRG2 EHD2 SPTLC2 FBLIM1 PIAS3 RGS7BP KDELR2 LYRM4 PHF20 TCAIM PDP1 ATXN7L3B PXDC1 CTDSPL FAM131B-AS2 TMX4 PRMT5 PLCD1 RCN2 SPSB3 ARFIP1 SYPL1 KLHL42 TSPAN31 FLYWCH2 CIRSR PNP DPM2 NOSTRIN SMC3 MED30 SDC3 GALNT11 UTP15 CCDC71L RNF167 MED10 SH3GLB1 RSU1 SRFBP1 SCCPDH JOSD2 UBLCP1 MRPL32 GORASP2 PHF14 CRCP CD2AP ACBD6 MTMR14 ILF2 HIP1 AKT3 OTUD1 ZNF692 ZCCHC17 DPF2 DEF8 MOB2 PCAT19 RNF41 ZFR RARA TTF1 ZNF32 SMIM12 MECP2 VEZF1 CDPF1 GNL1 BTG2 CSRNP1 DNAJC19 TRIM25 MIR4435-2HG HSD17B1-AS1 AMOTL1 AGAP3 LAPTM4B SRPK2 MTF2 ETHE1 PJA2 ITM2A YRDC FAM168B MAP3K4 SLC39A7 MRPS22 VPS26B PMF1 JAGN1 SLC52A2 TCF3 EEFSEC CEP350 CNPY2 MRPS18C PIK3CA ABI1 AP1G2 TM2D1 ATF4 CHURC1 SVBP TLR3 PRPF38A GLCE VPS26A C8orf76 SEC63 OSBP COL1A2 RALA DVL1 RNF24 P4HTM ZNF875 RARS2 BFAR FOXC1 LIX1L ZC3H7A RAB1A ENC1 ZFHX3 PHF21A PNO1 THRAP3 C1QBP HMG20B PARD6G TFAM KCNMB4 PSMF1 ITLN1 SLC44A2 NYNRIN NUP93 RMND1 CCT2 ZNF462 MED4 EPSTI1 SPATS2 PIH1D1 MYCT1 DARS1 CERK RAD23A SMAP1 PSMA1 EIF4G3 MDK ELAC2 PDCD2 FHIP2A RAB5A THOC7 DUSP12 ZNF766 CAMLG MPPE1 SMAD7 DNAJA2 TOMM40 ARF4 FLOT2 XPA PRKX ACLY EAPP SLC35F6 CAMK1D ZNF467 ELOA EXOSC9 NDUFB5 FNTA DCTN6 FAM204A AIMP1 MTERF4 PA2G4 CERCAM BHLHE41 SRSF8 SORBS3 YWHAG DSE TMEM248 POLR2C NEDD9 UROD PNRC2 MTX1 THAP7-AS1 ITPRIP PXN B3GALT4 PPP2R3C EIF3D METTL9 DENND6A ATP2B1 VEZT SCNM1 ARL1 CCS MPDZ STRAP RTL8C BEST1 MAFG BRIX1 BECN1 PIGT CHMP3 MARK2 SCN1B ZDHHC21 C21orf91 PALM MTHFD2 FLI1 MRGBP MAP3K1 SAMD8 ABR COPZ1 CLPTM1 DNAL4 FAM117A VRK3 NECTIN2 PERP ELF1 RIOK2 GNPAT MYO1C OGDH PSMB5 SYBU TFPT MAPRE2 PRPF40B ZBTB8A TANK MPLKIP CAPN15 SLC35B1 CYB561A3 GIMAP2 VEGFB TPST1 PSIP1 SECISBP2L CCDC25 PRPF31 PPP1R7 MEF2C PIGX GNAQ B4GALT1 RC3H2 TARBP2 MFSD11 OSBPL8 ZNF562 SLC10A3 REST PIP4K2B C1orf21 AP5M1 RSPRY1 SSR3 RAB8B USP5 SCMH1 SERINC3 YTHDF3-DT PRKAA1 DESI2 OCIAD1 ARPP19 RNF19A AKT1 EMD SPPL2A WDR48 USP14 PIK3IP1 MBTPS1 SP1 VCL DYNC1I2 NUDT2 TCP1 TNFAIP8 FARSB PMM2 FNBP1 CERT1 ANAPC15 EML2 MIER1 PRPF6 ADCK2 MSH6 TSC22D4 CAPRIN1 LARS1 SHARPIN KCNAB2 EMCN UBR2 GTF2H2C IMPACT HSPH1 FAM98C TMEM106C CLPP UBE2R2 NAA35 TSR2 EIF1B CAPN1 TMEM9B GOLGA5 ANP32E POLR2G BCL7C KRAS PURA TIMM22 GDAP2 ICAM2 MMADHC MRPL18 SEMA3F XPR1 UBAC1 ARHGAP31 FAR1 NSMCE4A RRP1B SFT2D1 ERCC1 KIAA1143 ERN1 HUWE1 A4GALT SRP72 MRPL22 CRIPT CCDC82 PTPN18 TMEM167B ZNF706 LXN KCTD10 PARVB RAB7A SLC38A1 LRRC32 NUP43 CHD9 YPEL5 API5 TSC22D2 PPWD1 MYO6 LITAF MEIS2 UQCC3 WASHC5 C1orf52 TRAP1 MICU1 MORC3 SNRPC EXOC1 POSTN POLR1D USP47 SMARCA2 IDS DDX54 LAPTM4A PSMC2 RBM17 YIF1B ARHGAP29 DAXX GPN3 GLTP NOTCH4 F2R ZFPL1 SDR39U1 LYRM1 MEF2A ITPK1 DNASE2 ERLIN1 CDKN2AIPNL PINK1 C1orf122 STX5 RALBP1 CNOT6L NDUFS3 SMIM27 G3BP2 DDX23 NDUFAF3 ZDHHC12 RFTN1 CINP PIDD1 ZDHHC24 AAK1 TSPAN14 KMT2E INO80B NAB1 AQP1 PTGIS MRPL33 GHDC GPBP1L1 KIDINS220 VPS13A CPSF6 HNRNPM MVB12A PIR YIF1A RNF14 SUMO1 RAB11B MTPAP ZNF208 UBA6 MAPK1IP1L ADH5 IFNGR1 TIMP2 SCARB2 DNAJB14 PFDN1 SF3A3 NDUFS2 SMG7 SMAD6 PRKCI OTUD6B-AS1 MRPL55 PPP3CA HACL1 ACTR1B BTN3A2 CIAO1 EIF4A2 UQCRC2 VRK2 RNF13 NRIP1 LTBR OXLD1 ATG14 MOSMO SPTSSA CD58 EMC9 MYO9A FAM200B SPOUT1 RAB13 CHRAC1 INO80D LRRC23 SRPRA ADD1 SEC24C ESF1 DNAJA1 MFNG CAMTA1 SPIN1 FAM107B RAB5IF XPO7 VDAC3 ZNF292 CDC73 RAB3GAP1 WIPF2 CLSTN1 USP24 TCTA SDHAF1 HPS5 RAPGEF1 TNFRSF1A ATP11B PRDX3 MED8 SNX14 EXOSC7 SELENOS RNF20 PLXNB2 PRPF40A NR4A1 NCOA3 LMTK2 PIAS1 TSPAN3 PTDSS1 BAD WBP4 CCDC28A PACS2 MPG FSTL1 RBBP7 INF2 TSN CLIC2 KPNB1 HINT2 SNAPC5
|
10cc50a0-af80-4fa1-b668-893dd5c0113a
|
ff69f0ee-fef6-4895-9f48-6c64a68c8289
|
Single-Cell Atlas Of Human Pediatric Liver Reveals Age-Related Hepatic Gene Signatures
| null |
Background:
The liver plays a critical role in metabolism and immune function, yet the contributions of its heterogeneous cell types to these processes remain unclear. While most liver studies focus on adults, pediatric liver diseases often present differently, underscoring the need for age-specific research.
Methods:
To better understand cellular drivers of childhood liver diseases, we generated single-cell RNA-sequencing maps of the normal pediatric liver and used this map to examine disease-related populations in biopsies from pediatric patients with intestinal failure–associated liver disease (IFALD).
Results:
The normal pediatric liver map consists of 42,660 cells from 9 donors under 17 years of age. Compared with normal adult liver (26,372 cells; 7 donors, age 26–69), pediatric livers exhibited differences in myeloid populations. Specifically, pediatric Kupffer-like cells (MARCO+C1QA+VSIG4+) exhibited higher expression of immune activation genes, including CCL4, CCL3, and IL1B. In vitro stimulation confirmed more IL-1β-secreting myeloid cells in pediatric versus adult livers, supporting these findings. Using the pediatric atlas as a reference, we analyzed 3 IFALD biopsies (11,969 cells; 3 donors, under 9 y of age) and identified increased expression of fibrosis-associated genes (eg, LY96) in Kupffer-like cells. In addition, mesenchymal cells in IFALD showed fibrotic gene modules resembling adult liver cells more than healthy pediatric cells. These signatures, undetectable when comparing IFALD to adult liver alone, highlight the value of a pediatric map.
Conclusion:
Taken together, our healthy pediatric liver atlas reveals distinct age-related signatures and provides a background against which to interpret pediatric liver disease data.
|
Sonya MacParland
|
s.macparland@utoronto.ca
|
26
|
GRCh38
|
v92
|
Cell Ranger count v3.1.0
|
no
|
C82
|
26 years
|
unknown
|
unknown
|
False
|
5d7af9f2-45b2-4c68-b967-204db4d5f2cc
|
fresh
|
UBERON:0001117
|
HsapDv:0000120
|
surgical resection
|
tissue
|
na
|
enzymatic dissociation
|
unknown
|
unknown
|
19f2ef36-b787-4fe9-ad8e-f8c7b5a40983
|
cell
|
unknown
|
2b12dc3e-e1b6-49e8-804a-dbd24e59b042
|
EFO:0009922
|
3 prime tag
|
University of Toronto
|
nan
|
Illumina NovaSeq 6000 (EFO:0008637)
| false
|
CL:1000398
|
LSEC
|
PATO:0000461
|
PATO:0000384
| 10,257.311979
| 3,006
|
Healthy
|
Adult
| null | 0.209786
|
cell
| 0.308368
| 0.034558
| -0.10506
|
S
|
11
|
Adult Healthy
|
Perfusion
|
endothelial cell of hepatic sinusoid
|
10x 3' v3
|
normal
|
male
|
caudate lobe of liver
|
unknown
|
26-year-old stage
|
cMX}!DsL!=
|
TPT1 RPL13 RPL10 RPS18 EEF1A1 RPS14 RPS12 RPS8 RPL11 RPS19 RPL34 RPL32 RPLP1 VIM RPS3 RPS2 RPL3 RPS9 RPS27 B2M RPL19 RPL30 RPS28 RPS6 TMSB4X RPS4X RPS23 ID1 RPS27A RPS3A RPL41 RPL15 RPL29 RPL7A SPARCL1 RPL18A RPL13A RPL37A RPL9 RPL21 RPL37 RPS24 FTH1 RPLP2 RPL8 RPL27A RPS15 RPL28 HLA-E NACA RPL36 RPS13 RPL18 RPS11 RPL5 RPS15A RPS7 FTL IGFBP7 RPL24 RACK1 RPL35A RPL35 RPL12 ADIRF RPL23 RPL14 RPS16 FAU RPL39 RPS29 TM4SF1 RPL23A RPL10A RPL6 UBA52 RPS5 TMSB10 ID3 TXNIP RPS20 RPL26 VWF CD63 RPS25 CALM1 MGP RPLP0 PTMA RPL7 GAPDH UBC IFI27 S100A10 CLU RPL38 RPL22 HLA-B RPL31 CAVIN2 TOMM7 ITM2B IFITM3 RPS21 S100A6 MT-CO1 PTPRB CAV1 EPAS1 TIMP1 MYL6 HSP90AB1 MYL12A EEF1D GPX3 H3-3A RPL27 RPS26 SERF2 CTNNAL1 AQP1 HLA-C MT-ND5 SNCG C12orf57 CD81 RPS4Y1 IL6ST MYL12B GSTP1 PFDN5 RPSA F8 C7 SRP14 TIMP3 RPL36AL CPE IL33 CCL14 DDIT4 NOP53 BST2 LIFR FCGRT HLA-A EIF1 COX4I1 A2M YPEL3 ARL6IP5 WASF2 EID1 NPM1 BTF3 UQCRB RPL4 H3-3B IFITM2 ATP5F1E FAM107A SNHG7 CLEC14A CD9 PLAAT3 CAVIN1 TMEM59 SRPX SUMO2 TACC1 TNFSF10 CLDN5 MGST3 HNRNPK RPS10 NHERF2 SLC25A3 EGFL7 NFKBIA EEF2 GNAS RAC1 PPIA EEF1B2 AKAP19 RAMP2 TSC22D3 UXT SERPINB6 TUBB CSDE1 TPR HSPB1 ST13 JAK1 CNBP TUBA1B TRIR CIRBP ZBTB20 ARPC2 TMA7 EIF3K SLC25A6 TMBIM6 COX7C CFL1 OAZ1 TMT1A SOCS3 BGN LAPTM4B TGFBR3 PURA RAB13 CALCRL TMOD3 HYAL2 S100A16 CD151 PLAAT4 COMMD6 SDCBP PNRC1 COPS9 CCDC50 SEC62 TPM4 GNG5 OST4 GNAI2 TMEM219 HSPG2 KLF2 PRSS23 AHNAK PRDX1 TFPI TGM2 ATP5MG SELENOM BEX4 GUCY1A1 FKBP3 NRN1 SLC3A2 SERINC1 PNPLA2 GJA4 YBX3 LDHB PDLIM1 CYB5R3 SOX18 DSTN NPY1R RDX SNTB2 NR2F2 BMPR2 CRIP2 PSMB6 S100A13 LIMS2 SET TAGLN2 MPHOSPH8 FKBP1A SERP1 CLTC PCBP2 PRDX2 HADHA ANXA2 RABAC1 NPC2 NDUFB10 VAMP5 SCAND1 UQCRH PABPC1 ATP5MC2 IGFBP4 MZT2B HMGB1 PRRC2C SERPING1 SELENOP MT2A PLVAP VGLL4 SLCO2A1 RASSF9 GAS6 ITGA5 TMTC1 CDKN1C HDGFL3 PCMTD1 ECSCR PLPP1 PTPN12 GNA14 RUNX1T1 ERG SYPL1 CHURC1 RALA ACTN1 RBMS3 CCDC25 MTRF1L FBXO21 PAK2 PINK1 QSOX1 MRPL33 TIMP2 EIF4A2 TRAM1 LTC4S LARP7 EFNA1 FBL ARFGAP3 CALCOCO2 RBP1 STOM FLNB IKBIP FAM162A ZC3H15 PSMB7 GSN REEP5 SNRK IL1R1 PLPP3 ATP6V1G1 MORF4L1 FOXP1 CD59 APP PCBP1 EIF4G2 PRXL2A CCNI MLF2 OAZ2 FBXL15 SIVA1 CD99 NORAD DAD1 AR GTF2H5 RTF1 ATP5PO C11orf58 HSBP1 NUDT3 DYNLRB1 TMEM258 TRIM38 IGFBP2 LEPR ALDH2 ID2 PARK7 SMDT1 C19orf53 NDUFB1 RHOB GSTK1 ATP5IF1 SNRPD2 PSMB9 NDUFB7 GSTO1 PSMA7 YWHAB CCDC85B CLIC1 ATP5PF COX5B ARL6IP4 CHCHD2 NUCKS1 COX8A ETFB TSPO LAMTOR4 ENG ARPC3 GUK1 UBB COXFA4 PRDX6 RNASE1 ELOB GMFG CYBA GATA2 MGST2 SAV1 ZFYVE21 PMP22 ST8SIA6 EHD4 GSTM3 MECOM TCEAL3 APPL1 TCEAL9 DHX40 HEBP1 DIPK1B TPD52 LIMA1 DCTN2 ROCK2 ATXN3 ZNF22 TMEM14C LDB2 PCAT19 EFNB1 SF3B2 ZFR NPDC1 HEXB PJA2 COL8A1 MDFIC ATF4 TUSC2 SPATS2 TMEM100 CAMLG HNRNPA0 EAPP PLXDC2 PLAC9 FAM204A BMPER RABGAP1 PNRC2 MATN2 TJP1 ARL6IP1 EFNB2 NDUFC1 NECTIN2 PRKCH PRPF8 C1orf21 SERINC3 PHACTR2 KRAS ZNF706 LRATD2 ANXA4 UACA MEIS2 POSTN KDELR1 SDHA F2R SSB GIMAP8 TRIOBP RALBP1 KMT2E USP1 CKB IFNGR1 VDAC2 DENND10 PDCD4 WASL DNAJA1 NDRG2 TRMT112 TCF4 CCDC124 MARCKSL1 GABARAPL2 RBM8A LMO2 LSM3 DDX24 SRSF9 RAB2A LNPEP BLTP1 DUSP6 F11R UBE2B NDUFA10 DYNC1LI2 STAU1 TBCB YTHDF3 NUAK1 ATP1A1 POLE4 LAMTOR1 DNAJC8 ATP5F1C TM9SF3 LMNA ZNF148 UBE2D2 PTGES3 RB1CC1 RAB5C TST RTN3 EIF1AX TMEM205 SLC40A1 ELF2 PAIP2 SKP1 MAST4 BLCAP LRPAP1 METTL26 SRRM1 MRPS34 ANP32B MPC1 EIF3B SEPTIN7 UTRN TRAPPC2L EIF3L IGFBP3 YWHAE PARP14 SNX6 MRPL51 MARCKS ABLIM3 NDUFA1 EIF3F EIF3H DYNLL1 PSMC5 EMP2 RAN GNG11 TAMALIN DNAJC15 RNF7 CSNK1A1 GIMAP4 MRPL57 SAMHD1 SAT2 ADM SAP18 LAMP1 HMOX2 ERP29 NFIA EIF3E RBP7 VPS28 CIB1 HMGN1 MOB1A C12orf43 UBE2K ANP32A EIF5 CLTA ANKRD12 NDUFA12 KCNK6 NFATC3 SLC38A2 EIF3G YY1 CAPZB SQSTM1 PSMB3 SERBP1 ATP5MK RPS19BP1 MRPS21 ANAPC16 ALKBH7 WDR83OS PPP1R14B ZFP36L2 APLP2 UBXN1 EI24 SPTBN1 ADI1 COPE NDUFB9 GTF3C6 TPM3 BPTF TGOLN2 RHOA COX7A2 PPDPF ARPC5 PDK4 ATP6V0E1 PSME2 BTG1 LRRFIP1 MIDN ST6GAL1 DDT RPS27L POLR2L H2AZ1 HLA-DPB1 RAMP3 PRDX5 AP2S1 CEBPB HSP90AA1 YBX1 MT1M UQCRQ HINT1 AKAP9 EMP3 ARGLU1 PYCARD FKBP5 MT1X CTSD SH3BGRL3 ARHGEF3 NLRP1 KCTD5 LETR1 TTLL3 POU6F1 EVC2 NBEA SPACA6 HOXA4 FAM110D PPIC SULF1 CPXM2 OAT HEY1 HID1 CSGALNACT1 SINHCAF CBX7 CDH11 SULF2 MYOF SCFD1 VMA22 SCYL2 FXYD6 HES4 MFSD6 HAGH ZSCAN30 FAM124A LYST GBP4 OTUB1 IFT52 CBY1 MRPL9 PCNA DPYSL2 EMP1 C5orf24 PRKAR2B NTN4 TMEM43 LINC00839 CHST11 FERMT2 NUB1 GLS CTBP2 FAM167B REEP3 MIF4GD GOLGA7 CTSO APOBEC3C GNL3 TNS2 TP53I3 CAV2 SEC22C EIF4H IER3IP1 BBX CMSS1 THAP5 ZNF585A TES RYBP IFIH1 NOSTRIN SMC3 MAPK3 CCDC59 ARL4D CD2AP ILF2 TMEM230 TERF2IP TARS3 MOB2 ZNF580 BTG2 DNAJC19 MAP3K3 CCDC12 IPO5 MCAM CAMK1 SVBP NOB1 SYNPO RHOJ UGCG FOXC1 EDNRB RAB1A ZFHX3 RRAS DHRS7 RASIP1 TOMM22 PLSCR4 GNA11 PIH1D1 MYCT1 KMT2C FCHSD2 RAD23A COLEC11 HEG1 CIC DLGAP4 XPA RTP4 NDUFB5 DEXI MTERF4 CERCAM MRFAP1L1 GATA4 WWTR1 ZNF530 EIF3D METTL9 DDX18 HERPUD2 CLPTM1 KHDRBS1 MYO1C PSMB5 TOPORS CYYR1 STX6 RMP64 HDAC7 ATP11C COX7A1 NCOA1 ARL2 HHEX TSPAN7 HOXA5 FLOT1 PRKAA1 SELENOF PPP1CC FGD5-AS1 HSBP1L1 SNRPB2 EPHB4 RTRAF RAD21 CRBN LAP3 KCTD12 CMIP TNFAIP3 CERT1 RPRD2 UBE2J1 WAC ECI2 MMRN2 TNPO3 LEPROT RMND5B ISCU ZBTB38 HES1 RRAGC TCEA2 POLR2G CPSF2 BEX3 MRPL18 SRP72 CCDC82 CHMP2B POM121C ARL4A WNK1 PLEKHH3 CCPG1 RILPL2 SNRPC NOVA2 LAPTM4A PTK2 PSMB8 ERLIN1 NDUFS3 CFAP97 VAMP2 BAZ2B-AS1 NAB1 PTGIS HNRNPM CCNYL1 ETS2 SUMO1 RAB11B MTPAP ADH5 SETBP1 ARHGAP21 CDA PAFAH1B2 CSNK2A2 KRTCAP2 RNF13 PLP2 LAMP2 EPHX1 FAM200B CDKN2D OSMR ADD1 SCOC HMGN3 TSG101 MESD CEP57 RAB11A ANXA11 PRPF40A ATP5F1A CFDP1 TOMM20 TBL1XR1 SLC25A23 SREK1IP1 MAOA CAPZA2 CCDC66 SRSF7 GSK3A UFD1 TMEM126B CD34 ERH MRPL43 METAP2 GNB1 MYL6B TINAGL1 NPR1 PURB PPP1R14A BAG1 BZW1 KRT10 PTTG1IP GNB2 EIF2S2 SYNGR2 LRP10 DDX27 STX4 MAGOH ADRM1 PARP4 CASC3 RPL22L1 IRF2BP2 TIMP4 COL6A2 DUT XRCC5 SNX3 RWDD1 ZEB1 ERCC4 DEK IK THUMPD3-AS1 APEX1 GRAMD1A SLC23A2 BAX SETD2 TMEM203 G3BP1 YWHAH MAP3K13 CD320 SERPINH1 BUD31 COPRS SLFN11 LMO4 UBXN4 TNRC6B MRFAP1 TPST2 IFI16 EIF1AY CAPNS1 FBXL3 TNS1 CIZ1 RAB4A RAB14 ERGIC3 PNKD WSB1 PDIA6 COX7A2L RNF130 TRAK2 LYPLA1 REX1BD CCND3 KLF3 SCGB3A1 DHRS4L2 MORF4L2 TGFBR2 CLNS1A PSMB4 ROBO4 MAN1A1 BORCS7 ALDH1A1 RPL36A BRK1 SRSF5 FDPS MICOS10 IER2 FAM120A VPS29 GABPA HNRNPR ENY2 SNX5 LSM7 GTPBP6 AFF4 AUP1 SNRPF PAPOLA SEC23A ECE1 MTPN DNAJC1 EXOC5 PPP1CB RTN4 CD93 UBE3A H4C3 C1QTNF1 MPRIP CYLD SDF4 MMRN1 SELENOW TCEAL4 ECH1 NDUFS1 MXD4 PRKAR1A CDV3 AIP EIF4B GIMAP7 CHID1 MAP2K2 U2SURP ANXA1 TOMM70 SNHG8 TMEM256 QKI ARFGEF2 HP1BP3 POLR2E LPP DDX46 USP25 DUSP3 TBCA DDX3X GBP1 MBNL1 AKIRIN1 CAST MYL5 SUMO3 USP34 RNF187 KTN1 MYCBP2 YME1L1 HSPA8 NDEL1 LGALS3 UROS NDUFA2 GLUD1 CTSA AFDN TFEB GTF2F1 WTAP NFIC MRC1 SNF8 LDHA TKT SMAD2 INTS5 DNAJC4 DHX36 ABLIM1 AHCY ZFAS1 CGNL1 ABCA1 DYNLL2 GIGYF2 ENO1 CDC42 HNRNPDL LTBP3 POLR2J POMP FLNA HNRNPC NDUFS5 EIF3J PSMD8 JUNB SEC11C SPCS2 FAM136A NUDC PPIG POLR2I RIOK3 EIF4E2 MIF ACAT1 CANX BCAP31 RER1 SRSF3 CPEB4 ADAR PDLIM5 ASAH1 NTHL1 NME4 TMEM245 UBE2D3 TLN1 PTP4A2 RIPOR2 NAA38 RNASEH2C HNRNPA1 HMGB2 ZNF358 RBM3 MTDH SLC25A5 CARD16 PRDX4 LAMTOR2 AK4 GYPC N4BP2L2 SEC61B GGNBP2 TLE5 PPIB TPI1 ATOX1 ZNHIT1 COX6A1 EXT1 FXYD5 FIS1 DDX17 GCNT2 DST PNISR NDUFB2 CBR1 UBALD2 NDUFS6 ATP6V0B BRI3 NFIX CEBPD HNRNPA2B1 DDX5 HLA-DRB1 SOD1 GPX4 MTCH2 PRELID1 MMUT COX6B1 CAT NCL CISD3 EDF1 ANKRD11 SRGN SGTB JUND PEBP1 PTMS CTSB PRPF38B PSAP S100A11 LONP2 SSR4 BLVRB STAB1 RBM25 CD74 CFH BKGD PFN1 MT-ND1 GMIP ARL6IP6 WRAP53 KIF17 MCM6 ZMYM1 EXO5 ASRGL1 ADGRL1 FAM53A ZNF441 EDA ARMCX2 ARMCX1 IQUB CCDC122 DUSP11 SPATA24 ZFPM2 NPIPB2 TRPV1 SNCAIP PPP1R3F HABP4 LINC00092 VEGFC PCDHB15 ANKRD33B ZSCAN18 HOXB2 TUBG2 NDRG4 SLC39A10 LINC02884 SV2A CCP110 PCDH11Y CRNDE SLF1 RASGRF2 MIS12 NLGN2 NUDT10 SCARA3 VXN RMI2 CHMP4C HCG11 PPARG ANKRD49 TJAP1 CCSAP CPAP GNAL RTL10 FGF14-AS2 DOCK9-DT FAM241B VSTM4 SLC9A9 HOXA2 PRKAA2 NEURL2 CCZ1B TNFRSF10A SLC48A1 SDCBP2 RPP25 LOXL1-AS1 B4GAT1 NMNAT3 TPBG LINC00924 CUTC ZNF620 MDP1 KLHDC1 TRPC3 DOK5 SYCP2 DCUN1D5 ARHGAP20 MAP2K1 ALG10B MOK GPR161 CCDC181 HERC3 RAB2B CRADD PARPBP MIGA2 UXS1 RCHY1 MIR210HG CCZ1 TCEAL2 UMAD1 CENPO BBC3 ZBTB34 EXD2 RTN2 HIPK4 RAB4B SERGEF FKBP7 ATN1 CCDC92 TNFSF12 CFAP36 CCSER2 ZNF43 TCEAL8 ITPR1 ZNF667-AS1 CYTH2 NOS1 TBK1 SATB1 ROM1 NKAPD1 EIF2D CDKN1A EFNA5 EIF2B2 ACSM3 PXK LTBP4 NR2F2-AS1 ATG5 ANKRD46 IFTAP HS3ST1 BCAM AKIP1 VCAM1 GALNT15 SLC25A36 SEPTIN6 JAG1 EVA1C TMEM14A AHSA1 WAKMAR2 ICA1 PLK2 PAIP1 RIMOC1 RCOR1 UNC50 ERI3 NUDCD2 TAFAZZIN HEXD RBL2 NIBAN2 FAIM KLC1 CLEC3B TRIQK NDN CAMSAP2 GPD1L RNF216 SNX7 IPO11 KBTBD2 PNMT FER LRIG3 RNF185 LANCL1 THYN1 ZNF830 LRRC57 GIPC1 PCIF1 ZRSR2 ZNF423 TP53BP2 FGF2 C9orf85 PLD2 ILKAP AP3M2 CTSK ACKR3 PREX2 RAI14 GFOD1 CCDC6 NES FRMD6 PCDH17 ZNF581 MTREX NAV3 SELP SPINT2 LRRCC1 WASHC2A ZNF736 PEX1 TMOD2 DTD1 CAVIN3 ITGAV NR1H2 CARD10 C11orf68 TMEM68 SRF B4GALT5 DDX41 BLOC1S4 C14orf119 CARMIL1 TOR4A NXT1 CD40 RECQL CEP126 TRIM3 MORN2 ZNF704 CNOT4 GOLT1B ITPKB JAM2 PDRG1 CCDC68 SGCE CLOCK LRP5 ZNF354A HRCT1 LHFPL6 VANGL1 POLG2 CARD19 TMEM38A MRPS30 NOL7 KIF9 AASDHPPT OSER1 TCN2 SEPTIN10 NECTIN3 VTA1 MEAF6 ADPRS CSF1 PGAM1 PNPT1 ATL3 IQCK TXNDC12 AP3S1 PPP1R16B FLT4 PLSCR1 THUMPD3 TBC1D17 GNA12 CCDC174 SNHG32 ZNF518B NIN TBC1D9B PHAX EOGT SORT1 PHLDB1 RAMAC ARB2A C1D UBE2Q2 BCR ZCCHC9 NUDT19 ZNF503 RNF34 PLEKHF2 ING2 UBE2D1 STXBP6 BOD1 INO80C WIZ SLC35H1 BEND7 DRG1 SHISA3 CDC16 TPRKB GMNN DDR2 ERF PAPOLG XKR8 SPNS1 TXNDC15 PRIM1 GABARAPL1 AAMDC POGLUT3 ZNF281 RAB11FIP2 NFKBIL1 PYCR2 IGIP FEZ2 SACM1L IGFBP6 PRRC1 GPM6A CHTF8 ACBD3 CDC42EP1 VAMP3 TMED9 REXO2 TMOD1 ATP11A APOL3 ST6GALNAC3 FKBP14 ZNF304 DENND4C SLC4A1AP ING1 ST7 C12orf76 TPD52L1 ARMC8 NRF1 TMCO1 MALL SLC25A24 RAB30 IFT22 PRKRIP1 IER5L PODXL SEPTIN4 CHMP4B PPP1R8 APC YIPF3 DNAJC10 COL23A1 DAPK3 TBC1D5 ART4 CNRIP1 STIP1 WAC-AS1 IFI27L1 GET1 PRKDC COMMD2 LDLRAD3 USHBP1 INPP1 PCGF2 LIG1 SNX13 OMD KPNA3 SURF1 GATA2-AS1 MICAL2 DDX1 DYNLT3 NUDT21 TBC1D4 DMAP1 MTX3 EHD2 SPTLC2 EEF2K AMIGO2 PSMG2 H2AX KDELR2 ATF2 PLCXD3 PIEZO1 GNS ANGEL2 ATXN7L3B UBE2J2 SAMD12 TMX4 LIMS1 RCN2 PRKD3 SPSB3 INKA1 SNN FAM228B CIRSR KAT2A RAB29 SLC39A1 GCNT1 LIMCH1 SDC3 GALNT11 SETD3 RNF167 ASH2L MED10 SH3GLB1 ESAM SRFBP1 JOSD2 NSFL1C UBLCP1 RAD17 MRPL32 NDRG1 PHF14 UQCC5 ZNF680 ACBD6 RING1 LUZP1 RFK CDIPT AKT3 CDC42EP3 DHX9 DPF2 PPP4R2 SLFN5 PTPRM CFAP68 LINC00665 NOL4L SYCE1L CCDC47 FTO TSC22D1 RARA RAB22A VEZF1 PTEN JADE2 DAB2IP PRPSAP2 SMIM15 ARHGAP19 WDTC1 GNL1 CENPS MAP1LC3A CSRP1 PITPNC1 TERF1 CPNE2 PRPSAP1 AMOTL1 NRSN2 SYNJ2 SRR CNN3 ETHE1 CBX2 CTTN FAM168B MRPS22 CENPH JAGN1 SLC52A2 TRAPPC4 IL4R ELK3 CEP350 ASAP1 CDADC1 TMEM109 NEK9 TRNT1 FBH1 PSMA3 TM2D1 STK25 USP53 PRPF38A PITHD1 RAB9A TM9SF2 VPS26A SEC63 PDZD8 FIGN PDZRN4 EBPL DVL1 CEP170B FBXW2 KRABD4 DKK3 RARS2 CARD6 UNK POLR2M YES1 ARHGAP10 FGD5 HSF1 BFAR ZDHHC3 CX3CL1 FMNL2 PBXIP1 RRAGA POLR3D TUBB2A ZC3H7A SNRNP48 GLOD4 ABI2 ACTR10 AGPS GADD45A C1QBP GPD2 HMG20B TFAM KCNMB4 NYNRIN CBX6 NUP93 RMND1 KLHL2 CCT2 RANBP1 ATRAID LAMB2 RAD51C SHC1 UBE2E3 CCDC90B EPSTI1 TLE2 GBP3 USP33 CERK WDR47 RRP8 YIPF5 PSMD13 STOML2 SMAP1 WWC3 MPHOSPH10 FAM241A PSMA1 TEK EPM2AIP1 ERICH1 BTF3L4 GIT1 NCBP2AS2 EYA3 NFYC C11orf96 DNAJA2 XYLT2 DAB2 RIN2 ARF4 ACLY POLR1F CZIB PTPN14 MRPL48 CCNY PET117 CCL23 REV3L BLVRA TGFBRAP1 KLHL13 PA2G4 TCF7L1 PGM2 SORBS3 AFAP1L1 SEC24D POLR2C EXOC6 BROX RAPGEF2 TRIB2 HAT1 IMMP1L NHP2 ATP6V1E1 RAB10 PXN FKBP1B ATP2B1 VEZT DNASE1L1 YPEL2 VPS36 TNRC6C SMIM30 MSI2 MPDZ MED6 SWAP70 B3GAT3 STRAP RTL8C EPS8 TRAPPC10 UBE2Q1 FAM114A2 STX12 SCN1B NDUFA9 SNX17 ZDHHC21 PBX1 MMGT1 SIPA1 PSMG4 PIGK GIMAP1 STAG2 TNFRSF14 MTHFD2 MED21 CISD1 MAP3K1 CENPB EPC1 PERP ELF1 ACOT9 UBN2 PREPL RAPH1 PTPRA SYBU NME6 CNIH4 YKT6 AKR1B1 SKAP2 B3GALT6 PNKP MTURN VBP1 TBC1D15 RECK FAT4 GOSR1 ZSWIM5 TRAPPC6A H2AC6 MANBA TIMMDC1 GIMAP6 TMED4 ARSD PML ZBED5-AS1 MEF2C TIAL1 TBC1D12 XRRA1 FYTTD1 ZNF562 REST ASCC2 MOSPD2 POLR3K AEBP1 LINC00938 PLXNA1 P3H3 FLII UBE2L6 DESI2 FAM120AOS OCIAD1 IMP3 KEAP1 KBTBD7 ARPP19 RNF19A SMC6 NEDD4L SUN2 SPPL2A KRIT1 USP14 SOX7 CRNKL1 CMTM8 SP1 DHRS3 EMC4 TCP1 HILPDA COPS6 TMEM218 GOLGA3 LPCAT3 GOLIM4 BCAR1 ADGRL4 FNBP1 POM121 NME3 MIER1 ARHGAP27 EIF1AD TTC17 UBE2F HIF3A PPP1R3D EMCN UBR2 ZMYND11 HSPH1 TATDN2 ERAP1 COL6A1 UBE2R2 PPP2R5E MKNK2 EIF1B SPTLC1 TMEM9B DEPP1 LSM6 RRM2B BCL7C CUL3 IER5 IGBP1 ERCC1 PEDS1 CRELD1 RERE PTPN18 SP2 SLC7A6OS RALGAPA2 PSMB2 NOL10 MRPL16 PARVB SDCCAG8 LRRC32 CHD9 YPEL5 BTBD2 PPWD1 RSBN1 LITAF RHOD ZRANB1 CAMKK2 ITPR3 UQCC3 ASTN1 BBIP1 CLCN4 SPNS2 RHOU SLC4A2 DIS3 POLR1D SMARCA2 CDK19 ARHGAP29 FGFR1OP2 LINC00987 CDC14B INPP5B NUP153 NOTCH4 SMCR8 DNAJC3 STING1 GGA2 CDC27 TXNDC9 RNPC3 SF3A2 KIFC3 ZNF740 CNOT6L LRP11 COG6 DDX42 FOXK1 GPR108 NFE2L2 RBM28 LPCAT4 RFXANK RFTN1 BACH1 PIDD1 ZDHHC24 NAA40 PCMTD2 TSPAN14 LEMD2 HTRA2 SLU7 LEPROTL1 EBLN3P RHEB FAM199X LRRFIP2 SNAP23 ARMC5 ATR GAN
|
10cc50a0-af80-4fa1-b668-893dd5c0113a
|
ff69f0ee-fef6-4895-9f48-6c64a68c8289
|
Single-Cell Atlas Of Human Pediatric Liver Reveals Age-Related Hepatic Gene Signatures
| null |
Background:
The liver plays a critical role in metabolism and immune function, yet the contributions of its heterogeneous cell types to these processes remain unclear. While most liver studies focus on adults, pediatric liver diseases often present differently, underscoring the need for age-specific research.
Methods:
To better understand cellular drivers of childhood liver diseases, we generated single-cell RNA-sequencing maps of the normal pediatric liver and used this map to examine disease-related populations in biopsies from pediatric patients with intestinal failure–associated liver disease (IFALD).
Results:
The normal pediatric liver map consists of 42,660 cells from 9 donors under 17 years of age. Compared with normal adult liver (26,372 cells; 7 donors, age 26–69), pediatric livers exhibited differences in myeloid populations. Specifically, pediatric Kupffer-like cells (MARCO+C1QA+VSIG4+) exhibited higher expression of immune activation genes, including CCL4, CCL3, and IL1B. In vitro stimulation confirmed more IL-1β-secreting myeloid cells in pediatric versus adult livers, supporting these findings. Using the pediatric atlas as a reference, we analyzed 3 IFALD biopsies (11,969 cells; 3 donors, under 9 y of age) and identified increased expression of fibrosis-associated genes (eg, LY96) in Kupffer-like cells. In addition, mesenchymal cells in IFALD showed fibrotic gene modules resembling adult liver cells more than healthy pediatric cells. These signatures, undetectable when comparing IFALD to adult liver alone, highlight the value of a pediatric map.
Conclusion:
Taken together, our healthy pediatric liver atlas reveals distinct age-related signatures and provides a background against which to interpret pediatric liver disease data.
|
Sonya MacParland
|
s.macparland@utoronto.ca
|
26
|
GRCh38
|
v92
|
Cell Ranger count v3.1.0
|
no
|
C82
|
26 years
|
unknown
|
unknown
|
False
|
5d7af9f2-45b2-4c68-b967-204db4d5f2cc
|
fresh
|
UBERON:0001117
|
HsapDv:0000120
|
surgical resection
|
tissue
|
na
|
enzymatic dissociation
|
unknown
|
unknown
|
19f2ef36-b787-4fe9-ad8e-f8c7b5a40983
|
cell
|
unknown
|
2b12dc3e-e1b6-49e8-804a-dbd24e59b042
|
EFO:0009922
|
3 prime tag
|
University of Toronto
|
nan
|
Illumina NovaSeq 6000 (EFO:0008637)
| false
|
CL:0000113
|
Mono-Mac
|
PATO:0000461
|
PATO:0000384
| 7,680.203514
| 2,254
|
Healthy
|
Adult
| null | 0.325488
|
cell
| 4.804342
| -0.0698
| -0.044535
|
G1
|
1
|
Adult Healthy
|
Perfusion
|
mononuclear phagocyte
|
10x 3' v3
|
normal
|
male
|
caudate lobe of liver
|
unknown
|
26-year-old stage
|
s<`97gr``2
|
FTL MALAT1 S100A9 FTH1 MT-CO1 MT-CO3 TPT1 RPLP1 LYZ RPL13 CCL4 EEF1A1 RPL10 ACTB TMSB4X S100A6 RPS2 RPL41 S100A8 MT-ND1 NFKBIA S100A4 MT-CO2 RPS9 VIM RPL18A RPS14 PTMA RPS18 RPL28 GAPDH RPS15 RPL19 RPS8 RPS27 RPL34 TMSB10 RPS12 MT-ATP6 RPL37 RPL32 MT-ND4 SRGN RPL23 RPS24 RPL29 MT-ND2 RPL11 NEAT1 HSP90AA1 SH3BGRL3 RPL7 RPS3A RPS6 B2M RPS28 RPS19 EIF1 RPS7 RPLP2 RPL13A RACK1 RPS16 SAT1 S100A10 RPS4X UBA52 RPL27A RPS3 RPS11 RPL12 LGALS1 TYROBP RPS13 ACTG1 CST3 RPS25 RPS15A TSPO H3-3A OAZ1 RPL37A RPL30 CXCL8 FAU RPL15 RPL21 G0S2 DUSP1 RPL26 RPS20 RPL23A RPL10A RPS23 RPL3 RPL18 COX4I1 RPL39 PNRC1 CFL1 PFDN5 RPL27 NACA RPL5 RPL6 RPL35A RPL7A LAPTM5 ITGB2 SLC25A6 CTSS S100A12 RPLP0 PFN1 CYBA RPL9 RPL8 RPL36 RPS27A MT-ND3 PLIN2 ANXA1 GNAI2 JUNB MT-CYB RPL24 VCAN C1orf162 COTL1 CD163 ISG15 EEF2 AIF1 S100A11 HLA-C MYL6 ZEB2 HLA-DRA IER3 FCER1G CALM1 EEF1B2 RPS21 RPL38 SERF2 TALDO1 NFKBIZ ZFAS1 BTF3 ATP5MC2 BTG1 FKBP5 HLA-E RPL14 RPL35 MT-ND5 CYBB MAFB TNFAIP3 ETS2 AKAP13 HSPA1A MARCKS CDC42 ANXA2 PABPC1 BRI3 CEBPD CTSB HSP90AB1 TPM4 GSTP1 HMGB1 JUND PPIA CCL3 CES1 RPS5 ATP2B1 KCTD12 PLBD1 RILPL2 FPR1 PLEK TKT SPI1 PCBP1 DNAJA1 ARL4A CAST GADD45B UPP1 HIGD2A RBM3 CD14 YWHAB VAMP5 DNAJB1 ARPC3 TOMM7 H3-3B ATP5MG UQCR11 MYL12B CD74 PSAP ATP5F1E HLA-B RPL22 RPS29 CXCL3 NCF2 LIMS1 RNASET2 LYN GLIPR1 CD55 RETN ACTR3 PGK1 RBP7 LARP7 MNDA IL1B STXBP2 BCL2A1 CAP1 PTPRC ANKRD10 EIF3H EFHD2 TNFAIP6 SDCBP LCP1 KLF6 SUMO2 OAZ2 JAK1 ARPC5 MS4A6A LGALS3 TLN1 TPM3 POLR2J EIF5 GRN UBXN1 TYMP ID2 COX8A EIF3K BPTF UQCRB RPL4 YBX1 EDF1 EEF1D CTSD HLA-A RPSA RPL31 MT-ND4L CASP1 IGSF6 C5AR1 PLAUR SSH2 HCK STX11 PHACTR1 RNF144B SMAP2 OAS1 PLIN3 CFP REL CKAP4 RNH1 RAB11FIP1 PLEKHO1 IFI16 PRR13 TRABD DNAJB6 SERPINB1 CD68 CFD MGAT1 SSBP1 SEC11A NQO2 EWSR1 GLRX SERP1 GCC2 HNRNPA0 TAGLN2 UQCR10 ATP5MC3 ALDH2 NDUFS5 ATP6V0B MAP3K11 PYCARD TSC22D3 COX5A HNRNPA1 SPAG9 LST1 TCF25 SCAND1 PSMA7 H2AZ1 CLIC1 SEC61B SLC25A3 DDX17 NAMPT EMP3 GMFG ARL6IP4 CHCHD2 AHNAK SRSF11 COX7C UBC RPS26 SERPINA1 HP SAMSN1 HEXA MAP3K8 UBE2E1 POU2F2 SLC43A2 BACH1 TNFSF13B LTA4H MX2 TNFAIP2 RASSF2 MYD88 TLR2 CD44 FILIP1L TANK BIN2 LYL1 CELF2 MPP1 NABP1 CCDC88A DPYD MPEG1 LACTB FYB1 PAK2 ARHGAP30 EHD4 MEF2C YTHDF3 PPP1R7 GRB2 GLTP DAZAP2 PICALM WNK1 PPP1R10 UBE2R2 ATF3 BCL2L11 HIKESHI GNB1 PCMT1 CKLF CCAR1 TRIB1 MS4A7 PSMD1 LAMTOR1 WASF2 KAT7 ZFP36 SH3BGRL MSL3 SHTN1 CAMLG UBE2I MBD4 NUFIP2 HSPA5 VAPA LAMTOR5 THBS1 HLA-DPA1 UTRN CTSZ WSB1 ATP5F1C NACC2 PSMD7 HMGB2 IFI27L2 SRSF2 ENO1 ARPC1B CHD1 ACTR2 BSG HADHA SLC25A37 HM13 ATF6 FOS MSN ARF1 CEBPB MAP2K2 FCN1 EIF3E CYCS CORO1A HNRNPF CFLAR EID1 MPC1 LDHA SLC25A5 TUBA1A NPC2 IDH3A PSME1 NEDD8 VPS28 TGOLN2 SQSTM1 TPI1 RHOA ANKRD12 GGNBP2 KTN1 WDR83OS SSNA1 TRIR ZFP36L1 STAT3 ATP6V0E1 JUN OST4 UQCRH ATP5ME HNRNPA2B1 PPIG COX6A1 COX6C SFPQ AP2S1 NDUFB11 DDX5 COX6B1 INTS6 RPS4Y1 MYL12A PPDPF GNAS ATP5F1D POLR2L FCGRT PNN ACSL1 CD63 NCL DBI IFITM2 CARHSP1 LUC7L3 SSR4 CXCL2 TMT1A ZC3H13 ID1 VDR MCTP1 APAF1 AP4B1 GABARAP ZNF438 SERTAD2 SH3KBP1 C19orf38 PSTPIP2 MTF1 RIC1 HAVCR2 SOAT1 UBE2D1 BAZ1A PARVG PTPRE LILRB2 SINHCAF ARRDC4 ATP6V1A MARCHF1 EMILIN2 LYST PDE4B PSTPIP1 SNW1 ADK ITGAM MIS18BP1 PPIF CD83 CDKN1A DOCK8 RAB10 IRF8 MAML2 STAT1 PPTC7 CNOT4 DDX60L CCR1 IRAK3 CBFB TGFBI IFNGR2 EVI2B SYNGR1 IKZF1 AASDHPPT MARK2 TRIM25 PPP4R2 FOSL2 KMT2C DENND3 PTPN12 ZNF516 DMXL2 NFAM1 SP110 CASP4 CD36 OSBPL8 PLSCR1 C3AR1 CSTA MYO1G AGFG1 FGR ARHGAP24 RHOG FMNL1 RP2 MAP3K1 USP3 NCOA4 HOTAIRM1 CPPED1 CLK3 CAPG SH3GLB1 JAK2 GNAI3 NUP214 PIAS1 TMED9 ATF4 PNPT1 THRAP3 RAC2 NUB1 C1GALT1 HSPA4 CNPY3 OASL TRIM38 IL17RA SLA SMIM12 CD84 GINM1 DCTN2 COA6 ZNF330 ATP5F1A PLP2 UBQLN1 GNAQ NFE2L2 CAMKK2 STRAP ROCK1 RTRAF CARS2 MYO1F VDAC1 VSIR CCNY PRPF40A BNIP2 PPM1B RANBP2 RAB32 KHDRBS1 ETF1 MBD2 ARF6 ANKRD13D RIT1 ETV6 CLPTM1 FAM120AOS PSMA5 MAP3K2 BRD2 ARL6IP5 KMT2E ATP2B1-AS1 WASHC5 VPS36 TMPO NRAS VSIG4 MPLKIP CAPRIN1 ADAM17 APEX1 CERT1 TMEM230 RMND1 SUPT4H1 USP9X PPP1R12A TMEM167A TAPBP POLR2E MCL1 SNX3 CDKN2D WAC SLFN12 SP1 HECA ANXA7 SNRPD3 CACNA2D4 SF3B6 EPB41L4A-AS1 STK4 ARF4 CDC27 HCLS1 IDH3G SUPT16H XRCC5 ARHGAP26 CSF3R UTP11 CMC2 RAB2A OSTC IGBP1 TMEM160 SMIM3 THOC6 DNAJC7 THUMPD3-AS1 RFLNB GPSM3 MED13L NAA15 EIF2S2 PSMB4 SLC3A2 VMP1 MRPL58 PFDN4 PUM2 SDHD NOP10 HNRNPAB DDX21 TMBIM4 SSB SOCS3 ANAPC11 ANXA5 CSNK1A1 CREG1 DNTTIP2 GPATCH8 EIF4G2 CDKN1B CISD2 SWAP70 HSBP1 UBE3A TDRD7 CDV3 RSF1 BANF1 WTAP HNRNPA3 CCNI FBXL3 TXN2 NDUFB4 CCDC22 CAPZB MMP24OS ASH1L REX1BD SLC2A3 PFDN2 YME1L1 NBDY FRA10AC1 SSBP4 C1orf122 NADK ANP32B QSOX1 SNF8 ZNF148 ERP29 SRSF6 CSRNP1 UXT PITPNC1 POLR3GL COX7A2L ILF3 CENPX FAM241A RNF213 MYG1 PSMB7 SBDS PHF3 SEPTIN2 CSDE1 TRA2B ATP5F1B RPL17 SNRPB STARD7 APLP2 SET PSMB3 COPS9 ARPC4 RBX1 BUD31 HNRNPC COMMD6 ZNF207 ASAH1 VAMP8 GGA1 CXCR4 PSMD8 FRMD4B SYF2 JTB LMO2 CD37 GTF3C6 TTC3 NDUFC2 TCF4 SRSF3 ARPC2 TAF10 PUF60 SF3B5 LASP1 TMEM258 SAP18 SON PPP1R15A AQP9 H2AZ2 SLC38A10 MTDH SMDT1 PIM3 DHX36 BCL3 POMP IMP4 HLA-DRB1 ATP5MJ MARCHF6 STUB1 EIF4G1 SLC38A2 FXYD5 SELENOW CD99 HEBP2 TSR3 GABPB1-AS1 TNK2 SRP14 ZFP36L2 UGP2 HNRNPU ARHGDIB LPP MRPL11 CHD2 NDUFS6 DDT COX5B PPIB PIN1 FKBP2 LAMTOR4 TUBA1B BBLN PIK3R1 NOP53 BAZ1B DCAF10 RAC1 RBM39 IDH2 PLCG2 FIS1 ITM2B N4BP2L1 CHCHD10 UBE2S RPS27L SH3BP2 ETFB MZT2B HCST XBP1 DDIT4 ELOB RPL36AL TMEM176A FBXW5 TXNIP GUK1 SRSF4 PRRC2C PRDX6 DBF4B TIMP1 ORM2 MT-ATP8 BARD1 SEMA4D PIGF TVP23B SRCAP KLHL21 ATXN7L2 KCTD13 RAB3D RARA-AS1 DALRD3 IPO9-AS1 TTC21B FOSL1 KCTD5 GAPT EFNA4 TAF4 USP30 GPR132 KIAA0513 STK26 CGAS ANAPC10 PLEKHG2 NKD1 ST3GAL1-DT UCP3 NOTCH2NLA OLR1 TMEM201 C8orf58 P2RY8 ALKBH8 ZBTB24 PLEKHA2 FUCA1 CA11 RIPK2 CCDC136 ARFGEF3 HOXA9 UBXN2B RNF113A MPP7 CLEC18A ZNF738 RHBDF2 SRD5A3 STEAP4 KDM6A PLA2G4A UAP1L1 CUTC FLYWCH1 PTPN23-DT FCGR1A EVI2A ADAM9 RCOR1 IFI30 TNFSF12 CTNNBIP1 CD86 DLEU2 CHKA CLIP4 C15orf39 FOXN2 PLK3 SIPA1L2 PTAFR TP53BP2 FLT3 LINC00324 ZNF430 AP5B1 ARHGAP15 ANTXR2 RALGAPB TRAK1 ZNF581 ADAMTS2 GAS7 PNPLA8 RGS18 METRNL LGALS9 GOPC NR4A2 PGAM1 NIFK PTEN CTSC SLC7A7 TOPBP1 LRRC25 ELK1 SRF PAK1IP1 SIGLEC10 ARAP1 TRPS1 ZNF217 GNS RMP24 DRAM1 MR1 ABL1 MRPS5 CHD3 ZMYM4 USP32 RBBP8 SIRPB1 RECQL CRYBG3 FCHO2 HRH2 RABEP1 NOC3L WDR3 TMCC1 DOCK2 NPRL3 SLC6A6 CYTH2 DSE MBP SLC25A24 SIN3B DHX29 RIMOC1 THG1L ALOX5 SQOR HLA-DMA TAF2 OAS2 CYBC1 SLC49A3 ZNF335 PIP5K1A HEXB WAC-AS1 HK1 TLE4 NRM CRELD2 EPSTI1 MRPL45 ARHGAP27 KAT5 TAP1 NHSL1-AS1 FAR1 WDR47 DPYSL2 ATP6V1B2 SPTLC2 STK38L ABI1 G6PD TPP2 ZNF598 EZR MOSPD2 NRIP1 PTPN6 DNAJB12 KCNMB1 MTF2 ZNF354A MARVELD1 CALHM6 MDH1 REPIN1 FERMT3 CHMP4B SAMD9L RAB31 KIN RBMS1 FLII SH3GLB2 TPST1 GLT8D1 APOBEC3A COPS2 ITPR1 PLXNC1 NOL7 LYRM2 MAFG SURF1 HTATIP2 PHF21A C16orf87 ITPKB CLASRP MAP3K3 RNF44 UBE2Q2 ADAP2 LAIR1 PADI2 NAAA FRAT2 NCF4 MEF2A RCSD1 ITPK1 TXNDC12 DCTN4 FAM13A BTK IFNGR1 SULF2 PLEKHF2 GBF1 ST8SIA4 RBM12 FAM117B RIN3 AOAH AMPD2 SNX13 SIGLEC1 HCFC1 BCL2L12 ZNF710 LILRB3 PNP IMPDH1 DNAAF9 CARD8 SELPLG WASHC4 BASP1 SNX10 LTB4R ENOX2 THOC7 MSR1 DNAJC5 PTGS2 STAG2 CASP2 BTG3 BCAT1 ATP6V1D OGFR OGFRL1 CLEC7A QRSL1 HLA-DMB MXD1 IL10RA FNBP1 JAML RBPJ RAB8A NCSTN CHIC2 ARFIP1 ELF1 SLC17A5 LTBR PARN VASP SLC35F5 LAP3 ZC3H4 MFSD1 COPS4 AGO1 SSBP3 RNASEH2B KDM1B SH2B3 CPNE8 NDUFB5 TLE3 ELAC2 ZNF106 IQGAP1 MRPS30 DCAF12 BCCIP C12orf76 SAMHD1 SHKBP1 ZFR RNF169 NAGK POLR2A GASK1B DNAJC10 NUDT16 ACER3 WDR73 FNIP1 LIMK2 GCN1 ITGB3BP AHSA1 ANAPC15 ZFHX3 GRK6 ARHGAP9 PTRHD1 JOSD2 ALCAM PUM1 BIRC6 ZNG1B ADA2 UPRT IPO7 IFIT3 ZCCHC2 ZDHHC7 UBLCP1 CHCHD3 GIMAP1 IRF1 LCP2 IRAG1 TRAF7 IFI44 ARHGAP18 COMMD5 BACC1 MAP3K4 KYNU C4orf33 ZNHIT3 IRAK4 HAUS4 ERBIN FGD4 APH1A TSNAX BABAM2 TTC17 TOR3A HAUS6 SAP30BP MKNK1 RAB5IF EMB DUSP10 DMAP1 KLHL8 NDUFAF1 TRNT1 ZSWIM6 CRIPT RASGRP2 PSMA3 TAGAP RBM45 AMN1-AS1 GSPT1 UBE2L6 MCEMP1 CEMIP2 AHR CAPN2 SHOC2 RAB7A PSMB8 PADI4 CCNH RNF8 ARID2 CUX1 BLOC1S2 MON2 SMCR8 RNF13 THAP5 TXLNG PSMA1 JMJD1C VAV3 TAMM41 SLC75A1 RBSN FHL3 SLC26A11 CNN2 TNFRSF1B MTX1 FOXJ3 XYLT2 PSMG2 ZNF267 JDP2 CD300LF EIF3M TAOK3 ABRAXAS1 MRPL53 GSAP TOMM22 IFNAR2 TERF2IP CEP170 TIAL1 DDX1 PSMB8-AS1 RTF2 POLR2G KDELR2 PPARGC1B STING1 RAD21 TNFRSF14 MIEF1 DBNL TIMP2 RSU1 PPP1R18 MEGF9 DLD TIMM17B WDR1 AHCY ICE2 RNPEP DDB2 PSMF1 AP2B1 MAP1LC3B CDK7 RFXANK IRF7 LMO4 RSRP1 TP53 TMEM183A ACAP2 SGPP1 REST TMEM87A MRPL16 PSMB10 NOB1 CDC42EP3 NT5C2 IER5 ACLY RPL22L1 ZC3HAV1 CD302 DARS1 RIN2 VEZF1 PDCD6IP SPIDR UBA1 CDK19 DEK ZNF706 PRPSAP2 SLC39A4 CRNKL1 AP1S2 SELENOF ARID1B NIPSNAP3A CYTH1 CENPB FBXL5 DSN1 LRPPRC PIGX CDC5L CHMP3 CTSH ENTPD1 MARCHF7 IPCEF1 FZD1 EPC1 UBAP1 WARS1 DCAF7 EAF1 STK39 ANKRD44 CIDEB APOBEC3G KLHL5 SPOPL ZC3H15 MLX SMCHD1 TRIM27 CLCN3 IFI35 PPP1R9B FGL2 GALNT3 PML CCT2 G2E3 BTN3A1 ANO6 TESC PSMA4 USP22 RAPGEF1 CARD16 NIPBL IRS2 BCLAF1 EXOSC9 COPA C10orf143 DIAPH2 RTN3 UBR2 EIF3D EIF1B SPART ZNF397 EIF2AK4 UBE2J1 NCKIPSD RBM17 SFSWAP RBBP6 IARS2 HNRNPM LRRC59 AIDA NHP2 XRCC6 CS DHX40 ACAD9 CAMSAP2 ARHGAP45 ADD3 ATG3 PGD TAX1BP1 PAPOLA FDFT1 MIER1 B4GALT1 VPS26A LSM12 DEF6 LINC00667 WIPI2 CMTM7 PRKCE PPCS SEC14L1 MRPL24 MRPS18C SMG7 CBX3 SELL PARVB PEDS1 BTBD1 TFE3 COPS6 UCP2 LPCAT1 TYK2 RIC8A SIRPA MRPL2 SPAG7 CD48 CNP FAM135A LSM6 LPCAT3 SPSB3 COPS5 HNRNPH2 SNRPC PTGIR F8A1 PPP1R21 PSMB2 TERF1 SRSF1 FBXO11 CALHM2 VCL NDST2 RALBP1 XYLT1 PHB2 CD53 HECTD4 GLT1D1 KLF13 NKIRAS2 NAP1L1 AFTPH MAU2 CAAP1 SLU7 BNIP3L PAFAH1B1 NONO FAM200B IK TNS3 KXD1 LSP1 IL13RA1 ARMH1 NINJ1 SAMD8 ZSWIM7 EIF2AK1 METAP2 TRIP12 USB1 CLTC UBE2N NBR1 UBXN4 YBX3 PANK3 AKR1A1 PPP2R2A PKNOX1 CD93 PARP14 SDF2 NUP58 SENP6 USP16 ASAP1 FAM120A SLC39A7 R3HDM2 DLGAP4 LCOR CTDP1 GALC CNOT7 PKM MICOS10 TFRC MCU DMD HIPK3 NDUFS3 SMARCA5 MAFF IMPACT LPGAT1 CHST2 ZNF641 GDI2 EDEM3 TIMM17A SLCO3A1 RESF1 STAT6 AAK1 MRPL48 PET100 BAG1 MPG CRTAP TMEM50A AHCYL1 HEBP1 TMX4 ICAM1 MTFR1L MYCBP2 SFT2D2 IDS SDHA FKBP8 FUS PRDX3 XPO7 BTG2 NUDT5 MPZL1 CEP95 SLC25A11 LITAF RALA YPEL3 SIRT2 LSM7 CCAR2 ADIPOR1 UBE2V2 NME1 NSA2 CXCL16 DCAF1 STAT5A NINJ2 UBIAD1 NSD1 TAOK1 TBC1D9 KDM2A MKNK2 PCED1A CCDC71 PRMT2 BID BZW1 LRPAP1 AGTRAP EEA1 CTR9 CDC42SE2 KRTCAP2 TGFB1 SRRM1 PRKAG2 GSK3A ITGAE RAB5C SERTAD1 ITPA DAP SLC71A3P AFF4 CLEC2B TNFRSF1A COMMD1 SSR1 FNBP4 PTGES3 IQSEC1 DDB1 NR3C1 GOLPH3 DPP9 TCEA1 UBN1 DHX57 DYNLT3 SARS1 C6orf62 STX3 KDELR1 DGUOK SESN3 RAB34 STT3B EIF2B2 MAX TTF1 ADAM10 GADD45A TXNL1 SNRPF PAIP2 CCDC28A SRP68 SLFN5 PHIP STXBP5 RSL24D1 HMOX1 MAN1A2 DHDDS LEMD3 GCH1 SNX6 CUEDC2 NRGN CALCOCO2 UQCRFS1 ADD1 EPG5 LAPTM4A DSTYK PRDM2 SLC25A13 CIAO2B ESD DDX3X SKIL FAM3A ITSN2 KLHL24 PLEKHB2 ADRM1 MSRB1 COX11 ILK MIR142HG MED10 PPP4R3A GTF2B CUL1 MIEN1 GPBP1 NDUFA10 FRYL INTS6L TMEM203 ECHDC1 ELK3 TNKS2 SLC20A1 TTC1 FGD5-AS1 NT5C MRPS34 AKAP8 ATP9B SUMO1 IL1R2 SRSF5 SUCLG1 DHRS4 DIS3 TMEM179B MAPKAPK2 EIF3L TRMT112 UBE2L3 RASA3 VMAC NEFH TMEM181 TMEM161B CYC1 ABCE1 PFKFB3 CSNK1G2 ADGRE5 MLEC DDIT3 PDIA6 NTMT1 UBE2K ARID1A MLXIP SLC12A6 EIF3F KARS1 PHC2 RPL26L1 KPNA1 NFATC2IP ARL6IP1 FLVCR1 DDX49 ANKLE2 HNRNPR RTN4 NAXE KPNA4 ALG13 KIAA2013 TMEM256 MSL1 ZFAND5 HCFC1R1 CLEC16A SNRPN NDUFAB1 APEH NUP50 NCF1 REV3L RSRC2 CHMP4A PSMB6 TMEM248 ACTN4 UBL3 LSM8 VPS39 ZNF638 MOB2 RAB1B PABPN1 HLA-F IER2 BRK1 EIF4E2 MBNL1 NDUFAF3 NDUFV3 UBP1 CLINT1 KDM4B TAF15 HTT ERH SETD5 ACAA1 ZNF277 HECTD1 LSM3 TAF7 RAB21 NDUFA5 FLNA TYW3 HAPSTR1 SKP1 QKI LAMTOR2 NELFCD DPM1 BRWD1 TMOD3 FBP1 ECH1 MYDGF NPLOC4 CCT6A AFF1 SLAMF7 MAP4K4 ANP32A TMBIM1 LINC01943 NSD3 PTTG1IP DOCK4 OSM TGS1 GPN3 MRPS18B CTNNB1 TUT7 IFFO1 NDUFA2 ST6GALNAC3 HMGN2 OSGEP DDX10 ALAD MYLIP ZMIZ1 SNRPG WBP4 BOD1L1 EIF4B NAA25 LSM4 ATXN1 POLE4 CHP1 DCP1A STK40 EVA1B EP300 ISCU MACROH2A1 NEK7 ZKSCAN8 RBBP7 FOSB MLLT6 ATXN10 RASSF1 PRRC2A TSPAN31 TMEM59 YWHAZ EFCAB14 SEL1L GTPBP6 NUDT1 DDRGK1 PLXND1 HP1BP3 ITPRIP STRN4 SS18L1 TNFRSF14-AS1 GIMAP4 EIF1AX TMEM141 ATP6V0A1 JPT1 PSMB5 MRPL43 TOLLIP PNISR-AS1 RAF1 HSPA8 TMEM208 DCTN5 NEMF SERBP1 GLS WIZ OS9 KMT2A PSMC3IP PCNP SEC22C HEXIM1 PRKCSH RAP1B SLC30A1 PTP4A2 GFUS TFDP1 DCUN1D1 FKBP1A NDUFB1 RAB11A SENP5 ATP5PO BCL6 CNBP TUBA4A TUBGCP6 TAB3 SUGP2 UBE2D3 SERPINB9 CFAP97 EMC7 CSNK1D TRIM33 GPR108 ABTB1 VDAC3 UMPS WDR45B FAM174C EMC3 DDX6 YTHDF2 SS18L2 ZFYVE28 CHCHD1 NDUFA6 TMEM168 CHN2 PHB1 SH3BP5 NELFE DNPH1 CLN8 PSMC5 PPP2R1A DPM3 IFRD1 ATRX WHR1 COASY DYNC1H1 C11orf58 TIMM13 SH3RF3 CSTB FAM89B HEATR5B PURA GNG5 SF3B1 UBE2Z MAPK6 RAB27A ZDHHC8 RPS17 IDI1 EIF5B RBAK SPIN1 PCBP2 COX7B TMED5 PIAS4 EIF4EBP2 PSMD5 CASP7 CFAP68 PTGES2 MOCS2 AZI2 EIF3G CTNNBL1 PGLS TPR CHMP1A YAF2 HSD17B10 PABPC4 ATP2A2 HNRNPK VPS53 MIA3 RABEP2 GTF2H5 PLAC8 PHACTR4 PCBD2 CHSY1 ATP5MC1 BORCS7 MRPL34 ITPR2 NDUFA12 EHMT1 ARLN ALOX5AP NDUFS7 SLC61A1 HNRNPDL PSME2 IL4I1 KDM3B NPHP3 SLC25A25 RERE DOCK7 POLR2F ADA PSMC4 SLTM PTBP1 CDK6 LRCH3 EIF5A DCAF13 CDC37 GPR155-DT CALM2 ESYT2 LAMP1 NAA38
|
10cc50a0-af80-4fa1-b668-893dd5c0113a
|
ff69f0ee-fef6-4895-9f48-6c64a68c8289
|
Single-Cell Atlas Of Human Pediatric Liver Reveals Age-Related Hepatic Gene Signatures
| null |
Background:
The liver plays a critical role in metabolism and immune function, yet the contributions of its heterogeneous cell types to these processes remain unclear. While most liver studies focus on adults, pediatric liver diseases often present differently, underscoring the need for age-specific research.
Methods:
To better understand cellular drivers of childhood liver diseases, we generated single-cell RNA-sequencing maps of the normal pediatric liver and used this map to examine disease-related populations in biopsies from pediatric patients with intestinal failure–associated liver disease (IFALD).
Results:
The normal pediatric liver map consists of 42,660 cells from 9 donors under 17 years of age. Compared with normal adult liver (26,372 cells; 7 donors, age 26–69), pediatric livers exhibited differences in myeloid populations. Specifically, pediatric Kupffer-like cells (MARCO+C1QA+VSIG4+) exhibited higher expression of immune activation genes, including CCL4, CCL3, and IL1B. In vitro stimulation confirmed more IL-1β-secreting myeloid cells in pediatric versus adult livers, supporting these findings. Using the pediatric atlas as a reference, we analyzed 3 IFALD biopsies (11,969 cells; 3 donors, under 9 y of age) and identified increased expression of fibrosis-associated genes (eg, LY96) in Kupffer-like cells. In addition, mesenchymal cells in IFALD showed fibrotic gene modules resembling adult liver cells more than healthy pediatric cells. These signatures, undetectable when comparing IFALD to adult liver alone, highlight the value of a pediatric map.
Conclusion:
Taken together, our healthy pediatric liver atlas reveals distinct age-related signatures and provides a background against which to interpret pediatric liver disease data.
|
Sonya MacParland
|
s.macparland@utoronto.ca
|
26
|
GRCh38
|
v92
|
Cell Ranger count v3.1.0
|
no
|
C82
|
26 years
|
unknown
|
unknown
|
False
|
5d7af9f2-45b2-4c68-b967-204db4d5f2cc
|
fresh
|
UBERON:0001117
|
HsapDv:0000120
|
surgical resection
|
tissue
|
na
|
enzymatic dissociation
|
unknown
|
unknown
|
19f2ef36-b787-4fe9-ad8e-f8c7b5a40983
|
cell
|
unknown
|
2b12dc3e-e1b6-49e8-804a-dbd24e59b042
|
EFO:0009922
|
3 prime tag
|
University of Toronto
|
nan
|
Illumina NovaSeq 6000 (EFO:0008637)
| false
|
CL:0000091
|
KC Like
|
PATO:0000461
|
PATO:0000384
| 3,870.360534
| 1,518
|
Healthy
|
Adult
| 0.260914
| 0.384682
|
cell
| 9.547277
| -0.001344
| 0.000909
|
G2M
|
10
|
Adult Healthy
|
Perfusion
|
Kupffer cell
|
10x 3' v3
|
normal
|
male
|
caudate lobe of liver
|
unknown
|
26-year-old stage
|
5qt0yX@f!u
|
FTL MT-CO2 MALAT1 MT-CO1 FTH1 MT-CO3 MT-ATP6 B2M C1QA TMSB4X HMOX1 RPL13 MT-ND4 CST3 C1QB RPLP1 SAT1 TIMP1 MT-ND1 RPS12 NEAT1 C1QC RPS8 TMSB10 RPS19 CD163 SRGN CD63 MT-ND2 ACTB RPL11 HLA-DRB1 VIM RPL28 PSAP CYBA MT2A RPS15 EEF1A1 APOE MT-CYB TYROBP SH3BGRL3 RPS23 RPL18 TPT1 SLC40A1 CTSS CTSB FCER1G RPS24 RPL7A RPL12 RPS9 RPL13A RPS27 RPS2 RPL41 CD68 GRN JUNB NFKBIA CTSL HLA-A RPS6 RPL19 RPL18A RPS14 HLA-DRA MARCO PABPC1 AIF1 CD74 RPL23 RPS25 RPL39 RPS29 RPL27A RPL15 RPS27A RPS28 RPL29 CXCL3 C1orf162 PRDX1 GNAS CCL3 RPL7 RPL36 RPL34 RPS18 RPL10 APOC1 MAFB GLUL ASAH1 CEBPD RAC1 UBC HLA-B RPL30 RPL32 MT-ND3 MT-ND5 LIMS1 AXL MS4A7 FCGR3A LAPTM5 MRC1 RPL4 S100A11 CD81 RPL22 OAZ1 MYL6 PTMA RPLP0 CXCL2 RPL26 RPL5 RACK1 RPL14 RPL37 RPL37A RPL9 RPS11 RPS13 RPL3 RHOQ MSR1 DEK FOLR2 GAA RGS1 HLA-DPA1 CCNL1 ENO1 PNRC1 ARPC5 NPC2 DUSP1 SON PSME2 IER3 H3-3B YBX1 ACTG1 RPL36AL PPIA PFDN5 RPL38 CTSD EIF1 RPL24 SERF2 RPL35A RPS15A RPLP2 RPS3A RPL35 KCNAB2 HEXA CD83 LY86 IRF8 TCN2 BLVRA ADAP2 CD36 CD55 TIMP2 TPP1 PLEK GNB2 RIT1 AP1B1 FGL2 CARD16 VSIG4 ADAP1 UCP2 WAC NINJ1 ZFP36 PARP14 MCOLN1 LIPA PTPRC PLIN2 DDX21 CTSZ CSNK1A1 WSB1 MRPS34 ATP5PD EIF4A1 ZFAND5 LCP1 KLF6 LRP1 FOS GADD45B AKAP13 CEBPB CXCL8 CTNNB1 MS4A6A MARCKS CXCR4 SLC25A5 VDAC3 SAP18 PLTP PYCARD COX5A HLA-DPB1 ID2 DYNLRB1 PSMA7 JUN UGP2 HNRNPA2B1 HSPE1 GK NDUFA3 SGK1 ST13 SLC16A10 DDX5 BLVRB EEF2 SLC25A6 CALR HMGB1 CFL1 H3-3A EEF1D TXNIP HLA-C ATP5F1E SSR4 RPL27 S100A6 NACA RPS20 NRP2 CCL4 RPL6 RPL10A RPS4X FAU SELENOP MT-ATP8 EIF4A3 BRCA2 KCNJ2 OSCAR ARHGAP4 TLR1 IGSF6 SIGLEC14 PTPRE GAS7 PDE4B XRN2 C5AR1 RGL1 PLAUR APBB1IP MGME1 CSGALNACT2 KIAA0930 GPCPD1 CCR1 ATP6V1B2 CYBB SRGAP2 RASSF5 GNG2 MMP19 RASSF2 EVI2B SURF1 DENND1B LAIR1 CSF1R ENOPH1 KCTD12 DMXL2 BASP1 SNX10 RNASEK RBPJ WDR26 NCOA4 STX7 IQGAP1 M6PR SNX17 ATP6AP1 TTYH3 ADA2 PAK2 LCP2 MS4A4A RGS2 EPS8 SLC7A8 SLA ATG12 SNX11 JDP2 WIPF1 TNFRSF14 ZNF655 PICALM PLAA ERP44 RNASE6 DDAH2 REL RAB32 AP1S2 MLX PIP4K2A NIPBL EIF3D ZEB2 VMO1 ARIH2 RBP7 TAX1BP1 MTIF3 B4GALT1 SEC14L1 MCL1 SNX3 SPI1 TBC1D15 GNA13 LAMTOR1 FBXO11 LAMP2 HLA-DQB1 TOPORS HCLS1 PCBP1 TMEM160 CDC42SE1 HSPA5 AHCYL1 UBE2V2 PPP6R3 PHACTR2 RAB5C CLEC2B EPS15 ARRDC3 ADAM10 EIF4G2 CDC73 PLEKHB2 CDV3 SNX9 ARPC1B CD5L SSBP4 DNAJC8 RNF213 NFKBIZ RSBN1L TAF1D ATP1B1 CHLSN HMGN2 LGMN BOD1L1 RTL8A UQCR10 RND3 UBALD2 LGALS3 SNHG7 VAMP8 CMTM6 STAT2 CFLAR ATP6V1F ANKH DYNLL1 STX4 SYF2 GANAB CLN8 TNFSF10 GNG5 ARPC2 COX7B EIF3G SF1 RXRA PABPC4 ABCA1 KMT2D CD14 TPI1 BRD4 POMP ELAVL1 PSMB9 EIF3A CHD4 SEC62 ZFP36L1 CLIC1 SEC61B DENND2B ATP6V0E1 AURKAIP1 UQCRH COX8A SRP14 EIF3K ARHGDIB NAMPT TMA7 BTF3 PDK4 BLCAP ITGB2 AP2S1 ATP5MC2 NPM1 NOP53 FKBP5 UQCRB AHNAK HSP90AA1 HSP90AB1 PUS1 RBM39 CD52 UQCR11 GOLGA4 GOLGB1 FIS1 ITM2B CHCHD10 ATP5F1D POLR2L FCGRT HSP90B1 SRSF11 EDF1 HCST DDIT4 UBB ELL2 GUK1 S100A10 RPS21 IFITM3 RRBP1 CDH5 RPSA ZBTB20 MT1X GAPDH RPS7 RPL8 ENG RPS5 RPL21 ORM1 NEIL1-AS1 SLC48A1 PILRA DNAAF4 PRR11 SIRPD ELMOD2 ASPHD2 FUCA1 RIPK1 PHKG1 SUMO4 HERC3 HARBI1 FAM78A TRIM39 CYP2U1 PARAIL CCL3L3 ADRB2 VPS26C MPPED2 TTK NAT8L CCRL2 PLA2G15 KCTD5 P2RX7 SLC15A2 NDST3 PTPRO TSTD2 KIF9-AS1 ATG7 PHTF1 MASTL SLC39A10 TRIM6 TFEC CSF2RA CMKLR1 SLC1A3 DOCK10 INPP4A SATB1 CHKA CWC22 MTMR3 IL27RA FOXN2 RNF4 RNF135 CCNG2 TP53BP2 UBE2D1 STAC3 ZFX BAZ1A VCAM1 MAP3K8 LILRB2 KAT2B BEST1 ATP6V1A CLEC4E CYRIA SDC3 CAMK2G NR4A2 PGAM1 PTEN CTSC SLC7A7 OAS3 ARAP1 ZCCHC10 MANBA MTREX DAAM2 ABL1 ING3 ACVRL1 ZMYM4 MIS18BP1 STT3A DOCK2 APOBEC3C TRPV2 VPS35 CYB5R1 HLA-DMA MAML2 BACH1 SEC24D TBXAS1 TCEAL8 C2orf68 TLE4 STAT1 IL10 TNFSF13B DNTTIP1 LILRB4 FMNL2 ARRB1 CORO7 DPYSL2 PELATON TRIM22 IL18 PPT1 SART1 GPNMB ITGAV CPVL TNFAIP2 FAM210A FCGR1BP CHMP4B SCAMP2 SAMD9L PHF20 CEP350 MYD88 FMN1 AKIRIN2 FKBP15 SKAP2 AASDHPPT TMEM170A ATP2B1 SCIMP SGK3 SLC8A1 NAAA TLR2 PRKCB CDC16 BTK IFNGR1 FILIP1L CYRIB RBM12 PLEKHO2 FAM117B RIN3 AOAH PGGT1B PELI1 SP110 RTCA SCML1 BTF3L4 CARD8 CD244 ZNF503 ASCC2 STAG2 ABRAXAS2 ATP6V1D LETMD1 NMI OGFRL1 RGS10 GALNT1 DNASE2 SACM1L NCKAP1L TENT4B ABR FNBP1 SLC8B1 CBX4 BIN2 TNFRSF11A ZFY RNASET2 MYSM1 ELF1 MPP1 THEMIS2 MTR QARS1 LYN GUF1 RYBP AGO1 SH2B3 CNIH4 PLXNB2 NABP1 RRM2B ARCN1 USP33 MCTS1 C12orf76 SAMHD1 UTP3 NAGK C1orf174 SMAP2 UNC50 MPEG1 MAK16 SNX24 CDPF1 ANAPC15 ZFHX3 CCDC59 HPS1 ARHGEF2 MRPS35 PUM1 JAK2 ATP6AP2 ELOA FYB1 ZC3H7A QRICH1 LY96 ZCCHC2 FES CYFIP1 PIAS1 MAP7D1 TMED9 LHFPL2 DEDD2 ACTL6A BACC1 PLEKHM2 CCT5 TRPV4 SMNDC1 ZNF609 SPG21 ZFYVE16 PYCR2 ACP2 DRAM2 STXBP3 PIK3AP1 REV1 PTK2B SYS1 FXR1 RALB EPB41L3 TRMT13 PSMA3 COX19 NPL TEP1 TFAM SMC3 HNMT PSMB8 PRNP SCYL3 IL17RA ZDHHC24 CREM CSE1L STK24 RNF13 CD84 JMJD1C PPP1R7 GAPVD1 ZNF330 PEX3 TOP1 ATP6V0D1 NLRC5 TNFRSF1B FPR1 NFE2L2 NANS GAB2 TAOK3 TENT2 VPS4B GGA3 GBP2 OTUD4 MAP3K7 TIAL1 POLR2G SCARB2 CARS2 CTNNA1 MYO1F DBNL ZFYVE26 CAPZA1 UTY ARSB GNB4 DAZAP2 PPP2CA STX6 AREL1 MAP1LC3B MAP2K4 PNRC2 NR4A3 LMO4 ACAP2 SVBP COMMD9 NFKBID STK10 TMEM87A ACBD6 SNRPB2 CLOCK SLC15A3 WNK1 DICER1 SMIM30 ARRB2 PDCD6IP SLC66A3 ARID1B CNOT2 NHS MAT2A DENND5A HYCC1 FTO CDC5L NSL1 TCP11L1 DYNC1I2 IFT25 AKR1B1 IQGAP2 ALG3 NCOA1 WDFY2 WARS1 HMGXB4 DCAF7 CCT8 RMI1 TCTA HERPUD1 SMCHD1 PA2G4 REEP5 PTPN2 ZCCHC17 PLBD2 SMAP1 ATP2B1-AS1 SLFN11 KIDINS220 NSUN2 DIP2A BCLAF1 RAB5A COPA ASB6 UBR2 IFT74 EIF1B ZDHHC6 TOR1AIP1 RPA1 NCOA3 HNRNPM TKT DUSP6 USO1 GALNT2 ATG3 TMEM14C LARP7 PUS7L KCNMA1 PIK3IP1 CHTF8 CEP63 TNFAIP3 SYAP1 CBX3 TMEM51 EMC4 SP2 SMS RNF168 PSMD1 PCM1 VPS13C RNF149 PIGC ARPIN NDUFC1 CYTIP LPCAT3 MEPCE RAB11FIP1 ZNF787 TXNRD1 SF3B6 HPS5 IFI16 ETS2 SAMD4B ZNF317 TTC32 SP100 HECTD4 KLF13 IL1B BCAP29 SH3TC1 RAB6A MFGE8 SLU7 EXOSC6 P4HA1 BNIP3L LYVE1 MECP2 PPP3CA DNAJC9 IK IL13RA1 UCHL3 SH3BGRL PXN METAP2 SHTN1 CLTC UBE2N TRAF5 DNAJA1 ZNF580 SETX GABARAPL1 AKR1A1 PPP2R2A UBE2I CD93 LRRC58 PMPCB PFDN1 EZH1 SENP6 BCL7B RAB2A LACC1 ASAP1 FGD6 POGK PPP3R1 OSTC IGBP1 KDM6B SRP54 CNOT7 MAFF LPGAT1 SREK1IP1 EDEM3 MFN1 TIMM17A SUN2 NUFIP2 PET100 GPSM3 NFKB1 HNRNPUL1 MFNG NAA15 OGA DENR ICAM1 G3BP1 MYCBP2 PARP1 SFT2D2 CCPG1 MAD1L1 LITAF COMT SLC3A2 LAMTOR5 SETD2 MTSS1 CTCF SERPINB1 KPNB1 CXCL16 FBXW11 TBC1D16 TAOK1 ATP6V1G1 KDM2A MKNK2 HLA-DQA1 EEA1 CTR9 TMCC3 TRAM1 TGFB1 SRRM1 MMD MKLN1 FAM114A2 SDHAF2 SNX14 AFF4 TMBIM4 SOCS3 CSK FNBP4 NDUFA1 EIF3H PTGES3 STX8 ANXA5 DDX3Y DDB1 NR3C1 TCEA1 XPA MGAT1 C8orf33 EPM2AIP1 GOLM2 AGPAT1 GPBP1L1 CETP DNAJB14 RAB34 MAX ACTN1 YIPF3 ATP5F1C LARP1 ICAM2 ETNK1 PCF11 FGFR1OP2 PHIP PPP1CB SLC35A3 NDUFB6 MED8 RUFY1 DERL2 SND1 SNX6 CCND3 PRDM2 CIAO2B RBCK1 HIF1A CKS2 GBP1 ITSN2 ARL4A PELP1 ADRM1 BANF1 TNFAIP6 IFI27L2 GTF2B HNRNPD MIEN1 LIMD2 SRSF2 HNRNPA3 GOLIM4 RHOT2 PACC1 FBL UGCG DNAJC19 SRP19 SDCBP MORF4L1 RABL6 H1-10 GPR155 DYNLT1 NDUFB4 SUMO1 CCDC22 CAPZB RAD23B SRSF5 GSR TBCB MAPKAPK2 RB1CC1 EIF3L HEATR1 UBE2L3 CYC1 SDF4 RBM33 ZDHHC21 VCP PFKFB3 USF2 PDIA6 BLTP3A RFC1 FURIN TASOR KARS1 ACTR2 ACTR6 BTAF1 KPNA1 C1orf122 RTN4 KIAA2013 TMEM30A ADM DYNC1LI2 BSG PRKAR1A YWHAH SIAH1 NCF1 PSMB6 TSN ZNF619 TAGLN2 ATF6B TCF7L2 OAZ2 KDM3A EGR1 SRSF7 TEN1 SPIRE1 CCT7 UHMK1 RASA2 MAPK1IP1L PIP4K2B CEP15 ARID4B HECTD1 RAB21 QKI LAMTOR2 TOMM5 BCL7C MSN H2AJ NECAB3 UBA7 FEM1B GTF2H1 FBXL20 KLF9 PTTG1IP GSN ZMAT5 VEGFB H2AC20 MRPS18B ATP1A1 TRA2B STARD5 COPG1 YIF1A ESF1 RNF181 SLC35B2 CEP164 TMEM126B EIF4B ATXN1 BIRC3 EIF3E ADCK2 SRI RNF115 DCP1A EVA1B EP300 MACROH2A1 SEPTIN7 ARL4C MYH9 TSPAN31 CTDSP1 COPE SEL1L SPTY2D1 VOPP1 NUDT1 ARPC4 VPS4A ZZZ3 ITGA9 ODC1 GIMAP7 RBX1 BUD31 CDC42 PI4KA CCDC146 JPT1 ZFAS1 SAT2 STAG1 SUMF2 NSMF RNF10 HSPA8 MRPL22 SERBP1 OS9 MVB12A GGA1 ILF3-DT TNRC18 WWP1 ACP1 ABHD8 ARID4A ACTR1A ALDH2 SS18 CNIH1 MPC1 FRMD4B CLK1 SUGP2 NDUFS5 UBE2D3 ATP6V0B EPB41L2 KCMF1 NDFIP1 PMM1 ZFAND6 KRT10 NCKAP5 DDX6 CHCHD1 NDUFA6 CETN2 IKBIP EXOC7 COTL1 PSMC5 LMO2 GTF3C6 MXD4 DECR1 HIC2 NDUFC2 TCF4 CHRAC1 GNAI2 MAPK6 SUMO3 CNST SUB1 POLR2J GSTK1 SLC30A5 STAU1 SAFB AZI2 EIF5 ZBED4 AKAP11 KDM5B LASP1 PGLS XAF1 VPS28 BLMH SNHG8 PPP1R15A CYB5R3 SMARCD2 HNRNPK FDXR MADD TYW1 TRIO MIA3 GTF2H5 AKIRIN1 PLAC8 MAGED2 AGPAT5 INO80D RUBCNL KLHDC4 HNRNPDL MRPS12 TOR2A KDM3B SQSTM1 MTDH CHML RHOA PSMC4 SLTM CDK6 RBM23 MOAP1 SNHG12 SNRPD1 LAMP1 NT5DC1 NAA38 CIZ1 MTRFR NDUFA13 NUBP2 ACCS HOOK3 WDR83OS SPAG9 TYMP LST1 CMPK1 MRPS11 DNAAF2 TMEM109 VEZT EPN1 SEC61A1 TMX3 TXNDC17 TRIR SCAND1 NDUFA11 PRKAR2A DCTN3 NFX1 PLVAP ATP5MK SLC38A2 CALM3 NPC1 ZBTB7A EEF2K MAN1B1 CD82 HSD17B12 ARL5A SMARCC2 FDX1 NTAN1 GGCX RNASEH2C OST4 RDX ITGB1 KANSL1L-AS1 RPS10 HNRNPU NUCB1 HNRNPH1 FAM20C ACIN1 SALL1 BRI3 ATP5ME COX7A2 N4BP2L2 BCAP31 DDX17 COG4 ZNF160 EMP3 VAMP5 SLC35E1 SPCS1 UBL5 VPS72 ARAF GSTO1 XRCC1 ROMO1 ZNHIT1 COX5B POP5 TMEM115 PIGP FABP5 CUTA ARPC3 PRELID1 LAMTOR4 NATD1 TRIM44 TMEM219 TSPO ITSN1 DYNLL2 HIVEP1 NDUFB10 PATL2 TRIM69 ABHD2 GADD45GIP1 BBLN CHCHD2 GTF2H2 SPG7 NDUFV2 RPS6KB2 TUBB4B MZT2A MIDN CTNND1 TRIP10 PLEC COX6B1 SMIM19 INTS6 ATP5PF GTPBP1 NASP GPX4 CLIC4 DHRS3 MAF TPM4 ZNF704 RPS4Y1 TMEM259 TTC28 TLE5 PRDX5 SLCO2B1 MYL12A XIAP RASGEF1B PPDPF ZBTB10 PSMG1 UBE2S NHSL1 CXXC5 PNN ETFB SPEN MGMT YIPF2 MYL12B CCDC85B FAHD2A SRRM2 TMBIM6 LMF2 DBI FPGS NUCKS1 JUND HGH1 ALDH1A1 TCAF1 SHMT2 TCEAL4 COX7C COXFA4 PRDX4 LGALS1 INVS SNTB2 TP53I13 USP42 PGRMC2 ZNF629 GIGYF1 ANKRD36C OPA3 COXFA4L3 EEF1B2 PTP4A1 HINT1 SLC19A2 KLHDC8B PRDX6 RHOC DST SCAPER MSH2 WWC2 SLC30A4 PIR VEGFA ZKSCAN1 GATM RBM25 COX4I1 DENND5B PFN1 SHFL TSTD1 PAXIP1-DT DNAJA4 RPL23A PLPP3 AFMID DUSP2 CTTN RPS16 TAGLN IL15RA ANOS1 UBA52 RPS3 EEIG1 SERPING1 CTNNAL1 STK36 S100A9 BHMT NUPR1 SDS MMP15 CRHBP APOA2 MT-ND4L SAA1 ALB MT-ND6 LINC02571 RSPH3 RNF217 EZR NKAIN2 ZNF76 DLL1 EZR-AS1 CEP85L SCUBE3-AS1 MICA-AS1 RNF217-AS1 MICB SCUBE3 LINC02901 MICA LINC01149 ZUP1 CDSN PDCD2 PSORS1C2 AK9 FAM162B CCHCR1 SYTL3 TCF19 POU5F1 FIG4 RSPH4A HCG27 FANCE PPARD TBP KPNA5 PSMB1 WASF1 DEF6 CDC40 FAM120B GPR6 RPS10-NUDT3 NUDT3 FNDC1 RWDD1 SMIM29 AMD1 HMGA1 NFKBIL1 GRM4 LINC00574 LINC02529 DDX39B LINC01016 MLN LTA TNF LEMD2 LTB IP6K3 LINC00242 UQCC2 NCR3 ITPR3 SOD2 TRDN-AS1 TAGAP-AS1 MCCD1 METTL24 DDO TCP11 ANKS1A TRDN TAF11 SLC22A16 SNRPC ATP6V1G2 TAGAP ILRUN-AS1 ILRUN SPDEF CLVS2 SMPDL3A CDK19 PACSIN1 DDX39B-AS1 FNDC1-AS1 LINC01624 ATP6V1G2-DDX39B ARMC2-AS1 SRSF3 SESN1 NOX3 CEP57L1 PRKAR1B-AS1 STK38 PRKAR1B-AS2 LINC00243 KCTD20 CD164 TMEM181 PDGFA-DT PDGFA PXT1 ETV7-AS1 ARID1B-AS1 FOXL3 ETV7 BNIP5 PNPLA1 LINC02570 PPIL6 PRKAR1B DCBLD1 TUBB MTCH1 PI16 GET4 FLOT1 FOXO3 C6orf89 PPIL1 LINC00222 GOPC DNAAF5 IER3-AS1 SUN1 ROS1 VGLL2 RAB44 ARMC2 CDKN1A HEY2 HCG20 CLDN20 PANDAR CPNE5 MUC21 HDDC2 CLPS CLPSL1 CLPSL2 SNX9-AS1 TPD52L1 ARMC12 SYNJ2 MUC22 SERAC1 SMPD2 LINC03015 HCG22 C6orf15 TULP4 PSORS1C1 LINC03135 ZBTB24 TULP1 TEAD3 PLN ZBTB24-DT SLC35F1 NUS1 BRPF3 BRPF3-AS1 TMEM242 DDR1-DT LINC02523 HEY2-AS1 LINC03014 DDR1 RFX6 MAPK13 ZDHHC14 TMEM242-DT MAPK14 MICAL1 VARS2 SFTA2 MUCL3 GPRC6A SLC26A8 SRPK1 LHFPL5 HCG21 GTF2H4 COL10A1 C4B C4B-AS1 PACRG PACRG-AS2 CYP21A2 TNXB HLA-DOA SERINC1 FAM229B TCP10L3 CALHM4 PACRG-AS3 BRD2 TTLL2 PACRG-AS1 ASF1A CAHM FKBPL HLA-DMB PRRT1 LAMA4 LAMA4-AS1 FRK CALHM6-AS1 TRAF3IP2-AS1 SKIC2 DXO TRAF3IP2 WHR1 FYN HSD17B8 SLC39A7 C4A RXRB TSPYL4 HCG24 TSPYL1 LINC02527 C4A-AS1 PKIB CCN6 DSE AGPAT4 MCM9 PRKN TUBE1 COL11A2 HLA-DQB2 HLA-DQA2 HLA-DQB1-AS1 HSF2 CEP43 AGER LINC02518 SFT2D1 RPS6KA2-AS1 LINC02541 HLA-DRB5 C6orf118 GJA1 TBC1D32 BTNL2 TSBP1 TSBP1-AS1 RPS6KA2 MAN1A1 NOTCH4 MROCKI MPC1-DT LINC02880 PBX2 PPT2 UNC93A TAP1 PDE10A PPT2-EGFL8 LINC02534 LNCPOIR HPAT5 RFPL4B GPR31 PSMB8-AS1 HDAC2 LINC00602 EGFL8 TCP10L2 TBXT TAP2 HDAC2-AS2 HLA-DOB FAM184A CCR6 PRR18 RNF5 HS3ST5 MRPL18 SYNGAP1-AS1 LY6G6F LY6G6F-LY6G6D LY6G6E TRAPPC3L LY6G6D WDR27 PNLDC1 SYNGAP1 MPIG6B MAP3K4 PHF1 LINC02519 SLC60A2-DT KIFC1 DAXX SLC60A2 THBS2 MSH5 ZBTB22 THBS2-AS1 MAS1 LY6G6C LINC00336 RPF2 FABP7 BAK1 PRRC2A BAG6 CALHM5 APOM WTAP C6orf47 SOD2-OT1 C6orf120 GPANK1 CSNK2B ERMARD LY6G5B DYNLT2 PHF10 LY6G5C ZBTB9 ACAT2 TCP1 ABHD16A C6orf47-AS1 KIF25 REV3L NEU1 SLC44A4 REV3L-AS1 KIF25-AS1 EHMT2-AS1 PLG VPS52 CALHM6 HCG25 TAPBP EHMT2 AFDN-DT MAP3K4-AS1 C2 ZBTB12 LINC02487 RING1 C2-AS1 CFB NELFE LINC02538 AFDN RGL2 MSH5-SAPCD1 PFDN6 SAPCD1 SAPCD1-AS1 IGF2R WDR46 VWA7 AIRN LINC01615 SLC22A1 SNHG32 B3GALT4 SMOC2 VARS1 SLC22A3 LPA DACT2 LSM2 HSPA1L HSPA1A FRMD1 HSPA1B SLC22A2 SMIM28 CASP8AP2 GJA10 COL21A1 HEBP2 BMP5 HMGCLL1 GFRAL HCRTR2 BACH2 FAM83B TINAG-AS1 NHSL1-AS1 CCDC28A-AS1 TINAG SYNE1 CASC6 MED23 GCLC GCLC-AS1 KILH LINC01564 KLHL31 MLIP-AS1 TXLNB ENPP3 HECA ABRACL REPS1 ECT2L CCDC28A MLIP LRRC1 LINC01610 COL9A1 COL19A1 LINC02539 WAKMAR2 LYRM2 SIMALR LMBRD1 LINC02865 ADGRB3 ADGRB3-DT OR2A4 LINC02549 ERVH-3 SCAT8 DST-AS1 PBOV1 BEND6 ARFGEF3 PERP KIAA1586 MDN1-AS1 ZNF451 EYS BAG2 RAB23 PRIM2 KHDRBS2 FKBP1C LGSN MDN1 PHF3 ZNF451-AS1 MANEA-DT TFAP2B TFAP2D LINC01277 DEFB112 DEFB110 DEFB113 DEFB114 DEFB133 AKAP7 CRISP1 PGK2 MANEA CRISP3 FUT9 CITED2 ADGRF4 OPN5 NDUFAF4 FUCA2 PTCHD4 ADAT2 GPR63 AIG1 CENPQ FHL5 GLYATL3 UFL1 C6orf141 UFL1-AS1 RHAG CRISP2 MMUT ELOVL5 LINC01625 GCM1 FBXO9 CILK1 LINC02531 FILNC1 GSTA4 GSTA3 LINC02941 GSTA5 GSTA1 NMBR EPHA7 GSTA2 PKHD1
|
10cc50a0-af80-4fa1-b668-893dd5c0113a
|
ff69f0ee-fef6-4895-9f48-6c64a68c8289
|
Single-Cell Atlas Of Human Pediatric Liver Reveals Age-Related Hepatic Gene Signatures
| null |
Background:
The liver plays a critical role in metabolism and immune function, yet the contributions of its heterogeneous cell types to these processes remain unclear. While most liver studies focus on adults, pediatric liver diseases often present differently, underscoring the need for age-specific research.
Methods:
To better understand cellular drivers of childhood liver diseases, we generated single-cell RNA-sequencing maps of the normal pediatric liver and used this map to examine disease-related populations in biopsies from pediatric patients with intestinal failure–associated liver disease (IFALD).
Results:
The normal pediatric liver map consists of 42,660 cells from 9 donors under 17 years of age. Compared with normal adult liver (26,372 cells; 7 donors, age 26–69), pediatric livers exhibited differences in myeloid populations. Specifically, pediatric Kupffer-like cells (MARCO+C1QA+VSIG4+) exhibited higher expression of immune activation genes, including CCL4, CCL3, and IL1B. In vitro stimulation confirmed more IL-1β-secreting myeloid cells in pediatric versus adult livers, supporting these findings. Using the pediatric atlas as a reference, we analyzed 3 IFALD biopsies (11,969 cells; 3 donors, under 9 y of age) and identified increased expression of fibrosis-associated genes (eg, LY96) in Kupffer-like cells. In addition, mesenchymal cells in IFALD showed fibrotic gene modules resembling adult liver cells more than healthy pediatric cells. These signatures, undetectable when comparing IFALD to adult liver alone, highlight the value of a pediatric map.
Conclusion:
Taken together, our healthy pediatric liver atlas reveals distinct age-related signatures and provides a background against which to interpret pediatric liver disease data.
|
Sonya MacParland
|
s.macparland@utoronto.ca
|
26
|
GRCh38
|
v92
|
Cell Ranger count v3.1.0
|
no
|
C82
|
26 years
|
unknown
|
unknown
|
False
|
5d7af9f2-45b2-4c68-b967-204db4d5f2cc
|
fresh
|
UBERON:0001117
|
HsapDv:0000120
|
surgical resection
|
tissue
|
na
|
enzymatic dissociation
|
unknown
|
unknown
|
19f2ef36-b787-4fe9-ad8e-f8c7b5a40983
|
cell
|
unknown
|
2b12dc3e-e1b6-49e8-804a-dbd24e59b042
|
EFO:0009922
|
3 prime tag
|
University of Toronto
|
nan
|
Illumina NovaSeq 6000 (EFO:0008637)
| false
|
CL:0000084
|
CD3+ T-cells
|
PATO:0000461
|
PATO:0000384
| 2,364.00608
| 786
|
Healthy
|
Adult
| null | 0.408802
|
cell
| 10.853713
| 0.039188
| 0.047056
|
G2M
|
0
|
Adult Healthy
|
Perfusion
|
T cell
|
10x 3' v3
|
normal
|
male
|
caudate lobe of liver
|
unknown
|
26-year-old stage
|
HR0R;^N7Z}
|
MALAT1 MT-ATP6 MT-CO1 MT-CO3 RPL13 MT-CO2 RPS12 RPL41 RPL10 RPLP1 RPS14 RPS3 RPL34 RPS27A RPS27 B2M HSP90AA1 RPL21 RPS19 RPL19 MT-CYB RPL28 TPT1 MT-ND4 RPL6 RPL3 RPS23 RPS18 MT-ND2 RPS29 RPS8 TMSB4X EEF1A1 RPL32 CALM1 RPL7A RPS15A H3-3B RPL27A RPS3A RPL15 RPS9 RPL13A FTL CXCR4 PTMA RPL26 RPS4X RPL18A JUNB RPS24 RPL35 RPL29 RPS2 MT-ND1 ZFP36L2 RPSA RPLP0 RPS25 RPL37 RPS7 RPL11 MT-ND3 HSPA1A RPL23A RPL10A RPL9 RPL37A RPS6 RPS28 RPS15 GADD45B RPL27 EIF1 RPL35A UBA52 RPL36 RPL18 TMSB10 CCL4 NKG7 RPL38 RPS11 FAU RPS5 RPS13 TUBB4B EEF1B2 NFKBIA ATP5F1E RPL22 S100A6 RPL5 RPS20 RPL39 RPLP2 RPL30 JUN HLA-C PFDN5 HLA-B RPL7 SH3BGRL3 RPL14 RPS16 ACTB CD3D CCL5 IER2 BTG1 ARHGDIB YWHAB HSP90AB1 S100A4 RPS26 RPL8 MT-ND5 MT-ND4L CD69 CD48 AMD1 KLRD1 PAXX DUSP2 RWDD1 TSC22D3 TOMM7 RABAC1 RPL4 HMGB1 MZT2B RPL36AL JUND HLA-A CYBA MIDN NACA SAT1 RPL12 MT2A FTH1 SH2D1A APBB1 CD3G IL27RA NOL7 PARP15 PIP4K2A CARD8 FNBP1 ANP32E PA2G4 GZMH TMED9 TANK STK4 GZMA IL7R HLA-F PTPRC OSTC ASXL1 XRCC5 POLR2A SRRM1 NR2C2AP CCDC107 RGS9 ATP6V1G1 SRSF5 ATF4 PSMD7 NDUFB8 CORO1A FOSB GPSM3 YWHAZ TOP1 COPE HSPA8 SELENOH TNRC6C CCDC91 TGFB1 DAZAP2 KLF6 ACAP2 SELENOS ATP5F1C ZFP36 MSN TLE5 EIF3E PDIA3 MPHOSPH8 PSMA7 C19orf53 OST4 LY6E RPAIN ATP6V1F UBE2D3 PPDPF CD52 SLCO3A1 SUMO3 MYL12B ATP5MG GIT1 SFPQ CFL1 GUK1 KLF2 EEF1D EDF1 HINT1 PPIA RPS21 PRDX1 RPL31 PFN1 DUSP1 RPL24 RPL23 FOS RACK1 TMEM41A MIR23AHG GAPDH RHOB APOC3 ITIH1 MT-ATP8 PLCL1 PCED1B ACBD7 ARHGEF3 JAKMIP2 RNF122 ASNS THEMIS STX5-DT CGAS DNLZ GTF3C2-AS1 TMEM116 SNAI1 H2BC7 UTP14A RIPK1 RAD51AP1 PRAF2 ARL6IP6 LINC02580 LINC03047 URB1-AS1 ARHGAP15 ZAP70 NCK1 PLEKHF1 PRH1 CD2 SKAP1 UBR1 ZBED5 DNAJC2 HOPX TUBA4A SLC25A36 ZRSR2 CCDC186 C12orf75 SMC4 RALGAPB SLFN5 FSAF1 FARS2 TRIM22 LRRC41 TLE4 TAP1 H2BC15 TERF2IP BUB3 TRAC RGS19 INTS13 TRADD EZR PHF20 PCID2 ARL4C BIN1 TXNDC12 CDK2AP2 BIN2 TEX261 IPCEF1 THOC7 ABI1 CYBC1 ADAM8 TRBC2 RASA2 ZNF468 RIMOC1 PSMB8 PRXL2C FBXO3 DDX18 ETS1 ARMC8 PIGC PTPRA ZBTB38 CREM MPHOSPH10 CYRIB MEF2D SNHG32 PPP6R1 RNF167 CCDC59 ITM2A HAGHL POLR2K PTPRE USP47 RESF1 NUP133 TMEM243 MYO1G RSBN1 C1QBP TRAPPC6A PCMT1 TSR2 EML4 ARL6IP5 ILF2 PLAAT4 ACTR6 POLR1H CCDC167 RGS10 COA4 RSRP1 CRYBG1 MYSM1 IQGAP2 SELENOF CCDC174 SSR3 CD53 CHMP4B SRSF7 G3BP2 KCTD7 CTSW RAD21 TPGS2 ARIH2 ABHD17A ARAP2 CD47 ZNF394 IKBKB FMNL1 EVI2B PPM1G CLIC3 EIF3D ECD VDAC1 ITFG1 FAM107B SEPTIN7 GLOD4 RANBP2 ZNF92 SRPRA BIRC3 SMCHD1 PPP2R5C GPATCH4 LTB MAGOH POLR1F APOL3 ANKRD13C IP6K2 TSTD1 SETD3 LZIC RPP21 C9orf78 DYRK2 BIRC6 PIP4P1 FUS AREG APPL1 ARMC7 SRI CYTH4 GZMB PPP1R12A SDHAF2 RBM8A LARS1 TMEM50A SLC25A39 SETD2 SLA RHOG XRCC6 ERH EAPP CLEC2B FAM114A2 ORAI1 PPA1 UBL4A TCP1 ARID2 ARID1B SSR2 HMG20B ICE1 NDUFAB1 CNTRL HERPUD1 GORASP1 PRPF40A TAX1BP1 TAPBP LCP1 SHLD1 CARD16 NSA2 CBX3 CHMP4A RBPJ HNRNPA3 PDCD4 DGUOK SEC63 TRIM8-DT PDCL3 JOSD1 NTMT1 CCDC82 U2SURP UBE3A U2AF2 TCEA1 STAT5B N4BP1 MRPL22 PKN2 ZNF644 PDAP1 SIRT1 REX1BD PNRC1 COMMD6 U2AF1L4 KIFBP PSMB9 ABRACL MZT2A EIF3F FKBP8 CUL5 MMADHC HELZ AK6 OARD1 SUB1 RPL17 XPO6 AMN1-AS1 IL32 EIF3I SPCS2 HSPE1 CYCS MBD2 SF1 UXT SIRT2 CAPRIN1 CITED2 WNK1 ZNF451 HNRNPC NOB1 YWHAQ CHMP5 RP9 TSPYL2 ANXA6 EID1 HSPD1 EIF4G2 ANKRD12 GBP3 MYH9 TGIF1 NCK2 EIF3G ARPC2 TMEM9B H1-2 PET100 ZNF331 PSMB7 PPP1CA SELENOK SON PIN1 JPT1 ZBTB41 MSL3 UFC1 ZMAT2 TRIM28 CUTA ELK1 HCLS1 COPS9 CD320 ISG15 BIRC2 POLDIP3 CHCHD1 SAP18 PLAAT3 TTC3 PARK7 PPIB LAGE3 FAM133B C12orf57 PSMD8 ACTR1B ATP5PO CTBP1 CLIC1 SDF4 EIF4B SRP14 DPAGT1 ANKLE2 RPS10 TPM3 ELP6 NEDD8 HNRNPA1 IGBP1 CSK ERO1B NDUFA12 RNASEH1 KAT6B TMA7 GET3 DDIT3 SEC61B PSMB1 MRPL54 NRDC PRPF6 EIF3L NSUN6 ANAPC16 N4BP2L2 SEC24A COX6C JTB FAM193A SSU72 CHMP3 CNOT8 GGNBP2 SELENOW XBP1 MYLIP DDIT4 MPC1 AAAS MAFF CHMP1B MPC2 FCGR3A UBXN1 TNFAIP3 SRSF3 HNRNPA2B1 KTN1 GDAP2 NDUFS5 APRT CIRBP GNB1 TMEM50B MVB12A TRIR SEC11C RPS4Y1 EMC3 UGP2 NDUFB9 FADS3 MAP3K2 INTS6 GOT2 HCST SMDT1 GSTK1 IPP RHOA DYNLRB1 SYF2 RAB5C PKM VPS29 UBE2S FBXL15 DIAPH2 FMR1 OSBPL9 CLIP1 SCAF11 GMFG IER5 PLEKHO1 MARCHF6 TRRAP H2AZ1 PRKCSH GNAI2 BCAP31 ATG101 ARPC3 H2AJ ROMO1 NDUFA3 NASP GNG5 SLC25A3 EMP3 SEC62 GADD45GIP1 CHCHD2 NDUFB2 CALM2 RASSF3 CDK13 ZFAS1 TIMM8B TPM4 NDUFS4 PABPC1 HSP90B1 DNAJB1 CD46 TIMM13 PDZD8 COX5B HARS1 DYNLL1 EPS8 MAST3 ATP5MK ITM2B MXI1 MOB4 TPGS1 ITGB1 CRLS1 GNAS ACTG1 SLC25A6 ACOT13 ARL6IP4 IRF2BPL UBB WNT2B CD79B CFAP410 SPR COX6B1 PRDX5 ACAA2 YBX1 MKNK2 SDHC AP2M1 HLA-DPB1 FDPS LAMB1 EEF2 CD63 GSTP1 DBI TTC39C DDT LAMTOR4 COX7C ISOC2 GUCD1 USP22 OS9 UBC DIS3L ACAT1 H3-3A IRF2BP2 TMEM33 HSPA1B EIF4EBP2 HLA-E SSR4 ARSA SRBD1 TGFBR3 HFE ACOT8 DUSP23 TSPO RGS2 SRSF4 SEC23A VPS54 PRRC2C AHNAK SCAP S100A10 RBM25 OAZ2 ATF3 CSTF3 ETFB MYL6 NR4A1 CTSS COX4I1 CD151 OAZ1 TYK2 MXD1 BCL6 SREK1 CD74 SERF2 LEPROT VIM KLF11 SNHG25 ST6GAL1 HSPB1 SIDT2 CHP1 PLXNA2 DCXR APOM CD40 CCNYL1 IL6ST HLA-DRA ALDH1L1 NEAT1 SAA2 SERPINA1 APOA1 SAA1 KCNK16 KIF6 ICA1-AS1 NXPH1 DAAM2 TREM2 GLCCI1-DT ICA1 TMEM106B UMAD1 THSD7A LRFN2 PHF14 COXFA4 TREML1 MGC4859 LINC00951 GLCCI1 TDRG1 TSPO2 DAAM2-AS1 APOBEC2 TREML2 NFYA MOCS1 UNC5CL STK38 LRRC72 KCTD20 PXT1 ETV7-AS1 ETV7 BNIP5 PNPLA1 SOSTDC1 ARL4A BRPF3 ETV1 DGKB BRPF3-AS1 RPA3 AGMO MAPK13 MAPK14 MEOX2 SLC26A8 LINC02587 CRPPA SRPK1 LHFPL5 CLPS CRPPA-AS1 CLPSL1 CLPSL2 ARMC12 FKBP5 LINC03135 KCNK17 KCNK5 SAYSD1 GLP1R VWDE DNAH8-AS1 DNAH8 DNAH8-DT GLO1 ANKMY2 BTBD9-AS1 BTBD9 ZFAND3 ZFAND3-DT C7orf78 PANDAR LINC02520 CMTR1 RNF8 TBC1D22B TMEM217 PIM1 FGD2 MTCH1 PI16 C6orf89 PPIL1 SCIN CPNE5 RAB44 CDKN1A MDGA1 RBAK POLH POLH-AS1 GTPBP2 RBAK-RBAKDN MMD2 MAD2L1BP RSPH9 UBR2 VEGFA LINC02537 SCIRT PAPOLB LINC03040 MRPL14 TMEM63B CAPN11 MRPS18A LINC03073 DNPH1 LINC02983 TTBK1 SLC22A7 TNRC18-AS1 CRIP3 ZNF318 XPO5 TNRC18 DLK2 SLC29A4 TJAP1 LRRC73 WIPI2 POLR1C RBAKDN YIPF3 ABCC10 AMZ1 CLIC5 ENPP4 TTYH3 ENPP5 IQCE BRAT1 RCAN2 MYMX CYP39A1 SLC25A27 LFNG GRIFIN CHST12 TDRD6-AS1 TDRD6 EIF3B RCAN2-DT SLC29A1 RADIL AP5Z1 SLC35B2 NFKBIE FOXK1 TMEM151B DRC5 GNA12 SDK1-AS1 CARD11-AS1 AARS2 SPATS1 CDC5L SUPT3H RUNX2 RUNX2-AS1 CARD11 SDK1 ZNF316 ZNF853 TOMM6 USP49 INTS15 ZDHHC4 GRID2IP MED20 CUL9-AS1 KDELR2 CCND3 TAF8 C6orf132 DAGLB GUCA1A GUCA1B RAC1 BYSL MIOS TREML4 TREM1 MIOS-DT COL28A1 NCR2 C1GALT1 CCZ1B PRICKLE4 LINC01276 FOXP4 MDFI RSPH10B2 TFEB TFEB-AS1 ZNF12 PGC FRS3 FOXP4-AS1 AIMP2 KLHDC3 PMS2 RRP36 CUL7 RSPH10B CCZ1 OCM MRPS10 KLC4 MRPL2 FSCN1 KLC4-AS1 FBXL18 PTK7 SRF CUL9 RNF216 TRERF1 FAM220A CYTH3 TULP1 PRPH2 TBCC USP42 BICRAL MEA1 PEX39 PTCRA ANKRD61 CNPY3 LINC02976 GNMT PEX6 EIF2AK1 PPP2R5D RPL7L1 TAX1BP1-AS1 POU5F1 HCG27 HIBADH LINC02571 MICA-AS1 EVX1 MICA SYNGAP1-AS1 MICB EVX1-AS MCCD1 HOTTIP DDX39B HOXA13 ATP6V1G2-DDX39B DDX39B-AS1 ATP6V1G2 LINC01149 SFTA2 MUCL3 HCG21 MUC21 MUC22 HCG22 C6orf15 CHN2 CPVL-AS1 TCF19 CPVL CPVL-AS2 CDSN TRIL CREB5 PSORS1C2 JAZF1-AS1 CCHCR1 JAZF1 PSORS1C1 LY6G5B HOXA-AS3 LY6G5C HOXA4 ABHD16A LY6G6F LY6G6F-LY6G6D HOXA-AS2 HOXA11-AS LY6G6D HOXA3 MPIG6B LY6G6C DDAH2 HOXA2 HOTAIRM1 HOXA1 MSH5 LY6G6E NFKBIL1 HOXA11 LTA TNF HOXA10 HOXA10-AS HOXA10-HOXA9 LST1 NCR3 CSNK2B AIF1 PRRC2A BAG6 HOXA7 HOXA6 C6orf47 C6orf47-AS1 HOXA5 GPANK1 HOXA9 HLA-G GHRHR HCP5B AQP1 MINDY4 INMT-MINDY4 HCG9 INMT VARS2 PPP1R11 RNF39 TRIM31 TRIM31-AS1 TRIM40 TRIM10 GARS1 TRIM15 GGCT CRHR2 PDE1C OR5V1 OR12D3 OR12D2 OR11A1 OR10C1 OR2H1 MAS1L PPP1R17 ZFP57 ITPRID1 LINC01015 OR2I1 NEUROD6 UBD GABBR1 OR2H2 ADCYAP1R1 MOG LINC02829 SCRN1 NRM MDC1 MDC1-AS1 TUBB FLOT1 IER3-AS1 IER3 TRIM26 LINC00243 WIPF3 PRR15 LINC02570 DDR1-DT PRR15-DT CHN2-AS1 DDR1 GTF2H4 HCG20 HCG18 TRIM39 TRIM39-RPP21 NOD1 LINC01176 ZNRF2 LINC02569 GNL1 PRR3 FKBP14-AS1 PPP1R10 MRPS18B MTURN ATAT1 C6orf136 PLEKHA8 FKBP14 DHX16 PPP1R18 ABCF1 LINC01162 SP8 ZBTB22 DAXX KIFC1 PHF1 ABCB5 ITGB8 SKAP2 MACC1-AS1 SYNGAP1 MACC1 TMEM196 PLA2G7 FERD3L TWIST1 HDAC9-AS1 ZBTB9 ITGB8-AS1 HYCC1 COL11A2 IL6 IL6-AS1 RXRB STEAP1B-AS1 STEAP1B SLC39A7 HSD17B8 SP4 HCG25 VPS52 RAPGEF5 CDCA7L B3GALT4 WDR46 PFDN6 RGL2 DNAH11 RING1 ILRUN ILRUN-AS1 SNRPC BLTP3A TAF11 ANKS1A TCP11 SCUBE3 HDAC9 SCUBE3-AS1 ZNF76 DEF6 PPARD FANCE AGR2 TSPAN13 TEAD3 BZW2 AGR3 BAK1 LINC00336 ITPR3 UQCC2 IP6K3 LEMD2 MLN LINC01016 PRPS1L1 AHR HMGA1 SMIM29 NUDT3 SNX13 LINC02889 RPS10-NUDT3 LINC02888 PACSIN1 SPDEF GRM4 CFB NELFE SKIC2 DXO WHR1 NFE2L3 LINC03007 C4A KLHL7-DT C4A-AS1 C4B C4B-AS1 CYP21A2 TNXB ATF6B FKBPL PRRT1 PPT2 NPVF LINC02860 MSH5-SAPCD1 SAPCD1 SAPCD1-AS1 VWA7 VARS1 LSM2 HSPA1L LINC03095 C2-AS1 LINC02981 SNX10-AS1 NEU1 SLC44A4 SNX10 EHMT2-AS1 EHMT2 C2 ZBTB12 KIAA0087 HLA-DQB2 STK31 FAM221A CCDC126 HLA-DOB TRA2A IGF2BP3 TAP2 MALSU1 PPT2-EGFL8 GPNMB NUP42 HLA-DMB HLA-DMA BRD2 HLA-DOA HLA-DPA1 HCG24 KLHL7 PSMB8-AS1 EGFL8 SPMIP4 OSBPL3 AGPAT1 RNF5 AGER PBX2 GSDME PALS2 HLA-DQA2 NOTCH4 TSBP1-AS1 TSBP1 BTNL2 HLA-DRB5 HLA-DRB1 HLA-DQA1 HLA-DQB1 HLA-DQB1-AS1 NPY SLC35F1 CEP85L PLN MCM9 EZR-AS1 SYTL3 DYNLT1 ASF1A FAM184A TRAM2 TBC1D32 GJA1 HSF2 TMEM181 SERINC1 PKIB FABP7 SMPDL3A TULP4 MAN1A1 TAGAP CALHM6-AS1 CALHM6 TRAPPC3L TAGAP-AS1 CALHM5 CALHM4 RSPH3 RSPH4A NUS1 KPNA5 FAM162B GPRC6A RFX6 VGLL2 ROS1 DCBLD1 LINC02901 GOPC ZUP1 SNX9-AS1 ECHDC1 KIAA0408 MTCL3 C6orf58 LINC02536 SNX9 PTPRK PTPRK-AS1 CLVS2 ARHGAP18 TMEM244 ZDHHC14 L3MBTL3 TMEM242-DT TMEM242 SAMD3 TMEM200A ARID1B-AS1 LAMA2 TRDN TRDN-AS1 GTF2H5 NKAIN2 SERAC1 RNF217-AS1 RNF217 TPD52L1 HDDC2 RNF146 LINC02523 HEY2 SYNJ2 NCOA7 NCOA7-AS1 HINT3 TRMT11 CENPW RSPO3 HEY2-AS1 PPIL6 SMPD2 MICAL1 ZBTB24 ZBTB24-DT AK9 FIG4 SLC22A1 AIRN FNDC1-AS1 WASF1 CDC40 METTL24 IGF2R MAS1 DDO SLC22A16 CDK19 PNLDC1 GPR6 SCML4 AGPAT4 OSTM1 MAP3K4 OSTM1-AS1 MAP3K4-AS1 PLG NR2E1 SNX3 CD164 FOXO3 LPA LINC00222 ARMC2 ARMC2-AS1 SLC22A3 SESN1 SLC22A2 CEP57L1 AFG1L RFPL4B LINC02518 LINC02541 MARCKS MROCKI LINC02880 HDAC2 LINC02529 HDAC2-AS2 MRPL18 LNCPOIR LINC02534 FRK NT5DC1 FNDC1 COL10A1 TSPYL4 DSE TSPYL1 HS3ST5 ACAT2 GTF3C6 RPF2 SOD2-OT1 SLC16A10 WTAP SLC60A2-DT SLC60A2 SOD2 LAMA4-AS1 REV3L-AS1 TRAF3IP2-AS1 TRAF3IP2 FYN LINC02527 CCN6 TUBE1 FAM229B LAMA4 REV3L TXLNB RAET1L ULBP1 LINC01625 FILNC1 LINC02941 NMBR ULBP2 RAET1G SMLR1 GJE1 VTA1 LINC02919 ADGRG6 HIVEP2 HIVEP2-DT LINC01277 AIG1 RAET1E-AS1 NMBR-AS1 LINC02539 WAKMAR2 PLEKHG1 SIMALR LINC02865 PERP ARFGEF3 PBOV1 SMIM28 HECA NHSL1 IYD NHSL1-AS1 CCDC28A-AS1 CCDC28A ECT2L PPP1R14C REPS1 ULBP3 HEBP2 EPM2A-DT SHPRH GRM1 RAB32 ADGB-DT PPIL4 ADGB STXBP5-AS1 ZC3H12D ADAT2 SUMO4 STXBP5 TAB2-AS1 TAB2 UST-AS2 SAMD5 SASH1 UST-AS1 UST LUADT1 RAET1E PEX3 FUCA2 RAET1E-AS1 LRP11-AS1 PHACTR2 PHACTR2-AS1 LTV1 ZC2HC1B GINM1 NUP43 LATS1 PLAGL1 KATNA1 SF3B5 STX11 UTRN EPM2A FBXO30 LRP11 STX7 FBXO5 TAAR9 TAAR8 TAAR6 TAAR5 LINC02840 TAAR2 TAAR1 LINC03004 VNN3P VNN2 SLC18B1 VIP MYCT1 LINC00326 EYA4 EYA4-AS2 TARID VNN1 NOX3 EPB41L2 CLDN20 AKAP7 TFB1M ARG1 TIAM2 MED23 ENPP3 MTRF1L CTAGE9 SCAF8 ENPP1 CNKSR3 OPRM1 CCN2 LINC01013 MOXD1 RGS17 OR2A4 PDE7B-AS1 MTFR2 BCLAF1 MAP7 MAP7-AS1 DCPH1 MAP3K5 RMND1 MAP3K5-AS1 NANOGP11 PEX7 AKAP12 SLC35D3 NHEG1 IL20RA MTHFD1L IL22RA2 IFNGR1 OLIG3 ZBTB2 LINC01312 TCF21 TBPL1 SLC2A12 SGK1 CT69 LINC01010 LINC03002 SYNE1-AS2 PDE7B HBS1L MYB SYNE1-AS1 MYB-AS1 AHI1 SYNE1 ESR1 AHI1-DT CCDC170 LINC02524 ALDH8A1 PTP4A1 PHF3 EYS DNAAF5 SCAT8 ERVH-3 LINC02549 ADGRB3-DT ADGRB3 SOBP COL19A1 COL9A1 PRKAR1B-AS1 PRKAR1B-AS2 LINC01610 FAM135A-AS1 FAM135A SDHAF4 SMAP1 LMBRD1 GFRAL COX19 HMGCLL1 BMP5 COL21A1 DST DST-AS1 BEND6 KIAA1586 LGSN GET4-AS1 GET4 ZNF451-AS1 BAG2 RAB23 PRIM2 KHDRBS2 SUN1 FKBP1C ADAP1 MTO1 LINC03015 PDCD2 EEF1A1-AS1 SLC17A5 CD109-AS1 TBP FAM120B CD109 B3GAT2 COX7A2 TMEM30A TMEM30A-DT FILIP1 FILIP1-AS1 SENP6 MYO6 IMPG1 LINC02540 COL12A1 OGFRL1 LINC00472 LINC01626 RIMS1 KCNQ5 KCNQ5-AS1 PRKAR1B PDGFA-DT PDGFA LINC03014 KHDC1 KHDC1-AS1 DPPA5 KHDC3L OOEP OOEP-AS1 FOXL3 FAM20C DDX43 KHDC1L RHAG CRISP2 CRISP3 ELFN1-AS1 PGK2 CRISP1 DEFB133 DEFB114 LNCRI HCRTR2 DEFB110 DEFB112 TFAP2D TFAP2B PKHD1 LINCMD1 IL17A ELFN1 IL17F DEFB113 ANKRD66 SNX8 MEP1A ADGRF5 ADGRF5-AS1 ADGRF1 TNFRSF21 NUDT1 CD2AP-DT C6orf141 ADGRF2P ADGRF4 OPN5 PTCHD4 MMUT CENPQ MRM2 GLYATL3 MAD1L1 CD2AP MICALL2 UNCX GCLC-AS1 ZFAND2A-DT KILH ZFAND2A LINC01564 GPER1 CHLSN-AS1 MCM3 LRRC1 MLIP GPR146 MLIP-AS1 TINAG TINAG-AS1 FAM83B CHLSN CYP2W1 KLHL31 PAQR8 EFHC1 TRAM2-AS1 TMEM14A GSTA2 PSMG3-AS1 PSMG3 TMEM184A GSTA1 MICALL2-DT GSTA3 MAFK GSTA4 CILK1 FBXO9 GCM1 ELOVL5 GCLC INTS1 GSTA5 MANEA FUT9 UFL1-AS1 UFL1 FHL5 GPR63 NDUFAF4 KLHL32 RPS6KA2 HTR1B MPC1-DT POU3F2 FBXL4 SFT2D1 FAXC PRR18 TBXT LINC00602 COQ3 MMS22L UBE2J1 RRAGD ANKRD6 ANKRD6-AS1 LYRM2 MDN1 MDN1-AS1 CASP8AP2 TCP10L2 MANEA-DT CCR6 BACH2 MAP3K7 CASC6 CEP43 LINC02531 EPHA7 RNASET2 RPS6KA2-AS1 GJA10 POPDC1-AS1 POPDC3 PREP PREP-AS1 PACRG-AS3 LINC02836 PACRG-AS2 PACRG ATG5 PDE10A PRKN RTN4IP1 QRSL1 LINC02526 LINC02532 CD24 MTRES1 BEND3 PDSS2 PRDM1 PNISR PNISR-AS1 USP45 CCNC PRDM13 MCHR2 MCHR2-AS1 SIM1 SIM1-AS1 POPDC1 GRIK2 HACE1 LIN28B-AS1 LIN28B C6orf118 QKI CAHM PACRG-AS1 OR14J1 ASCC3 IBTK TPBG UBE3D PHF10 DOP1A PGM3 RWDD2A C6orf120 WDR27 GABRR2 LINC02519 PRSS35 SNAP91 RIPPLY2 CYB5R4 LINC02857 MRAP2 THBS2 CEP162 ME1 DLL1 MEI4 IRAK1BP1 PHIP HMGN3 HMGN3-AS1 LCA5 SH3BGRL2 LINC01621 LINC02542 LINC00574 ELOVL4 TTK BCKDHB LINC00242 ERMARD TENT5A DYNLT2 LINC01526 LINC01624 KIF25-AS1 AFDN AFDN-DT LINC02487 ORC3 AKIRIN2 SPACA1 CNR1 RNGTT LINC01611 LINC02538 SRSF12 TCP10L3 PM20D2 GABRR1 TTLL2 UNC93A HPAT5 GPR31 PNRC1-DT TBX18 TBX18-AS1 LINC02535 NT5E THBS2-AS1 SNX14 SYNCRIP HTR1E LINC01615 RARS2 SMOC2 ZNF292 DACT2 GJB7 SMIM8 FRMD1 C6orf163 KIF25 CFAP206 SLC35A1 CGA MARVELD2 OCLN GTF2H2C SERF1B SMN2 SMN2-AS1 SERF1A SMN1 SMN1-AS1 NAIP GTF2H2 LINC02543 BDP1 MCCC2 CARTPT MAP1B MRPS27 PTCD2 ZNF366 TNPO1-DT TNPO1 FCHO2-DT FCHO2 LINC02197 TRAPPC13 SHLD3 SGTB NLN ERBIN-DT ERBIN LINC02065
|
10cc50a0-af80-4fa1-b668-893dd5c0113a
|
ff69f0ee-fef6-4895-9f48-6c64a68c8289
|
Single-Cell Atlas Of Human Pediatric Liver Reveals Age-Related Hepatic Gene Signatures
| null |
Background:
The liver plays a critical role in metabolism and immune function, yet the contributions of its heterogeneous cell types to these processes remain unclear. While most liver studies focus on adults, pediatric liver diseases often present differently, underscoring the need for age-specific research.
Methods:
To better understand cellular drivers of childhood liver diseases, we generated single-cell RNA-sequencing maps of the normal pediatric liver and used this map to examine disease-related populations in biopsies from pediatric patients with intestinal failure–associated liver disease (IFALD).
Results:
The normal pediatric liver map consists of 42,660 cells from 9 donors under 17 years of age. Compared with normal adult liver (26,372 cells; 7 donors, age 26–69), pediatric livers exhibited differences in myeloid populations. Specifically, pediatric Kupffer-like cells (MARCO+C1QA+VSIG4+) exhibited higher expression of immune activation genes, including CCL4, CCL3, and IL1B. In vitro stimulation confirmed more IL-1β-secreting myeloid cells in pediatric versus adult livers, supporting these findings. Using the pediatric atlas as a reference, we analyzed 3 IFALD biopsies (11,969 cells; 3 donors, under 9 y of age) and identified increased expression of fibrosis-associated genes (eg, LY96) in Kupffer-like cells. In addition, mesenchymal cells in IFALD showed fibrotic gene modules resembling adult liver cells more than healthy pediatric cells. These signatures, undetectable when comparing IFALD to adult liver alone, highlight the value of a pediatric map.
Conclusion:
Taken together, our healthy pediatric liver atlas reveals distinct age-related signatures and provides a background against which to interpret pediatric liver disease data.
|
Sonya MacParland
|
s.macparland@utoronto.ca
|
26
|
GRCh38
|
v92
|
Cell Ranger count v3.1.0
|
no
|
C82
|
26 years
|
unknown
|
unknown
|
False
|
5d7af9f2-45b2-4c68-b967-204db4d5f2cc
|
fresh
|
UBERON:0001117
|
HsapDv:0000120
|
surgical resection
|
tissue
|
na
|
enzymatic dissociation
|
unknown
|
unknown
|
19f2ef36-b787-4fe9-ad8e-f8c7b5a40983
|
cell
|
unknown
|
2b12dc3e-e1b6-49e8-804a-dbd24e59b042
|
EFO:0009922
|
3 prime tag
|
University of Toronto
|
nan
|
Illumina NovaSeq 6000 (EFO:0008637)
| false
|
CL:4033081
|
Cycling Myeloid
|
PATO:0000461
|
PATO:0000384
| 4,041.400277
| 1,712
|
Healthy
|
Adult
| 0.093106
| 0.425487
|
cell
| 11.369798
| 0.536669
| 0.342632
|
S
|
22
|
Adult Healthy
|
Perfusion
|
cycling myeloid cell
|
10x 3' v3
|
normal
|
male
|
caudate lobe of liver
|
unknown
|
26-year-old stage
|
9b}ANXS$CU
|
MALAT1 MT-CO1 MT-CO3 MT-ATP6 MT-CO2 B2M RPLP1 MT-ND4 RPL10 MT-CYB TMSB4X PTMA CCL4 ACTB MT-ND5 RPS27A MT-ND2 GNLY RPL13 MT-ND3 RPL28 CFL1 RPLP2 RPL41 HLA-A PFN1 RPS3 NKG7 RPL23A RPL27A RPS18 IL32 RPSA RPS8 CCL5 RPS20 RPL39 RPS24 RPS3A FAU RPS6 RPS28 RPS19 STMN1 HMGB1 RPLP0 RPS29 RPL37 RPS15A RPL12 HMGB2 PPIA GAPDH RPL35 RPL30 RPL15 RPL19 RPL18A RPS2 RPS14 GZMB HNRNPA2B1 HLA-C RPL10A RPS4X RPS5 RPL3 RPS23 RPL11 RPS27 CD7 TMA7 DDIT4 DDX5 ACTG1 RPL21 RPL18 TMSB10 TPT1 FTL CTSW BTG1 HMGN2 DUT NUCKS1 NCL EEF1B2 NFKBIA H3-3A RPL27 RACK1 RPS25 RPL14 RPL13A MT-ND1 PRF1 AREG EIF3F ZFP36 CLIC1 BBLN CALM1 PPDPF H3-3B GSTP1 RPL24 RPL23 RPS26 TYROBP RPS7 RPL9 RPL7A RPL34 RPS12 MT-ND6 RAC2 CENPM KLRB1 LCP1 SET SON ARHGDIB TOMM7 GADD45B SLC25A5 HSP90AA1 H2AZ1 ARPC3 JUNB MYL12B DBI HLA-E RPS21 HLA-B RPL22 S100A10 SH3BGRL3 RPL6 RPL35A RPL37A RPS11 RPS13 RPL29 RPS15 FTH1 TYMS GNG2 PCNA KLRF1 SPON2 SMC3 THRAP3 RANBP1 FBL DEK GPATCH8 BZW1 SNRPB SRSF5 CD99 IER2 MBNL1 DUSP2 YWHAZ RAP1B HSPA8 ZFP36L2 SNRPD2 ID2 TPM3 HNRNPA1 PSMB1 DCTN3 EIF3K PTP4A2 SRSF3 TUBA1B NPM1 HSP90AB1 TUBB TUBB4B UQCRH CHCHD2 CHLSN ECI1 UBC RBM25 EIF1 RPL26 OAZ1 NACA PPP1R15A RPS16 RPL8 UBA52 EEF1A1 RPL32 EZH2 SMC4 DNMT1 MRPS6 PRKDC NR4A2 LIG1 ARL4C FNBP1 GZMH CX3CR1 ARL6IP5 PLAAT4 CCDC167 XPA ABHD17A PTPRC CBX5 SEPTIN7 TNF TSTD1 CRIP1 DDX24 CCT7 NUCB2 WDR76 SNRPD3 GIMAP7 NUSAP1 EWSR1 SUMO2 ANP32B TPR REL EIF4G2 ARPC2 HMGN1 SRSF2 SRP14 C1orf21 ARPC4 RUFY1 TAGLN2 TPI1 SIVA1 RHOA PKM UBE2S MIF MYL12A SERPINB1 NASP GNG5 ATP5MC2 SMC6 RPL4 CALM2 ITGB2 POLR2L ATP5MG UBB NDUFB11 SPAG9 HINT1 TXNIP IFITM2 SSR4 ELOB RPL38 PEBP1 S100A4 RPL31 MYL6 CYBA FOS SERF2 RPS9 NEAT1 ALB MT-ATP8 KIFC1 H2AC11 POLD3 DCK ABHD11 HLTF PCLAF TTLL7 RUNX3 IKZF3 NIFK NCAPD3 PIGS HOPX CTSC DNAJC9 TCEAL8 CEP97 CD247 EIF2A DRG2 PPIF SSX2IP CD69 CCDC18 SF3B2 GNPTAB NPAT BIN2 RPA2 FYN KAT7 PTPRJ CXCR4 APC HAVCR2 TFAM MRPL2 CSNK1G3 CYP20A1 USP47 IVNS1ABP DENND6A TCERG1 KIF11 CHM EML4 KLRD1 ILF2 NAXE ACTR6 LBR RGS1 ALOX5AP EPSTI1 TENT5C DCTPP1 NUP188 FYB1 IQGAP2 HLA-F RAD21 COMMD7 PSIP1 UBA2 PPM1G CLIC3 CHCHD3 FAM107B DRAP1 MRPL19 POLR1D PNRC2 POLR2A GZMM TRMU ZNF706 PPP1R12A ISG20 BRD2 RBM8A CEMIP2 SNRPF SNRPA LSM7 MCM3 NT5C NRBF2 ARID1B PMF1 PRMT2 NFKBID KLHDC4 ATF7IP NAP1L1 STT3B MANF ASCC3 HNRNPA3 SRSF1 KRT10 BRD10 URM1 CORO1A HNRNPD HNRNPAB ZNF644 DDX46 COMMD6 PBDC1 PSMB9 ABRACL DHX40 CCL3 YPEL3 MSH6 SDHD CD2AP NSD3 UTRN STING1 HNRNPUL1 MCM4 ADRM1 TAF15 ACP1 HNRNPC YWHAQ ATP2B1 SRSF10 MOB1A HNRNPDL AKAP13 PSME2 ANXA1 JUN DYNC1I2 EIF1AX STAMBP NDUFB4 RAB1B TSC22D3 JPT1 CLK1 RBM3 ACTR2 SNU13 ZMAT2 PSMC3 SLC25A11 CD320 SEC11A MSN HP1BP3 PCBP1 PSMD4 SERBP1 PARK7 PPIB FAM133B VCP MRPL51 TDG METTL26 UQCR10 GYPC RPS10 EDEM2 ARPC5 IRF8 ATP5MC3 ACLY FXN GABPA LDHA PSMA7 CNBP SEC24A PHIP CCDC57 PTBP3 SELENOW COX7B MRPL57 AAAS OXR1 NDUFA2 TGFBRAP1 BTF3 KTN1 RPL26L1 ZEB2 PANK3 ATG13 CIRBP TRIR NFATC3 PLIN2 ERGIC3 COX8A CLTC UBL5 ATP5F1B ZFAND2B GSTK1 DYNLRB1 CCDC85B DDX3X RBM39 MRPL34 H2AJ PCBP2 SLC25A3 EMP3 DICER1 LAPTM5 RABL6 HSP90B1 TRIM8 ATP5MJ ITM2B RER1 GON4L EIF3A NUDC IFT88 MZT2B ITGB1 ATP5PF GNAS FAM174C LMAN1 ATP6V0B ARHGDIA PRDX5 YBX1 RPL36AL CD63 LAMTOR4 MACROH2A1 JUND ZNF326 LRRC58 ARGLU1 PFDN5 KMT2B SPEN GCHFR CEBPB DUSP1 CEBPD SERPINB9 RPL5 ZFP36L1 RPL7 RPL36 CBR3 MT2A CYB5A SAA2 SAA1 PTCH2 NCAPG2 FANCA POGLUT1 CENPW MTMR2 EXO1 PRKCQ LINC01176 SENP1 ESR2 NEK2 ZNF827 USP37 UHRF1 RACGAP1 TMEM229B DRAXIN RGL4 RNF113A FAM222B ZNF215 SBK1 SLC39A10 GBP5 PYHIN1 C11orf21 NIPSNAP3B HELB CDCA2 SF1-DT SAC3D1 CDCA5 CCDC77 RNF213-AS1 TICRR RCC2 E2F8 GPR68 AP4B1 FANCD2 IFFO2 AVEN SPC25 LINC02972 ZNF367 HARS2 CCNF HDAC3 GALNT7 RPL39L FANCG RDM1 ARHGEF3 WDR83 BRME1 TOX-DT TOX NUP153-AS1 ASF1B MPDU1-AS1 TBC1D7 GINS3 FAM120C DLST MCM6 CFAP54 FIRRM RBL1 SLC9A9 B4GAT1 POLH ZNF492 E2F7 SH3KBP1 PRDM1 SYTL3 ZAP70 RASGRP1 STK17A RNF216 PHF6 SYTL2 VRK1 MYBL1 FRG1 APOBEC3C PTPN4 SKAP1 MAGOHB PTPN7 RHOF TES TIMM21 BLOC1S4 RHOH ACAP1 EIF3J-DT XCL2 CREB3L2 ZNRF2 NVL LAS1L APBB1IP TNFRSF18 RASSF5 SOCS1 WASHC2A NUP37 C22orf39 TRGV9 PNPLA8 H2AX DDX41 ZNF576 BTN3A1 TMEM14A DOCK8 LAT TRAPPC10 PARP8 MDH1 ZCCHC10 HDDC2 SBF1 S1PR4 CASP1 RECQL PSTPIP1 EOMES PDZD4 SLC4A1AP BNIP1 PPIH ARHGAP10 VCF2 ZNF302 TIMM29 ZBTB1 DDOST DR1 MGME1 TMCO1 AKAP5 IRAG2 ESCO2 MKI67 PHF19 SELENOT TMEM97 CEP20 RNF34 CASP2 RABEP1 NFATC2 SMC2 PHF20 NOP58 BIN1 CDC42SE2 COPS4 NUDT16L1 XRN2 PIP4K2A RBM22 TXNDC12 AP3M2 GGA2 BLM CUL2 DAXX TRGC2 EPRS1 DDX27 CD38 SAMSN1 BCCIP LRIF1 CYTIP EXOSC8 IPCEF1 SMU1 THOC7 CYBC1 CEP70 TRAPPC4 RNF44 SLC17A9 PIP5K1A TRBC2 TSC22D4 GPATCH1 CCNQ NPRL3 FEN1 SLC38A5 GRK6 FAM117A TGFBR1 PIM1 CASP4 TNFRSF25 PJA1 PPP2R2B IRF2 GPSM2 CCDC93 RNF169 SAMD9 PSMC3IP MIR4435-2HG RAB8A SASH3 CBFB CYFIP2 ODF2L MIS18BP1 RPF2 MYBL2 ZNF146 CNOT6L DOCK2 ATAD5 HTRA2 ETS1 FAN1 KRABD5 NDC80 PA2G4 TMEM126A ZMYM4 MDFIC MRPL9 DTYMK USP53 SEPTIN1 MPHOSPH10 SNHG32 DBR1 NDUFA9 PPP6R1 CKLF LDHB CTPS1 CMC1 ITM2A CD44 FAM228B GMPS CENPC IFNG FKBP11 TMED9 CYTOR FUBP1 PBK TAPBPL MEA1 PSMD10 GSPT2 OSER1 USE1 ORC6 MYO1G AMD1 TMF1 FXR1 CDC42EP3 CST7 ZBTB11 TRGC1 SEL1L3 H2AC25 RIOK2 MCM7 TSR2 PPIP5K2 PTPN12 RETSAT CARNMT1 ETAA1 CEP350 KHDRBS1 DPM1 CYTH1 RSRC1 NIBAN1 USP16 CDC123 SMAP2 CMTM3 ACBD6 ACTL6A NEDD9 COA4 RSRP1 PABIR3 UTY IQGAP1 ARID3B CD72 CBX1 SSR3 GZMA CYB5R1 POLR2G ATG12 CD53 MED11 SRSF7 BRI3BP CDCA8 SNRPB2 PAK2 ADSS2 SNAPC2 OSBPL5 NHP2 EIF2AK1 MLLT6 GIMAP2 MPHOSPH9 WAS RBBP6 MRPL47 ARIH2 RTCA RBBP7 LINC01882 MON2 PSMA1 TOMM40 MTHFD2 RGS3 ALDH18A1 CTCF GRWD1 CCND3 BCLAF1 CD47 RAB22A DGKD BAX RBMX OLA1 ATP7A STK17B SSBP1 DHX38 GNL3L EVI2B PUM1 TMEM129 OSTC IFI16 GABPB1 FAF2 SYS1 SDE2 CNOT2 ZNF292 ERO1A SPSB3 SNHG12 RAD9A TMEM160 PPP2R5C HPS1 FAM199X SFT2D1 ERBIN SAP30 TAF7 ASXL1 PJA2 MAGOH LINC01504 TOP2B ANKRD28 ITGAL SH3BP1 RELCH XRCC5 EHD1 GCC2 INCENP MRPL3 RFC1 ARF6 KLHL20 PITPNB CHORDC1 C9orf78 BRD7 SSB ACTR10 SDF2L1 DNAJC1 ADNP2 PTPN2 DNAJA2 ZC3H15 REEP4 SUGT1 SRP72 FUS NCBP3 SNRPC ZBTB8OS MOB3A AKIP1 PAXX ZFR TPRKB NUP54 SDHAF1 TAOK3 TMEM87A RPA3 EXOG PPP4C NDUFS3 GFM2 HDGFL2 SNAPC5 CNN2 CHCHD6 EIF4A2 ANKRD36C THUMPD3-AS1 LCP2 SLC39A7 TBPL1 SNRPA1 TMED8 ANAPC15 TMEM50A BCAP29 NCOA1 ABR IRAK1 MIIP PLEK TBCB NUDT22 SOCS4 MAZ PDE6B TMEM263 DDB2 TRAM1 TCOF1 ARPP19 SRRM1 EMD GLIPR1 DNAJC3 SRFBP1 MAP3K8 DCP2 PITHD1 CCL4L2 FOXJ3 UBL4A MESP1 ZNF557 TMEM126B TBC1D10B GNA12 SAMHD1 RANBP3 NFKBIB PPIE HSPA5 LATS1 RAB5A RASSF1 SSR2 SRM PER2 ICE1 RAN CCDC107 TMEM187 ABCB10 PRDM2 ICAM2 STAG1 ARL1 TMPO ZNF428 EMC4 CNTRL ABI3 SUZ12 HERPUD1 HAX1 ST8SIA4 TXNL4A SHARPIN FBXO44 PRPF40A TAX1BP1 CCT3 CDC26 KIAA1328 PTPN9 SKA2 KMT2A SUN2 LSM3 S100PBP UBE4A FUNDC2 IDH3G PSAT1 ASCL2 STMP1 SMG7 BABAM2 TXNDC9 JAK1 UQCC5 TBC1D9B PRMT1 DDX6 NCOA7 PAFAH1B1 RALGDS HGS TRAPPC3 BHLHE40 RIPOR2 ZNF148 SKP1 NTMT1 CCDC82 SMARCA5 PSMB10 PIBF1 DCTN2 GPCPD1 UBE3A BNIP2 MPG EIF3H CAPZA1 CLK2 NDUFB8 MIER3 GIMAP6 CIB1 PML DEAF1 KDM5A PKN2 PRKD3 GHITM IDI1 VAMP2 TIMM17B CCNY MIB2 LAMTOR5 CENPX PDCD7 USP12 PAIP2 PSMB6 ELF2 GPSM3 HCG18 TK1 LSM8 COMMD1 SUCLG1 PSMB2 SRP19 CBL DNAJB11 DOK2 FKBP8 RWDD1 ATAD2 DIAPH1 CCNL1 SLC35E2A NCAPH2 TPRA1 PYURF MMADHC HELZ YIPF5 UQCRC1 TRAPPC6B BOP1 LUC7L2 GPANK1 UCP2 SUB1 RPL17 ZNF700 CSNK1G2 PSME1 RHEB KRI1 COPE SPATA13 LARP7 PSMA6 UBA6 NR3C1 RSBN1L CDKN2D R3HDM2 NUDT1 SRP9 CNOT7 MX2 RFC3 MBD2 PSMC4 EXOSC10 RAB6A NDUFAF3 RBM26 ITPA ANAPC11 HNRNPR CHRAC1 SIRT2 GLRX5 RNPC3 DNAJC7 CITED2 TARDBP UPF3B CLINT1 GRB2 TYW3 CDC42 RMI1 NONO ADGRE5 MRPL55 NUFIP2 NUS1 TSPYL2 CISD2 SSBP3 ZNF420 RAB27A EIF2S3 TCAIM TMEM109 OTUD5 UBALD2 NUDT8 MBTPS1 NEK1 LIMD2 TSR3 POLA2 DCAKD PGK1 CCNI CCT6A PPP3R1 KDM1A TGFB1 ANKRD12 CRTC3 HMOX2 TRA2B ENO1 TRMT112 ARFGEF1 PDCD6IP CDKN3 KLF6 ERP29 SYNE1 PSMB4 RPL36A DNTTIP2 PEDS1 SNX6 PFKP FBXO42 PTCD1 H1-2 ANTKMT NDUFS8 RBM17 RNPS1 C11orf58 PSMB7 PDLIM2 DAD1 RYBP TMEM59 PPP1CA FBXL18 PIN1 ARIH1 FRYL PLAC8 CCDC47 ARID1A PIGT MBD4 MAD2L2 HUWE1 TRIM28 CUTA KANSL1 RBX1 KNTC1 CDK17 EBP HCLS1 UQCRFS1 NOP10 ISG15 TRIM24 ILF3 SMIM8 MRPS26 CHCHD1 AKR7A2 SAP18 PSMB3 HNRNPK MORF4L1 PLAAT3 PIN4 POLE4 POLR2F INTS3 EFHD2 TLE5 SAFB SS18 PIAS1 CDC37 RSPRY1 IKBIP C12orf57 VPS13A BID PSMD8 HNRNPF SKIC2 H2AZ2 DOT1L RIF1 R3HCC1 ZDHHC4 EIF5 DDX21 WDR33 EIF4B PPP1R16B SETX UBR2 EIF3E TBC1D10A NEDD8 IGBP1 PYROXD1 PI4KA L3MBTL2 ATG3 RAB14 YES1 SNX3 C11orf24 LRBA SPPL2A ANP32A C1orf35 WBP4 RILPL2 POP7 TXN2 ING2 TLN1 ANXA7 ENY2 AKR1A1 ATP5MC1 GET3 NFIL3 CCPG1 GNL1 MRPL54 KRR1 SF3B1 YWHAG PMPCB PUF60 EIF3J UBE2V2 SPCS1 UBAC1 MFF MED29 GTF3C6 ZFAND6 PPP4R3A TBCA SNRK ANAPC16 MMD PTPMT1 VTI1B NDUFB3 SRA1 N4BP2L2 BCL2L1 WWP2 SLC43A3 POMP JARID2 DCP1A SENCR C19orf53 MYO9A CSNK1A1 CSNK2A1 AHCTF1 FBXO21 SHISA5 NANS PIK3R1 PDXK AFF1 MRPL36 MOCS2 ITSN2 YWHAB FBXO6 CIAO2A VAMP8 MRFAP1 ARL2 ARLN TTC38 GTF2F1 SF3B5 CHMP1B ATP5PD FCGR3A AGO2 UBXN1 ZNF117 ITPR3 RTN4 SERTAD1 PRDX2 LY6E SUMF2 NOP53 RFC5 ATF6 C1orf56 DECR1 KARS1 YTHDF2 ZNF207 OPTN MRPL11 RPS4Y1 SHC1 TXNRD1 TENT4A ATOSA UGP2 PPIG CD81 SYNCRIP CD84 BAD NT5DC3 PNISR INTS6 SLC2A3 SH3BP5 COX7A2 ATP6V0D1 USP9X SRGN TMEM101 LARP1B COPA WDR83OS ARL2BP LY6G5C TNFRSF1B TRIM33 ATP6V1F ECHDC1 LYPLA1 TUFM NFATC2IP THOC2 IMPDH1 SCAF11 TXN FLNA GADD45A CSNK1D CEP85 MCRIP1 CNPPD1 PRKCSH NUP214 RAB1A RNASEH2C ATP6V0E1 UBE2D3 DIMT1 POLR2J ROMO1 NDUFA3 GPRC5D-AS1 BAG5 MTX2 CHD1 LRRFIP2 NAPA MDM1 GMNN STX12 RHOC KCTD20 YTHDC1 MYG1 RNPEPL1 NDUFB2 SCAND1 WSB1 ZFAS1 SFT2D2 ZWINT PABPC1 CD52 AURKAIP1 CYB5R3 SNX27 ATP5ME COX5B PRKAR1A LIMK2 NDUFS6 NDUFA11 COX5A SUMO3 YWHAE USP8 MGST3 CHD2 IDH2 MRPL23 UBE3C ATP1A1 KLF9 GDI2 TNKS2 RMC1 CSTB MXI1 UQCRB MICAL3 ORC3 HNRNPU KIF19 NMT1 COMMD9 NDUFB10 GIT1 DYM ARL5A LAMTOR2 UQCR11 LUC7L3 RAD23B ALDH9A1 DENND10 FTX SLC25A6 WDR27 NPTN MRPS21 KDM3B CCDC88A NOP56 MGAT1 TSPAN3 TALDO1 COX6B1 MLF2 RBM42 NAGLU HECTD1 ANXA2 ACAA2 FBXO7 PHGDH CARHSP1 AHCYL1 TSHZ1 AMMECR1L HCCS GUK1 NUMA1 MAP3K3 HYCC1 HYI GTF2I LAMP1 FOXP1 EEF2 ATP5F1D NENF ZNHIT1 NSRP1 TXNDC17 EEF1D BAZ1B ZNF747 RMDN1 BST2 COXFA4 MED16 DDT TMBIM1 HEBP2 NUCB1 ATG4B EDF1 THEM6 EIF4E2 DDX39B UBE2G2 RPS27L TRIB3 PNPLA2 KMT5C IDH1 TNFSF10 MGC16275 E2F1 ARL4A GOLIM4 NMNAT1 FIS1 COASY IRF2BP2 EIF4G1 GCLC HYCC2 ZBTB7A TMBIM6 HAPSTR1 CBY1 EIF4EBP2 C6orf89 ACP2 C21orf58 AP2S1 UBE4B ANKRD11 DFFA MRPS2 NINJ1 KLHL8 ATP5F1E LYN ZFAND5 P4HB DENND4A TMEM254 LIPA DUSP23 CHERP FBXW4 ESS2 COMT DHRS1 VPS54 FBXW5 AKAP9 MRPL28 HMGCS1 ETFDH MCRIP2 PYCARD GXYLT1 SORL1 RAC1 NAGA GOLGB1 NAGK GARRE1 ENTPD6 S100A6 COX4I1 RDX NIPSNAP3A LPAR2 TCEA2 SCP2 SREK1 RNF217 SPATS2L LIMD1 KLF10 ECHS1 ATG2A EEF2K STRN4 FCER1G GGACT DTL VPS39 FADS1 MTHFD1 MSMO1 AIG1 MIR23AHG IER3 SESTD1 RRAS SGK1 PER1 HSPB1 IL17RC NR2F6 AMOTL1 MINDY1 RGS12 DYNC2I2 COPRS TFEB ELL2 ACADS CTNNAL1 QSOX1 ZC3H13 INSIG1 ACSL1 SS18L1 SHMT1 D2HGDH GAMT ALDH1L1 TOB2 LST1 TMEM176A APOB PTMS PDLIM7 IGHM FGB APOA1 HP TTC23L-AS1 CLPSL1 LHFPL5 AMACR KIAA1586 PLPP1 ZNF451 CLPS ZNF451-AS1 LGSN C1QTNF3 BAG2 KHDRBS2 RAI14-DT PRIM2 RAB23 RAI14 FKBP1C SLC45A2 C1QTNF3-AMACR SPEF2 MLIP LRRC1 KLHL31 IL7R BRPF3-AS1 LINC01564 KILH GCLC-AS1 BRPF3 AGXT2 BNIP5 ELOVL5 CAPSL CAPSL-DT UGT3A1 CCNO GCM1 FBXO9 MCIDAS GPX8 CDC20B PNPLA1 BEND6 TTC23L SRPK1 DST-AS1 DST SLC26A8 RAD1 COL21A1 BRIX1 MTREX DNAJC21 MLIP-AS1 BMP5 HMGCLL1 DHX29 GFRAL CCNO-DT HCRTR2 FAM83B PRLR TINAG-AS1 TINAG MAPK13 MAPK14 CDH10 MAP3K1 SPDEF COL12A1 ILRUN CD109 ILRUN-AS1 CD109-AS1 LINC02239 LINC02228 LINC02211 SLC17A5 EEF1A1-AS1 CDH9 B3GAT2 CGAS C5orf67 DDX43 PURPL LINC01948 BLTP3A OOEP-AS1 OOEP LINC02103 LINC02109 KHDC3L LINC02064 TAF11 DPPA5 MTO1 HMGN3-AS1 H3Y1 RMEL3 HMGN3 SMIM29 LINC02223 IRAK1BP1 MEI4 HTR1B LINC02100 CDH18 LINC02540 CDH18-AS1 LINC02241 PACSIN1 CDH12 IMPG1 PRDM9 NUDT3 LINC02899 RPS10-NUDT3 MYO6 SENP6 FILIP1-AS1 FILIP1 TMEM30A-DT TMEM30A GPBP1 SETD9 LINC02146 IL6ST-DT COL9A1 LINC02120 COL19A1 LMBRD1 LINC02160 ADGRB3 TARS1-DT IL6ST FANCE ADGRB3-DT IL31RA DDX4 TARS1 CDH6 LINC02549 ERVH-3 TULP1 LINC03135 ADAMTS12 FKBP5 SCAT8 EYS PHF3 RXFP3 SLC38A9 PTP4A1 ARMC12 CLPSL2 TEAD3 ANKS1A DROSHA TCP11 KHDC1-AS1 SCUBE3 KHDC1 C5orf22 PDZD2 KHDC1L GOLPH3 KCNQ5-AS1 KCNQ5 RIMS1 GOLPH3-DT LINC01610 SCUBE3-AS1 ZNF76 LINC01626 DEF6 ANKRD55 LINC00472 OGFRL1 LINC02061 SMAP1 SDHAF4 PPARD FAM135A NPR3 FAM135A-AS1 MTMR12 MROH2B ZNF318 DNAH8 CRIP3 SLC22A7 C6 PLCXD3 DNAH8-AS1 TTBK1 GLP1R OXCT1 RIMOC1 DNPH1 FBXO4 STK38 CUL9 SRF GHR PTK7 CCDC152 KLC4-AS1 KLC4 SAYSD1 CUL7 KCNK5 RRP36 KLHDC3 SELENOP ANXA2R PPP2R5D CUL9-AS1 LINC00603 LINC00604 LINC03040 SCIRT LINC02537 VEGFA TTC33 ISL1-DT MRPS18A MDGA1 PTGER4 ZFAND3-DT ZFAND3 RSPH9 MAD2L1BP DNAH8-DT POLH-AS1 BTBD9 PRKAA1 BTBD9-AS1 GLO1 CARD6 XPO5 YIPF3 POLR1C LRRC73 TJAP1 C7 LINC02106 DLK2 ABCC10 GTPBP2 PGC TFEB-AS1 MDFI FOXP4 MOCS1 LINC01276 TDRG1 FOXP4-AS1 LINC00951 C5orf34 LRFN2 C5orf34-AS1 NCR2 PAIP1 TREM1 ANXA2R-AS1 TREML2 NNT-AS1 NNT TREM2 HCN1 MRPS30 TREML1 NFYA APOBEC2 UNC5CL TSPO2 MRPS30-DT OARD1 FGF10 FGF10-AS1 TREML4 KCNK17 KCNK16 PEX6 GNMT LINC02976 CNPY3 PTCRA PEX39 KIF6 RPL7L1 BICRAL TBCC DAAM2
|
10cc50a0-af80-4fa1-b668-893dd5c0113a
|
ff69f0ee-fef6-4895-9f48-6c64a68c8289
|
Single-Cell Atlas Of Human Pediatric Liver Reveals Age-Related Hepatic Gene Signatures
| null |
Background:
The liver plays a critical role in metabolism and immune function, yet the contributions of its heterogeneous cell types to these processes remain unclear. While most liver studies focus on adults, pediatric liver diseases often present differently, underscoring the need for age-specific research.
Methods:
To better understand cellular drivers of childhood liver diseases, we generated single-cell RNA-sequencing maps of the normal pediatric liver and used this map to examine disease-related populations in biopsies from pediatric patients with intestinal failure–associated liver disease (IFALD).
Results:
The normal pediatric liver map consists of 42,660 cells from 9 donors under 17 years of age. Compared with normal adult liver (26,372 cells; 7 donors, age 26–69), pediatric livers exhibited differences in myeloid populations. Specifically, pediatric Kupffer-like cells (MARCO+C1QA+VSIG4+) exhibited higher expression of immune activation genes, including CCL4, CCL3, and IL1B. In vitro stimulation confirmed more IL-1β-secreting myeloid cells in pediatric versus adult livers, supporting these findings. Using the pediatric atlas as a reference, we analyzed 3 IFALD biopsies (11,969 cells; 3 donors, under 9 y of age) and identified increased expression of fibrosis-associated genes (eg, LY96) in Kupffer-like cells. In addition, mesenchymal cells in IFALD showed fibrotic gene modules resembling adult liver cells more than healthy pediatric cells. These signatures, undetectable when comparing IFALD to adult liver alone, highlight the value of a pediatric map.
Conclusion:
Taken together, our healthy pediatric liver atlas reveals distinct age-related signatures and provides a background against which to interpret pediatric liver disease data.
|
Sonya MacParland
|
s.macparland@utoronto.ca
|
26
|
GRCh38
|
v92
|
Cell Ranger count v3.1.0
|
no
|
C82
|
26 years
|
unknown
|
unknown
|
False
|
5d7af9f2-45b2-4c68-b967-204db4d5f2cc
|
fresh
|
UBERON:0001117
|
HsapDv:0000120
|
surgical resection
|
tissue
|
na
|
enzymatic dissociation
|
unknown
|
unknown
|
19f2ef36-b787-4fe9-ad8e-f8c7b5a40983
|
cell
|
unknown
|
2b12dc3e-e1b6-49e8-804a-dbd24e59b042
|
EFO:0009922
|
3 prime tag
|
University of Toronto
|
nan
|
Illumina NovaSeq 6000 (EFO:0008637)
| false
|
CL:0000113
|
Mono-Mac
|
PATO:0000461
|
PATO:0000384
| 2,850.445191
| 1,126
|
Healthy
|
Adult
| 0.192004
| 0.454454
|
cell
| 12.667135
| 0.027099
| -0.032471
|
S
|
4
|
Adult Healthy
|
Perfusion
|
mononuclear phagocyte
|
10x 3' v3
|
normal
|
male
|
caudate lobe of liver
|
unknown
|
26-year-old stage
|
q<Q>=_At@x
|
FTL MT-CO1 MT-CO3 MT-CO2 MT-ATP6 MALAT1 MT-CYB FTH1 MT-ND4 MT-ND2 RPL10 MT-ND1 RPL13 RPL11 TMSB4X RPS8 RPLP1 TMSB10 RPL28 MT-ND3 RPS12 TPT1 NEAT1 SAT1 EEF1A1 RPS14 RPL30 RPL21 RPL18A RPS23 RPL34 RPL29 AIF1 H3-3A RPL6 B2M RPS2 RPS24 RPS15A RPS27A RPS27 S100A9 TYROBP S100A4 RPL7A FAU RPS3A RPS28 RPS15 RPL32 RPL41 PSAP RPL37 RPS7 RPS11 MT-ND5 PTMA SH3BGRL3 RPS20 RPL7 RPS13 RPL12 RPL19 RPS9 RPS19 PFDN5 LYZ HLA-E RPS29 RPL37A ACTB RPLP2 RPL15 RPS18 ZEB2 MARCKS HLA-DRA CTSS CD74 RPL22 PFN1 RPL39 RPS4X RPL8 UBA52 FCN1 ARPC2 CLIC1 TXNIP RPL38 S100A6 RPL26 RPL5 RPL35A RPL27A RPS6 RPL3 TMIGD3 PNRC1 APLP2 HLA-A OAZ1 RPL24 CST3 SERF2 RPS26 RPL23A RACK1 RPS25 RPL9 RPS5 RPL18 S100A8 IGSF6 PLEK FUS H1-10 CAST MACROH2A1 LGALS3 GRN CD163 CEBPD ITGB2 UQCRB SLC25A6 PPIA EEF1B2 HLA-C ATP5F1E HLA-B RPLP0 NACA RPL14 RPS16 RPS3 RPL36 RPL35 RPL13A POU2F2 LY86 M6PR NFE2L2 WNK1 ZNF706 FGL2 PLEKHO1 STXBP2 LSM7 ENY2 C1orf162 CEBPB MS4A6A HNRNPC VAMP8 COTL1 GNAI2 TPR CD14 MTDH POMP HNRNPA1 HLA-DRB1 LST1 ARHGDIB CTSB LAMTOR4 MRC1 HSP90AA1 RPL4 RAC1 UBB RPS21 RPL31 RPL10A TFEC ARHGAP4 LILRB2 GAS7 LGALS9 OTUB1 SLC43A2 CLEC12A LILRB1 SASH3 IRF2 COLGALT1 CYRIB DMXL2 PELI1 WASHC4 CSTA NCKAP1L RBPJ RHOG MFSD1 NCOA4 CNIH4 STX7 CIRSR SMAP2 GIMAP1 IRF1 ERBIN FGD4 MEF2C HNMT DENND10 STX10 DOK2 TNFRSF1B FOXJ3 GAB2 ROCK1 NAIP GRB2 STX6 MAP1LC3B MTPN RNASE6 MDFIC DEK MBD2 CARD16 XRCC6 UQCC3 TAX1BP1 MTIF3 SNX18 SPI1 VPS13C LEPROT MARF1 RSL1D1 SETX PKM RESF1 GRK2 PLIN2 UTRN SMIM7 CD68 ANXA5 C6orf62 PDLIM2 PAIP2 PPP1CB SND1 YME1L1 CHPF2 GLUL C1orf122 KLF6 SUMO2 SKP1 FOS TBCA ATP5F1B SNRPB TNIP1 PAPSS2 SEPTIN7 CLTB YWHAZ CORO1A GIMAP4 ASAH1 EID1 RBM5 NPC2 RAN CD37 COX7B PSME1 CANX PGLS SMAD2 PSME2 PYCARD SCAF11 H2AZ1 FAM177A1 SLC25A3 UQCRH SRP14 ARPC3 TOMM7 AP2S1 S100A12 GMFG DDX5 ARL6IP4 PAXX SUPT6H BLVRB EEF2 COX6B1 HSP90AB1 CD151 ATP5MG GOLGA4 FCER1G PLCG2 MYL12B SRRM2 S100A11 ACTG1 COXFA4 ANKRD11 USP42 UBC GUK1 S100A10 PRRC2C RPL27 VIM EIF1 TIMP1 COX4I1 CYBA RPL23 GAPDH ORM1 MT-ND4L RNASEH1-DT TMEM79 XRCC4 PLCL1 NBPF19 ZNF586 RAB2B KYAT3 RAB33A RAI1 KIAA0513 RASGRP4 AP4B1 C5AR2 HVCN1 CSF2RB VILL GAPT ZBTB26 UAP1L1 ABHD12 KCTD5 RPF1 DNAAF4 OSCAR SERTAD2 ARHGEF3 PROSER3 PAK1 SLC1A3 VAV1 DOCK10 GRK3 PLK3 SESN1 FBXO33 TLR8 ZBED5 RAB35 UBE2D1 LINC00324 MRTFA ZNF581 MTARC1 SURF6 ADAMTS2 CYRIA NGDN LYST PDE4B SLC7A7 GFRA2 SNW1 GPR65 E2F3 FCHO2 ZNF226 SSH2 DOCK2 SPHK1 SPPL3 PARL GTF2E2 NUP133 HLA-DMA IRF8 BACH1 CYBC1 TOR4A TBXAS1 HK1 CNOT4 PREX1 ARHGAP27 MGST2 NIPSNAP2 CHST15 SYK CCR1 CYBB SF3B2 NUBP1 GNG2 CD2BP2 UBXN11 LIMS1 SYNGR2 RAB31 IFNGR2 MYD88 EVI2B ZNF385A APOBEC3A EIF4H B3GNT5 SECISBP2 TWF1 FKBP15 ATP2B1 SCNM1 DDX28 SLC11A1 NAAA CSF1R PRKCB RARA MCMBP KCTD12 CD44 IFNGR1 FILIP1L STK17A ATXN2L AOAH ZNF710 CASP4 IMPDH1 SNX10 C3AR1 MSR1 BTG3 BCAT1 STX12 MRPL35 OGFRL1 CLEC7A LYSET FGR SELENOT TET2 ZDHHC5 R3HDM4 GNPTAB MGAT5 RNASET2 ELF1 NIPA2 AP3S2 RNF144B WDR26 USP3 AGO1 RNASEH2B TLE3 ZNF106 KLHL2 IQGAP1 RNF130 RIPOR2 SAMHD1 VPS41 GOLGA7 RNF166 CLN8-AS1 MPEG1 ARHGEF11 TOR1A SNX17 SLC16A3 ATP6AP1 MRPS35 BIRC6 ADA2 GNAI3 FAM53C FYB1 QRICH1 IFIT3 TMC6 BAX CYFIP1 LHFPL2 MAP2K7 LAT2 RAP2B ZFYVE16 MICU1 MED28 CRYBG1 DRAM2 ACVR1B MORC3 SYS1 UBE2E3 COG5 SMARCAD1 TSC22D4 ABI3 FAM204A ZSWIM6 GSPT1 NPL CAPN2 PSMB8 FRMD8 IRF9 UVRAG ARF3 UBE2J2 TRIM38 THOC1 UBR5 LLPH MON2 ORMDL2 ERO1A ATP6V0D1 STAMBP WRN PLP2 SRP72 DGKD OXSR1 ZNF302 GBP2 B3GAT3 RTRAF SCARB2 HSF1 MYO1F CAPZA1 FAM228B TPP1 ZBTB8OS PTGER2 WDR1 VSIR PSMF1 XXYLT1 RFXANK LMO4 ANKRD13A ACAP2 PLAA MAML3 REST SULT1A1 STK10 C17orf58 USPL1 REL COA4 CD302 ARRB2 VEZF1 KHDRBS1 ETF1 GNB2 CYTH1 RANBP1 CREBL2 CDC5L CTSH DYNC1I2 ANKRD13D OSTF1 EPC1 PPP1CC NCOA1 KLHL5 ZC3H15 MAP3K2 BRD2 TARDBP SMCHD1 SMAP1 TMEM165 MAN2B1 PPP2R5E TSPAN14 CYB561A3 MAP1S SDCCAG8 DIAPH2 RTN3 PGK1 NAGA RBM7 RIGI VSIG4 TMEM63A ATM TLK2 HNRNPM RBP7 TKT ARFGEF1 DISC1 ARHGAP45 KCNMA1 MS4A7 SRSF9 KDM5A LSM12 DEF6 MNDA TMEM167A SYAP1 MRPL24 MCL1 PARVB AZIN1 CYTOR RBBP4 CAPNS1 TBC1D1 SNX2 TRIAP1 LFNG SPAG7 RNF149 ZNF263 LAMTOR1 ZNF787 WASF2 BRMS1 CITED2 PSMB2 SRSF1 NFKB2 RB1 PRR13 CHM SP100 TMEM138 RALBP1 CD53 ATP5PB ARHGAP1 HIF1AN NAP1L1 ARHGAP17 CDA IL13RA1 CHMP7 SH3BGRL HCLS1 MSL3 USB1 CUL5 XRCC5 TRIM11 PCBP1 UBXN4 YBX3 CREBBP ZNF580 JARID2 CD93 DPH3 LSM14A RAB2A SART3 ASAP1 POGK NUDT22 RALGAPA1 IGBP1 TMEM160 HSD17B11 BLTP1 MICOS10 DNAJA2 HIPK3 SMARCA5 VPS37B SREK1IP1 GDI2 ZC3HC1 STAT6 NUFIP2 AAK1 CRTAP TMEM50A EIF3I TWF2 TMEM9B SRA1 NUDT5 COMT SLC3A2 ITGB1BP1 LAMTOR5 CTCF UFL1 VMP1 PDXK CAP1 TOMM20 TNRC6B MED13 UBIAD1 ATP6V1G1 HLA-DQA1 KAT6A AGTRAP THBS1 PTPRC NOP10 RNF167 TGFB1 HELZ ERO1B RAB5C TENT5A RING1 DCPH1 SSB CTSZ COMMD1 NDUFA1 LRRC8D EIF3H PTGES3 STX8 TPD52L2 CSNK1A1 DNTTIP2 DCAF5 STARD4 ADAM10 ICAM2 NAPA EIF4G2 TIMM50 SPRING1 EFHD2 SNX6 SHPRH TFEB PSMD7 LAPTM4A PRDM2 CIAO2B RBCK1 NUMB CKS2 LINC01637 LZIC PLEKHB2 ILK CDV3 TXNL4A XPO6 CPM RPS6KB1 CCNI PPFIA1 SLC20A1 SDCBP MORF4L1 TXN2 USP48 CLEC10A TRAPPC2L BAZ2A RAD23B ASH1L MAPKAPK2 MAPK14 EIF3L RASA3 ATP5MF WRNIP1 ABCE1 CSNK1G2 TALDO1 INPPL1 ARID1A NBDY FAAP20 TASOR ATP5PD TMEM18 EIF4A1 NFATC2IP DNAJC8 PKN1 CSNK2A1 PRKAR1A OGFOD3 YWHAH MAN2A1 DDX46 UBXN7 REV3L ERP29 HADHA MDH2 LSM8 TSN PSMD4 LRP1 TBC1D22B MBNL1 OAZ2 ACVR2A PPP2R5C ILF3 SRSF7 ANXA1 CENPX ACAA1 NDUFA5 COX20 QKI RNF213 PYROXD1 TMOD3 FBP1 CCT6A ANP32A RTCB OSBPL3 UFC1 FBXL20 SLIRP ABCF1 AUP1 CSDE1 H2AC20 NDUFS8 TUT7 CIB1 ESF1 RNF181 CABIN1 COA5 CCDC69 PBDC1 RNF26 EIF3E ZBTB33 UPP1 AP2M1 ENDOV CLTA ATXN10 CERS2 CTDSP1 COPE ARPC5 CTDNEP1 UBALD2 CPEB4 COPS9 ARPC4 RBX1 COMMD6 CDC42 TMEM141 MRPL23 MRPL43 DDX39B CMTM6 CASC3 OXR1 HNRNPF RAF1 MRPL22 NEMF TLN1 PPP1CA PECAM1 CFLAR RMND5B OS9 KMT2A HIGD2A GLUD1 USP8 FKBP1A NDUFB1 KLF7 CNBP SYPL1 ARID4A ACTR1A ZUP1 NDUFS5 ATP6V0B ZFAND6 ABTB1 KCNK6 SPCS3 TUBA1A SLC9D1 IKBIP SH3BP5 TPM3 DRC9 RNF7 PEMT DNPH1 SRBD1 LMO2 TNFSF10 NPEPL1 SEC61G C11orf58 NDUFC2 TCF4 SHISA5 ZRANB2 IDI1 RO60 LAPTM5 TAF10 MRPL54 SLC35E3 PUF60 MDM2 TMEM50B NEDD8 CHMP2A AKAP11 ZDHHC4 KLHL28 RXRA CLIP1 SNHG8 HNRNPK POLR3E ABCA1 PPP1R12C BORCS7 ITPR2 RBM3 ARLN H2AZ2 GSDMD TGOLN2 GGCT FOXO3 MRPL57 JUNB RHOA KTN1 UBL4A ALAS1 COX5A IFT52 CENPC NAA38 HMGN1 YWHAB MROH1 EML3 HLA-DPB1 CSAD EXOSC1 RER1 CD46 GLG1 TCF25 ATP5MJ EPN1 TUBB EIF3A TFG RNPS1 KLF10 PNPLA4 MRPS21 SCAND1 RGL2 MARCO ATP5MK TFIP11 SLC38A2 ZNF28 PHAF1 BAG6 SEC61B AURKAIP1 MCRIP1 SAMM50 RNASEH2C APRT EIF3K MORF4L2 LSM5 ACIN1 LPIN2 BRI3 COX7A2 ALKBH7 PPIG GUCD1 UBAP2L EMP3 ITCH PFKL COX6A1 SPCS1 NDUFB7 GTF3A C6orf89 GSTZ1 PCSK7 BLOC1S1 TAF9 RABAC1 UBE2G2 FKBP2 CSNK1E PUM3 UPF2 TSPO TRIM69 ATP5IF1 ABHD2 GADD45GIP1 BBLN CHCHD2 PIK3R1 NPM1 FKBP5 PLEC FAM136A EIF4ENIF1 CLK2 PCGF3 CDH23 ATP5PF NASP GPX4 SHMT1 MPC2 RBM39 CD52 ACP5 NDRG1 PRDX5 TBL2 MYL12A PPP1R14B NKTR ST3GAL1 C12orf43 GNAS CHORDC1 FCGRT NFIC FOXN3-AS1 RPL7L1 PNPO KLF2 TRAPPC9 MZT2B HCST DTNB PRPF38B PAN2 GSTP1 SIGIRR HMGB1 IFITM2 NAPRT STAB1 LTB JUND TCEAL4 COX7C ELOB CFL1 EEF1D CSPP1 UQCRQ LIMD1 ASPSCR1 PAXBP1 GTF3C2-AS2 SSR4 PRDX6 CES2 ASGR1 RRBP1 ASGR2 MYL6 RBM25 RNASE1 TMT1A GLYCTK MC1R SLC2A4RG SPTBN1 FEN1 ATF5 APOB SERPINA1 HYI ALB GLP1R KIF6 KCNK16 CYP2W1 MOCS1 DAAM2-AS1 SAYSD1 FLOT1 KCNK5 DAAM2 KCNK17 IER3 IER3-AS1 HCG21 MUC21 RNF8 MUC22 HCG22 TMEM217 GPR146 PIM1 FGD2 LINC02520 C6orf15 GPER1 MTCH1 ZFAND2A PI16 ZFAND2A-DT PSORS1C1 UNCX MGC4859 NXPH1 CHLSN-AS1 HCG20 DNAH8-AS1 DNAH8 DNAH8-DT GLO1 LINC00243 BTBD9-AS1 LINC02570 DDR1-DT MUCL3 DDR1 GTF2H4 VARS2 ZFAND3 ZFAND3-DT MDGA1 CCDC167 CHLSN SFTA2 CMTR1 BTBD9 GNMT LINC02976 SCIN POLR1H CNPY3 PTCRA PEX39 BICRAL PPP1R11 C7orf78 RNF39 TBCC PRPH2 TREM2 UBR2 TRIM31-AS1 TRERF1 MRPS10 TRIM40 TRIM10 LINC03014 GUCA1B FAM20C GUCA1A TRIM15 C6orf132 TAF8 TRIM26 TRIM31 LINC02829 LINC00574 KLC4 DGKB LINC01624 CUL7 RRP36 LINC01015 OR2I1 UBD DLL1 GABBR1 OR2H2 KLHDC3 LINC03015 MOG ZFP57 HLA-F HLA-G FAM120B HCP5B PSMB1 TBP PPP2R5D PEX6 HCG9 ETV1 ARL4A PDCD2 MEA1 FOXP4-AS1 PRKAR1B-AS1 DNAAF5 NCR2 TREM1 TREML4 PPP1R18 NRM TREML2 PPIL1 SUN1 MDC1 TREML1 CCND3 THSD7A NFYA GET4-AS1 ADAP1 APOBEC2 TSPO2 OARD1 UNC5CL LRFN2 COX19 MDC1-AS1 LINC00951 PHF14 TDRG1 GET4 HCG18 TRIM39 TRIM39-RPP21 RPP21 BYSL MED20 LINC02569 USP49 GNL1 TOMM6 PRICKLE4 PRR3 FOXL3 FRS3 DHX16 PDGFA PDGFA-DT PRKAR1B VWDE PPP1R10 PRKAR1B-AS2 MRPS18B TFEB-AS1 ATAT1 TMEM106B C6orf136 MDFI FOXP4 LINC01276 PGC CYTH3 SDK1 VPS52 SAPCD1-AS1 HCG25 VWA7 VARS1 LSM2 HSD17B8 HSPA1L ANKRD61 HSPA1A FOXK1 RPA3 SLC39A7 RXRB SNHG32 COL11A2 HCG24 AP5Z1 NEU1 RADIL EIF2AK1 HLA-DPA1 HLA-DOA PAPOLB SLC44A4 MMD2 HSPA1B LY6G6E GRID2IP ZBTB9 SYNGAP1-AS1 SYNGAP1 KDELR2 AMZ1 GNA12 LY6G6D CUTA MPIG6B PHF1 KIFC1 B3GALT4 DDAH2 DAGLB DAXX ZBTB22 FAM220A TAPBP MSH5 CARD11 CARD11-AS1 SDK1-AS1 PFDN6 WDR46 MSH5-SAPCD1 SAPCD1 LY6G6C HLA-DOB HLA-DQB2 HLA-DQA2 TNXB HLA-DQB1-AS1 TNRC18-AS1 LINC02983 ATF6B FKBPL HLA-DQB1 PRRT1 PPT2 LINC03073 AIMP2 FBXL18 BTNL2 TSBP1 FSCN1 TSBP1-AS1 RNF216 NOTCH4 GPSM3 PBX2 AGER RNF5 PPT2-EGFL8 AGPAT1 EGFL8 HLA-DRB5 RBAK-RBAKDN EHMT2-AS1 EHMT2 C2 ZBTB12 C2-AS1 CFB NELFE PMS2 HLA-DMB TAP1 PSMB9 SKIC2 PSMB8-AS1 CYP21A2 DXO WHR1 RBAKDN C4A C4A-AS1 C4B RSPH10B TAP2 WIPI2 CCZ1 SLC29A4 C4B-AS1 TNRC18 OCM RBAK LINC02571 MAFK TMEM184A SLC26A8 MICA-AS1 MICA PSMG3 SRPK1 PSMG3-AS1 LINC01149 LHFPL5 MICB CLPS BAK1 MIOS-DT CLPSL1 CLPSL2 COL28A1 ARMC12 ATP6V1G2-DDX39B LINC03135 C1GALT1 DDX39B-AS1 TULP1 TEAD3 ATP6V1G2 ELFN1 LNCRI MCCD1 ICA1-AS1 MICALL2 CPNE5 RAB44 ICA1 GLCCI1 CDSN CDKN1A PANDAR SRSF3 PSORS1C2 STK38 CCHCR1 TCF19 MIOS PXT1 POU5F1 ETV7-AS1 MICALL2-DT ETV7 BNIP5 PNPLA1 GLCCI1-DT BRPF3 HCG27 UMAD1 BRPF3-AS1 MAPK13 INTS1 KCTD20 RPS10 RPS10-NUDT3 NUDT3 SMIM29 HMGA1 APOM GRM4 LINC01016 ZNF853 BRAT1 MLN INTS15 LEMD2 FANCE C6orf47-AS1 GPANK1 IP6K3 CSNK2B UQCC2 IQCE LY6G5B LY6G5C ITPR3 LINC00336 ABHD16A LY6G6F LY6G6F-LY6G6D TTYH3 C6orf47 NFKBIL1 LTA PPARD TNF ELFN1-AS1 MAD1L1 ZNF76 SCUBE3-AS1 SCUBE3 MRM2 TCP11 NUDT1 ANKS1A TAF11 ZNF316 SNRPC ILRUN-AS1 ILRUN SPDEF SNX8 EIF3B NCR3 CCZ1B CHST12 RSPH10B2 GRIFIN ZNF12 PRRC2A PACSIN1 BLTP3A CDC40 NUP43 METTL24 DDO SLC22A16 CDK19 LATS1 AMD1 GTF3C6 TFAP2D SLC16A10 SLC60A2-DT SLC60A2 KATNA1 REV3L-AS1 TRAF3IP2-AS1 TRAF3IP2 GINM1 FYN RPF2 LINC00222 ARMC2 RAET1E-AS1 ARMC2-AS1 RAET1E RAET1E-AS1 CEP57L1 CD164 LRP11-AS1 WASF1 SMPD2 MICAL1 LRP11 PCMT1 ZBTB24 ZBTB24-DT AK9 FIG4 GPR6 PPIL6 TSPYL4 DSE TSPYL1 CALHM6-AS1 SUMO4 CALHM6 TRAPPC3L CALHM5 TAB2-AS1 LINC02527 UST-AS2 UST-AS1 UST CALHM4 RWDD1 RSPH4A KPNA5 FAM162B GPRC6A TAB2 PPIL4 CCN6 TUBE1 FAM229B LAMA4 LAMA4-AS1 RFPL4B LINC02518 LINC02541 COL10A1 MROCKI LINC02880 HDAC2 HDAC2-AS2 HS3ST5 LNCPOIR LINC02534 FRK NT5DC1 ZC3H12D GPR63 SYNE1 NDUFAF4 KLHL32 MMS22L POU3F2 FBXL4 ESR1 FAXC AFG1L PNISR CCDC170 PNISR-AS1 USP45 RMND1 CCNC PRDM13 ZBTB2 MCHR2 COQ3 ANKRD6 ANKRD6-AS1 LYRM2 MDN1 MDN1-AS1 CASP8AP2 GJA10 BACH2 NANOGP11 FHL5 CASC6 LINC02531 EPHA7 MANEA-DT SYNE1-AS2 MANEA SYNE1-AS1 FUT9 UFL1-AS1 MAP3K7 QRSL1 LINC02526 LINC02532 CD24 ULBP3 MTRES1 BEND3 RAET1L PDSS2 MCHR2-AS1 SCML4 ULBP1 ULBP2 SEC63 OSTM1 OSTM1-AS1 NR2E1 RAET1G SNX3 SOBP SIM1 AKAP12 SIM1-AS1 ASCC3 GRIK2 HACE1 MTHFD1L LIN28B-AS1 LIN28B RTN4IP1 POPDC1-AS1 POPDC3 PREP PREP-AS1 PLEKHG1 LINC02836 ATG5 IYD PRDM1 PPP1R14C POPDC1 HIVEP2 TARID LINC01312 ADGRG6 TCF21 TBPL1 LINC02919 SLC2A12 SGK1 RFX6 GJE1 CT69 LINC01010 LINC03002 ALDH8A1 HBS1L NMBR-AS1 MYB MYB-AS1 VTA1 MOXD1 FUCA2 TAAR9 PEX3 TAAR8 TAAR6 TAAR5 TAAR2 TAAR1 EYA4-AS2 VNN3P ADAT2 AIG1 LINC01277 HIVEP2-DT VNN2 SLC18B1 LINC00326 EYA4 VNN1 LINC02539 TXLNB WAKMAR2 TNFAIP3 SIMALR LINC02865 PERP ARFGEF3 PBOV1 AHI1 HEBP2 NHSL1 NHSL1-AS1 HECA CCDC28A-AS1 ABRACL CCDC28A ECT2L REPS1 SMIM28 AHI1-DT LINC02524 PDE7B PDE7B-AS1 MTFR2 BCLAF1 MAP7 NMBR MAP7-AS1 LINC03004 MAP3K5-AS1 LINC02941 PEX7 SLC35D3 NHEG1 IL20RA IL22RA2 FILNC1 LINC01625 OLIG3 MAP3K5 HSF2 SERINC1 PKIB FABP7 SMPDL3A CLVS2 TRDN TRDN-AS1 NKAIN2 LINC01013 ADGB-DT RAB32 RNF217 GRM1 TPD52L1 HDDC2 HEY2-AS1 LINC02523 HEY2 RNF217-AS1 VGLL2 SASH1 ROS1 SAMD5 DCBLD1 STXBP5 GOPC NUS1 LUADT1 GJA1 CEP85L PLN MCM9 ASF1A FAM184A MAN1A1 TBC1D32 STXBP5-AS1 ADGB SLC35F1 EPM2A TMEM200A STX11 SMLR1 EPB41L2 SF3B5 AKAP7 ARG1 PLAGL1 NCOA7 LTV1 MED23 ENPP3 OR2A4 PHACTR2-AS1 CTAGE9 PHACTR2 ENPP1 CCN2 ZC2HC1B NCOA7-AS1 HINT3 TRMT11 CENPW RSPO3 RNF146 EPM2A-DT ECHDC1 KIAA0408 SAMD3 C6orf58 LINC02536 THEMIS PTPRK PTPRK-AS1 FBXO30 LAMA2 ARHGAP18 TMEM244 L3MBTL3 MTCL3 SFT2D1 PGK2 CRISP1 DEFB133 DEFB114 DEFB113 DEFB110 DEFB112 TFAP2B RRAGD PKHD1 LINCMD1 IL17A TBXT IL17F LINC00602 MCM3 PDE10A C6orf118 PRR18 ANKRD66 MEP1A ADGRF5 ADGRF5-AS1 MPC1 ADGRF1 TNFRSF21 CD2AP-DT CD2AP CRISP3 ADGRF4 OPN5 PTCHD4 MMUT CENPQ GLYATL3 C6orf141 RHAG CRISP2 ADGRF2P KLHL31 PACRG-AS2 LRRC1 MLIP PACRG PRKN MLIP-AS1 TINAG TINAG-AS1 PAQR8 HCRTR2 GFRAL HMGCLL1 AGPAT4 BMP5 MAP3K4 COL21A1 MAP3K4-AS1 DST FAM83B EFHC1 TRAM2 TRAM2-AS1 TMEM14A GSTA2 GSTA1 CAHM GSTA5 GSTA3 LINC01564 PACRG-AS3 GSTA4 CILK1 FBXO9 GCM1 ELOVL5 GCLC GCLC-AS1 KILH PACRG-AS1 LRRC73 POLR1C THBS2 THBS2-AS1 YIPF3 LINC01615 SMOC2 XPO5 POLH PLA2G7 GTPBP2 MAD2L1BP DACT2 RSPH9 MRPS18A VEGFA LINC02537 SCIRT LINC03040 POLH-AS1 LINC00242 ERMARD MRPL2 KLC4-AS1 PTK7 DYNLT2 SRF CUL9 PHF10 TJAP1 C6orf120 TTBK1 SLC22A7 CRIP3 ZNF318 WDR27 ABCC10 LINC02519 DLK2 CUL9-AS1 RUNX2 RUNX2-AS1 CLIC5 ENPP4 ENPP5 HPAT5 GPR31 TCP10L2 RCAN2 FRMD1 RCAN2-DT CEP43 CYP39A1 SLC25A27 RPS6KA2-AS1 RPS6KA2 TDRD6-AS1 MPC1-DT TDRD6 CCR6 MRPL14 TMEM63B CAPN11 KIF25 KIF25-AS1 MYMX SLC29A1 AFDN SLC35B2 SUPT3H AFDN-DT LINC02487
|
10cc50a0-af80-4fa1-b668-893dd5c0113a
|
ff69f0ee-fef6-4895-9f48-6c64a68c8289
|
Single-Cell Atlas Of Human Pediatric Liver Reveals Age-Related Hepatic Gene Signatures
| null |
Background:
The liver plays a critical role in metabolism and immune function, yet the contributions of its heterogeneous cell types to these processes remain unclear. While most liver studies focus on adults, pediatric liver diseases often present differently, underscoring the need for age-specific research.
Methods:
To better understand cellular drivers of childhood liver diseases, we generated single-cell RNA-sequencing maps of the normal pediatric liver and used this map to examine disease-related populations in biopsies from pediatric patients with intestinal failure–associated liver disease (IFALD).
Results:
The normal pediatric liver map consists of 42,660 cells from 9 donors under 17 years of age. Compared with normal adult liver (26,372 cells; 7 donors, age 26–69), pediatric livers exhibited differences in myeloid populations. Specifically, pediatric Kupffer-like cells (MARCO+C1QA+VSIG4+) exhibited higher expression of immune activation genes, including CCL4, CCL3, and IL1B. In vitro stimulation confirmed more IL-1β-secreting myeloid cells in pediatric versus adult livers, supporting these findings. Using the pediatric atlas as a reference, we analyzed 3 IFALD biopsies (11,969 cells; 3 donors, under 9 y of age) and identified increased expression of fibrosis-associated genes (eg, LY96) in Kupffer-like cells. In addition, mesenchymal cells in IFALD showed fibrotic gene modules resembling adult liver cells more than healthy pediatric cells. These signatures, undetectable when comparing IFALD to adult liver alone, highlight the value of a pediatric map.
Conclusion:
Taken together, our healthy pediatric liver atlas reveals distinct age-related signatures and provides a background against which to interpret pediatric liver disease data.
|
Sonya MacParland
|
s.macparland@utoronto.ca
|
26
|
GRCh38
|
v92
|
Cell Ranger count v3.1.0
|
no
|
C82
|
26 years
|
unknown
|
unknown
|
False
|
5d7af9f2-45b2-4c68-b967-204db4d5f2cc
|
fresh
|
UBERON:0001117
|
HsapDv:0000120
|
surgical resection
|
tissue
|
na
|
enzymatic dissociation
|
unknown
|
unknown
|
19f2ef36-b787-4fe9-ad8e-f8c7b5a40983
|
cell
|
unknown
|
2b12dc3e-e1b6-49e8-804a-dbd24e59b042
|
EFO:0009922
|
3 prime tag
|
University of Toronto
|
nan
|
Illumina NovaSeq 6000 (EFO:0008637)
| false
|
CL:0000113
|
Mono-Mac
|
PATO:0000461
|
PATO:0000384
| 7,317.716396
| 2,501
|
Healthy
|
Adult
| 0.123409
| 0.42644
|
cell
| 4.340252
| 0.004896
| -0.001915
|
S
|
1
|
Adult Healthy
|
Perfusion
|
mononuclear phagocyte
|
10x 3' v3
|
normal
|
male
|
caudate lobe of liver
|
unknown
|
26-year-old stage
|
d+G-U{H|}*
|
MALAT1 NEAT1 MT-CO1 FTL S100A9 RPL10 RPLP1 RPL13 MT-ND4 LYZ RPL32 RPS18 RPS8 EEF1A1 RPS2 TPT1 RPL28 S100A4 RPS15 MT-CO2 RPL13A TMSB10 RPS12 ACTB TMSB4X RPL41 RPS24 RPL34 RPL19 MT-ND1 RPS3A RPL15 RPS27 MT-CO3 RPS27A RPL11 RPS14 PTMA B2M RPS28 S100A8 RPS11 RPL29 FTH1 RPLP2 RPL21 RPS6 RPS9 RPL18A H3-3A S100A6 RPS4X RPS19 RPS25 RPL35A RPL37A RPL12 MT-ND5 CTSS SH3BGRL3 RPL24 RPL39 RPL30 RPS23 SAT1 NACA RPL10A RPS29 RPL37 RPS7 RPL7A MT-ND3 RACK1 MT2A RPS13 OAZ1 VIM RPL27A RPL36 RPS5 TXNIP CST3 RPL6 GAPDH RPS15A VCAN LGALS1 RPL18 CD74 RPS20 RPS3 FAU MT-ND2 S100A10 COX4I1 RPL7 RPL9 RPL23 UBA52 MS4A6A AIF1 AHNAK SLC25A6 RPL3 PTPRC ITM2B HLA-A HLA-B RPL31 RPL26 RPS26 RPL23A MT-CYB ZEB2 TKT CD163 S100A11 PSAP PFDN5 RPL27 RPL5 RPS16 RPL8 RPL35 EVI2B CEBPD H3-3B COX7C TYROBP RNASE1 RPL14 LCP1 ARPC2 CALM2 YWHAB ARPC3 FKBP5 CFL1 ATP5F1E RPL38 RPL22 EIF1 FN1 BACH1 SDCBP GLUL YWHAZ S100A12 TSPO SRGN HMGB1 PPIA EEF1B2 MT-ATP6 ZDHHC20 PCBP1 ANXA1 SLC25A5 LAPTM5 PABPC1 HNRNPA2B1 ITGB2 EEF2 RPS4Y1 RPL36AL HLA-C HLA-E SERF2 ATP2B1 F13A1 FYB1 CD302 MNDA VPS13C C1orf162 APLP2 GNAI2 ANXA2 UBXN1 HLA-DRB1 ZFP36L2 ARHGDIB PPIB ATP5MC2 BLVRB RAC1 GSTP1 CYBA MT1X TNFSF13B LILRB1 CELF2 GLDN STK17B RAP2B RGS2 JDP2 UBA1 CAPNS1 LAMTOR1 BNIP3L NSA2 DDX21 HMOX1 DIAPH1 FLNA SEPTIN2 SEPTIN7 CDC42 RBM3 GRN TPI1 EIF3A KLF10 CLIC1 PNISR TOMM7 NDUFB11 BTG1 HSP90AB1 NCL RPSA TIMP1 PFN1 MARCHF1 RGS19 CYBB CD36 DPYD PHF20L1 MEAF6 MEF2C AHR TOP1 ROCK1 DEK KHDRBS1 RAP1A USP15 SPI1 RAB11FIP1 YPEL3 CAP1 ANAPC11 TCEA1 CREG1 EIF4G2 EFHD2 PRP4K PLEKHB2 HNRNPD TM9SF3 TALDO1 CLINT1 EIF3E CLTA MYH9 ARPC5 CORO1A PTP4A2 ATP5PO COTL1 CSTB HLA-DRA SLC38A1 MAP3K11 RHOA SMDT1 TXN ID2 FXYD5 SEC61B SRP14 ATP5ME COX7A2 DDX17 TMA7 LAMTOR4 NPM1 UQCRB COX6B1 RPL4 ATP5MG PNN ACTG1 UBC SSR4 RPS21 CTSD MGST1 SERPINA1 ALB PAK1 CREB5 P2RY1 GRK3 TES SSH2 DOCK2 LY86 DHX29 CSGALNACT2 ATP6V1B2 RAB31 PLXNC1 SKAP2 MEF2A PRKCB IFNGR1 WASHC4 OGFRL1 PLXDC2 FGR JAML RBPJ PALLD MTR LYN MFSD1 RYBP CCDC88A SAMHD1 PRKDC RILPL2 LACTB GLIPR1 MED28 ERBIN CORO1C ACTR3 METTL9 DDHD1 SLA RNF13 VPS4B DDX1 RTF2 NAIP TIMP2 TET3 STK10 RPL22L1 SHLD2 EBLN3P CNTRL IQGAP2 KMT2E TMPO ATG3 PGD MS4A7 TAPBP SNX3 TBC1D1 STK4 IL13RA1 SH3BGRL FCHSD2 XRCC5 YBX3 CSF3R MED13L AHCYL1 OGA EIF2S2 RNASE2 VMP1 MCPH1 NOP10 EIF3H DNAJB14 SEC11A SNX6 ESD HMGB2 ILK CCNI ECHDC1 ENO1 CYC1 TASOR ARL6IP1 DNAJC8 MRPL33 PSMD4 SUMO2 ERH CAST QKI H2AJ PHF3 CEBPB TRA2B ATP5F1B SMARCA4 SSR2 ASAH1 TLN1 CFLAR CHCHD5 CNIH1 DYNLL1 TUBA1A TIMM8B SIPA1L1 CD37 SRSF3 PCBP2 EIF3G CHMP2A SF1 SON MTDH CWF19L2 HNRNPA1 WDR83OS TRIR CALM3 H2AZ1 STAT3 TACC1 ATP6V0E1 ANAPC16 ITGB1 BRI3 MDM4 SIL1 BTF3 UBL5 GSTO1 MACF1 SNRPD2 UPF2 NDUFA3 GMFG ATP5PF METTL16 SMIM8 TPM4 FCER1G MYL12A PLCG2 RPS27L SRSF11 YBX1 BAD IFITM2 NUCKS1 STAB1 TIGD6 AKAP9 MYL6 RPLP0 MT-ND4L MT-ATP8 ZGRF1 CGAS MCTP1 DDX59 GABARAP C19orf38 ADAM9 KCNAB2 BICD2 SLC1A3 SPECC1 SATB1 ITGA4 SAMSN1 WASHC2A PTAFR RAB35 SCFD1 PGAM1 PTEN ADCY7 MANBA GNS ITGAM MRPS5 ZMYM4 MIS18BP1 EIF2A APBB1IP HCK VPS35 RNF24 SAP30 SEC24D TBXAS1 C2orf68 STIM2 PREX1 ZMPSTE24 GLB1 PPT1 PTPN6 CPVL CALHM6 TNFAIP2 LIMS1 CD33 PDS5B SCAMP2 PHF20 ATP11A CYTH4 IMPA2 LYRM2 SNN TBC1D9B SGK3 KCTD12 CD44 FOSL2 CYRIB ST8SIA4 PLBD1 AOAH SGTB LILRB3 SP110 SNX10 BCL10 NOTCH2 CSTA STAG2 NMI GALNT1 MXD1 NCKAP1L RNASET2 FHOD1 AIMP1 PARN LAP3 USP3 WWP2 ZNF106 STX7 RNF130 USP33 FNIP1 EXOC1 IPO7 QRICH1 BAX LHFPL2 IRAG1 CCT5 PIK3AP1 GPR183 TSNAX DENND10 MON2 PSMA1 WDR43 MAPK1 TBCK ATP5F1A TNFRSF1B SRP72 GNAQ FPR1 ANKRD26 EIF3M STRAP TOMM22 RTRAF ZBTB7B ZNF655 MYO1F CAPZA1 GRB2 EIF4G3 TPP1 DAZAP2 ICE2 POLR1D CCNY HADHB MAP1LC3B LMO4 ACAP2 PLAA PTPRA RANBP2 NCOR2 CACYBP AP1S2 SELENOF CYTH1 TMED4 PIGX ARFGAP3 PPP1CC PSMA5 MAFB PRKX REEP5 CSNK2B PHKB NIPBL OPA1 SDCCAG8 PGK1 ETHE1 PLD3 RPA1 ATRAID HAT1 HDAC2 NCOA3 HNRNPM APEX1 MOB1A XRCC6 SRFBP1 DHX40 SCLT1 TAX1BP1 PAPOLA MTIF3 ASPH GAK DEF6 USP53 FKBP3 MCL1 SELL SNX2 SP1 WHAMM SP3 CD48 SNRPD3 SNRPC LNPEP PRR13 SP100 RALBP1 TRAF3IP3 BCAP29 NAP1L1 DDX42 SYT11 MFGE8 SLU7 SEM1 PTBP3 HCLS1 CLTC CUL5 DNAJA1 UBXN4 CREBBP ARHGAP26 SETX CWC15 MBD4 CYP20A1 PPP3R1 R3HDM2 HSD17B11 DLGAP4 UGGT1 CHD9 NDUFS3 MPDU1 BAG1 LNPK PRDX3 SLC25A11 SETD2 MRPL18 SERPINB1 ENY2 GRK2 THBS1 TGFB1 SRRM1 XPO1 TIPRL SLC46A3 SSR1 FBXO7 UBE2B NDUFA1 CFD MGAT1 GOLM2 MYADM C6orf62 DGUOK ADAM10 ATP5F1C SNRPF PPP1CB MVP ZC3H6 ARL4A ARPP19 TRRAP ANP32E TIMP4 SNX5 RNF141 HNRNPA3 NDUFA10 GHITM XRN1 MORF4L1 N4BP1 TMEM250 BCAS2 BAZ2A GSR SERP1 REX1BD EIF3L TIAM1 PTPA ADGRE5 UBE2K EIF3F ACTR2 ATP5PD PHC2 HNRNPR CHPT1 ZFAND5 DYNC1LI2 MGAT4A PRKAR1A SHARPIN DDX46 KLF6 UBE2D2 VTI1B C9orf78 HADHA UBL3 MDH2 UXT PABPN1 IER2 OXA1L SNX1 SLC31A1 TAGLN2 POLR3GL ITPRIPL2 SMC1A GFM1 LAMTOR2 TAF1D SLIRP GSN AKAP13 TGS1 JAK1 CSDE1 UTP6 TUT7 HMGN2 CIB1 RPL17 FCN1 SET RNF19A ISCU MACROH2A1 HSD17B4 SPTY2D1 CPEB4 ARPC4 GIMAP7 HNRNPC COMMD6 CMTM6 ZFAS1 HSPA8 ATP5MC3 PRKCSH CBR1 DCUN1D1 ATP6V1F GLUD1 CNBP MPC1 ATP6V0B STX4 KRT10 MRPL51 PIAS2 TSPAN32 TPM3 PSMC5 LMO2 POLR3A CREBRF C11orf58 TMED10 TTC3 DUSP1 SUB1 RPS17 POLR2J GSTK1 COX7B MRPL54 STAU1 MDM2 AIP RXRA PABPC4 HNRNPK SAR1A GIGYF2 HNRNPDL PYCARD CD14 FOXO3 MRPL57 SQSTM1 JUNB ANKRD12 SCAF11 CAT HLA-DPB1 TYMP LST1 TCF25 PMVK DYNLRB1 NSRP1 PSMA7 ZBTB7A BAZ2B AURKAIP1 TNRC6A RPS10 IER3 HNRNPU NUCB1 ACIN1 BCAP31 EMP3 CTSB ATP13A3 BLOC1S1 COX6C COX5B PRELID1 AP2S1 SORL1 BPTF DDX5 ARL6IP4 CHCHD2 MIDN NOP53 PLEC SLC66A2 HSP90AA1 NFKBIA GPX4 ABHD18 ETFA CELF1 NKTR GNAS ATP5F1D FCGRT HSP90B1 BDP1 EDF1 SRRM2 CD63 P4HB TMBIM6 FPGS JUND YIPF4 COXFA4 ELOB SNTB2 ARGLU1 CCDC50 SRSF4 PRRC2C SCP2 LMNA TMEM245 RBM25 C1QB CES1 ENG ZC3H13 IGFBP7 MT-ND6 ZNF225 PIGO CCDC112 SRD5A3 STK26 RFX7 ACP3 TXNDC16 GOLPH3-DT UTP14A TIPIN MAP2K1 ZNF606 RAB2B ZNF8-DT DCK TM9SF1 ELMOD2 ZNF836 NBPF9 ABHD4 SAE1 WDR44 ARMCX1 SERGEF ZNG1A BCAS3 SEMA4D ANKAR POLD3 KCNE3 FZD2 TMEM69 ATIC TRAPPC5 OOEP KCNE4 WWC3-AS1 KPNA5 EIF2S3B SLC22A16 RBM4B MICAL1 DDX47 RAB3D SLC46A1 USP37 QPCT TIRAP PILRA TRAPPC14 BCL11A EIF2AK3 VWA5A CAD LITATS1 TTC21B PLEKHA2 ADO TRG-AS1 NT5DC4 HOXA10 HOXA9 HOXA2 WDSUB1 KCNJ2 SLC68A1 WDFY4 NLRP1 KCTD11 UPK3A RIPK2 PFKFB4 UPF1 RPL30-AS1 ANKRD27 ZNF181 ADAM28 VDR POLR3B SLC25A45 CKAP5 LINC00278 NOD2 H2AC11 SH3KBP1 FCGR1A CD1D SEPTIN6 PIK3R5 CTNNBIP1 PICK1 DLEU2 NSF C15orf39 CWC22 PIGBOS1 PTPRJ FOXN2 ATP10D FLT3 P2RY13 UBE2D1 ZNF430 TMEM106A ARHGAP15 TFCP2 SCYL2 IGSF6 OTULINL APOBR BAZ1A PRAM1 TMX1 CCR2 GPN1 TRAK1 PREP DDX41 PPP1R11 ZNF581 PARVG PTPRE MAP3K8 LILRB2 KAT2B ADAMTS2 RPP38 GAS7 CYRIA GNL3 METRNL NXPE3 LYST ARL5B CTSC GOLT1B SBF2 SIGLEC10 GMFB TRPS1 PSTPIP1 XRN2 DAAM2 RMP24 ADK MR1 UBE2E1 ING3 DGLUCY SEC23B SNX30 CHD3 THAP6 STT3A PPP3CB HRH2 POU2F2 ZCCHC7 TEX261 DNAJC2 CD300A TAFAZZIN NPRL3 IRF5 CYTH2 RBL2 TRIM23 DSE NCF2 MBP PROSER1 SLC25A24 R3HCC1L DOCK8 PARL GPER1 RIMOC1 ALOX5 HLA-DMA GGA2 PLEKHA3 RAB10 TIMM21 SLC4A1AP SLC49A3 ILKAP SMIM20 HK1 TLE4 ITGAX CNOT4 CLEC12A PPIP5K2 FAM215B MGST2 NIPSNAP2 CTBP2 MLLT1 CHST15 TCN2 PTRH2 WDR47 DPYSL2 UNC13D SRGAP2 VTA1 SMC4 SF3B2 ZCCHC9 NUBP1 IL18 CARD8-AS1 CPSF7 G6PD SLC25A36 FPGT NRIP1 PDP1 COG2 TMCO1 ZNF224 MTF2 TGFBI CEP85L ZNF808 UBXN11 ORAI2 FAM210A MKRN1 MDH1 C9orf72 TMEM209 CHMP4B RASSF2 RBM15B RPS6KA4 SH3GLB2 FCGR2A TUBGCP3 FMN1 ZNF385A PI4KB APOBEC3A ERCC3 MAPKAPK3 RIOX2 DAPP1 NOL7 PHTF2 IKZF1 RPAP3 ARB2A DENND6B SURF1 STK11IP FOLR3 YPEL2 NSFL1C SH2D4A SCNM1 SCIMP DENND1B TBC1D14 VPS35L CEPT1 LARP4B RNF44 LAIR1 SLC11A1 NUS1 RELT NCF4 TLR2 TXNDC12 DCTN4 FAM13A KLF16 SETD3 FILIP1L SULF2 SLX9 KMT2C RBM12 AGTPBP1 ATXN2L EFTUD2 RIN3 AMPD2 SNX13 PTPN12 MAPKAPK5 DMXL2 KIAA0040 PLB1 RTCA CASP4 RAB8B IMPDH1 SKIC3 OSBPL8 ADISSP TM9SF2 ENOX2 THOC7 LBR NVL BCAT1 AGFG1 ARHGAP19 DDX19B RPP14 MRPL35 WAS HLA-DMB COPB1 MTCH1 ZNF268 DNASE2 MIR4435-2HG PPM1M TNFRSF11A RHOG RAB8A RP2 RNF214 NIPA2 LTBR CNOT6 MAP3K1 SNUPN LPXN MPP1 ZNF431 VASP ZC3H4 THEMIS2 PLOD1 SIPA1 TCAIM CCDC174 COPS4 GUF1 CPNE8 TRIM8 EPRS1 CIRSR EXOC4 MCTS1 C12orf76 RIPOR2 ATP6V1C1 NAGK P3H1 POLR2A SMAP2 ARHGEF6 UNC50 NUDT16 HMGXB3 FBXL17 APH1B SNX17 ZBTB11 FH ZFHX3 GRK6 NUDT21 PPP1R8 JOSD2 MED15 ATP6AP1 SH3GLB1 PUM1 ATP6AP2 NUP62 ADA2 TMEM154 KPNA3 SSR3 LY96 CCDC159 ZDHHC7 PAK2 FES AP3S1 VCPKMT PPP2R3C PIAS1 TMED9 GIMAP1 CHCHD7 CD55 EXTL3 TBC1D20 SLC50A1 SPG21 SLC43A3 UBE2V1 CSNK1G1 ETAA1 KYNU C4orf33 STXBP3 ATF4 MORC3 SPG11 FGD4 SCAMP1 RAC2 PTK2B UBE2E3 MAP7D3 PDCD10 MS4A4E TTC17 MFAP1 HAUS6 SDE2 PSPH KLHL8 EPS8 TRNT1 ABI3 RASGRP2 CFP HSPA4 COX19 YTHDF3 EIF2B1 ING4 DDX27 MCUB CAPN2 SHOC2 DBR1 RAB7A FRMD8 RFX5 CAMK1D RASSF3 UVRAG PRPF8 OSBPL2 DENND4C TMEM131 TRIM38 IL17RA UBE4B UBR5 PPME1 CSE1L SNX27 BRPF1 FHIP1B AGO4 DNAJC13 ORMDL2 CARD6 SMIM12 THAP5 CIMAP1B JMJD1C ACSL5 PPP1R7 CHMP1B XPR1 ATP6V0D1 SYNRG STAMBP ZNF518A BCKDK DOK2 PLP2 ATG12 UBQLN1 ADPGK NFE2L2 DDX18 RWDD2B TAOK3 TENT2 GIMAP6 ABRAXAS1 OTULIN TM9SF4 UQCC5 OTUD4 GAB3 CDC40 CCDC144A C1QBP POLR2G PYGL ARK2N MAPKAP1 SCARB2 PARP6 MBTD1 HSF1 RSU1 LRCH4 ZYX TRMT10A PTGER2 SDAD1 STRN3 PLEK FBH1 VSIR MMGT1 PSMF1 PRPF40A WDTC1 IRF7 RSRP1 MED4 MED27 BECN1 FAM120B NEK1 REST COMMD9 PHC3 PPM1B CHMP2B NOB1 SNRPB2 CDC42EP3 IER5 RNPC3 ZNF784 RNASE6 RNF138 COA4 ARRB2 TPRA1 VEZF1 PDCD6IP RMDN3 SPIDR ERCC1 RAB32 QTRT2 ZNF706 ETF1 GNB2 ARID1B CNOT2 NIPSNAP3A MAT2A CLCC1 RNF41 CHMP3 CTSH ENTPD1 VMA21 DYNC1I2 PHF12 RBM26 EPC1 USP7 MBOAT7 WDFY2 WARS1 SLAIN2 SNAP23 DCAF7 MED11 CHAMP1 ANKRD44 CCT8 NLRP3 HERPUD1 SPOPL BRD2 AP1B1 GCLC E2F4 KDM7A TMEM70 BTN3A2 SMAP1 UTP18 POLG TMEM165 PPP1R9B GALNT3 PML ARL6IP5 PPP2R5E ANO6 IRF2BPL CKAP4 PSMA4 CYB561A3 VPS36 GAA PHF11 HIKESHI DIAPH2 RAP1GAP2 RTN3 UBR2 PCMT1 GSTCD CHURC1 EIF2AK4 UBE2J1 IST1 CKLF ZNF124 RBM17 EAPP CAPN1 SRPRA CCAR1 PPM1G NHP2 C5orf15 TDG USO1 CBX6 FUBP3 DOK1 LEPROTL1 FAM98A C22orf46P SRSF9 RCC1 NDE1 PDCD2 KDM5A GLOD4 CEP63 POGZ CMTM7 PPP1R12A PNPLA6 TNFAIP3 MRPL24 CBX3 POLR2E KMT5B SUPT20H BLOC1S6 UCP2 CYTOR WAC MALT1 SLFN12 SLC35B1 TAF8 AP3B1 CEBPZ PCM1 RPP30 MFSD6 SPAG7 ORC5 RFC2 ANXA7 CDK12 FLAD1 SPSB3 TAF3 RNH1 COPS5 ATAD2B OCIAD1 MSRA SCAF8 HPS5 HMG20B BRMS1 PSMB2 TERF1 TCOF1 DOP1B LARS1 CALHM2 NDST2 LYPLA1 PHB2 STAM CD53 LAMP2 HECTD4 GLT1D1 GTF3C1 RAB5B SH3TC1 LEPROT DUSP12 TRIM4 BORA LRRC8B EXOSC6 UQCRC2 NONO FAM200B EML4 MRGBP NINJ1 MAPK8IP3 RTL8C NCBP2AS2 ZFP36 ZSWIM7 IDH3G ELOVL5 PEPD METAP2 HIPK2 SHTN1 SMARCA2 TMEM126A NBR1 NCBP3 SUZ12 CAMLG SURF4 PANK3 JARID2 ATE1 SERINC3 INPP5B GABARAPL1 TRAPPC12 PARP12 GATAD1 HUWE1 PARP14 TCF12 ANXA11 NTPCR PGAP6 HNRNPUL2 FAM91A1 ASAP1 UBR3 SLC39A7 IGBP1 BATF TMEM160 TRABD SRP54 LCOR BLTP1 NRDC CNOT7 PKM MICOS10 ZNF350 SMARCA5 THOC6 POLR1F ZNF641 GDI2 MFN1 DNAJC7 CDC42SE1 CD164 RESF1 MSH6 TMOD2 CTSA THUMPD3-AS1 RFLNB HSPA5 SLF2 ZDHHC12 GPSM3 NFKB1 FAM168A RMP64 TMEM50A MTMR9 TBC1D2B MCRS1 KBTBD7 DNAJB6 EIF3B PAQR7 MYCBP2 RIF1 MRPS23 FUS TMEM9B PSMB4 UBA2 SRA1 MAT2B MPZL1 TRAPPC6A DNASE1L1 SLC3A2 RALA LSM7 MTSS1 UFL1 CAPZA2 TOMM20 TUSC2 VPS25 ERCC6L2 STAT5A PUM2 EMD FBXW11 NINJ2 SDHD ZMAT3 ATP6V1G1 TBC1D9 TRAPPC1 NRBP1 PRMT2 BID SZRD1 LRPAP1 FOCAD DRAP1 TRAM1 KRTCAP2 CLASP1 NCOA7 PPP1R2 PLIN2 GSS ANKRD10 SGSH UTRN AP1G1 MKLN1 RAB5C COPB2 AFF4 NDUFAF8 SMIM7 TMBIM4 SSB H1-4 CTSZ ZNRF1 CSK ARAP2 FNBP4 CD68 RPS6KA5 PTGES3 WDR37 IQSEC1 IMPDH2 DDX3Y CSNK1A1 GOLPH3 MYO9B PHF23 RAB35-AS1 STX3 ACOT8 GPAA1 PDCD6 MAX AGPAT3 CCNL1 PDLIM2 RPN1 SRP68 DNAJC15 NAPA RSL24D1 IARS1 TRIM66 CD47 NDUFB6 MTMR10 EIF6 DERL2 PGP SHPRH CUEDC2 CERS6 TIA1 NRGN CALCOCO2 UQCRFS1 NQO2 ADD1 PSMD7 EPG5 SLC25A13 NUMB HIF1A DDX3X SDHB ELMO1 ITPRID2 RRP7A KLHL24 HSBP1 RAB4A UBE3A ADRM1 EED ICE1 RSF1 EIF4EBP1 BANF1 GET3 MEMO1 U2SURP CUL1 ZMYM2 AASDH LIMD2 RPS6KB1 NPEPPS MICAL2 GOSR2 ZNF644 GOLIM4 MRPL44 DCTN6 FBL GEMIN6 ELK3 TNKS2 U2AF2 SNX9 USP34 PPP1R35 STYX TTC1 TUBGCP2 H1-10 WBP2NL TM2D1 CAND1 ARPC1B SUCLA2 SLC27A4 PQBP1 ZNF331 CAPZB RAD23B SRSF5 SUCLG1 GLRX ARL2BP PIN4 ASH1L SEPTIN9 ZNF91 UVSSA EP400 MRPL30 GPAT4 ATP5MF SDF4 KDSR YME1L1 AP1AR MLEC PDIA6 NTMT1 RCN2 RBM12B INPPL1 ARID1A NBDY LUC7L2 HCCS CHD1 BABAM1 FAAP20 TCHP KARS1 KLF3 RPL26L1 CLYBL PAFAH1B2 HMGN3 ABHD17B ERGIC3 KRIT1 C1orf122 RTN4 NAXE GCC2 PNRC1 PKN1 TMED7 ANP32B DDA1 MAN2A1 SIAH1 VAC14 SLC4A2 UBXN7 ZNF148 ERP29 PPP1R15B CHMP4A URM1 LRRC75A NDUFS4 TMEM248 ACTN4 PPP6C LSM8 TSN ZNF638 PSIP1 ZP3 HINT2 SOX4 LRP1 TNFAIP1 ZNF619 ZSCAN32 EIF4E2 ZNF366 KCTD20 SELENOH OAZ2 NARF ILF3 SRSF7 GALK1 CNTLN UHMK1 HTT HDLBP MAPK1IP1L SSU72 LSM3 PLAGL2 COX17 RAB21 NDUFA5 SKP1 CYBRD1 RNF213 ABRACL TOMM5 ATF6 TMOD3 FBP1 BCL7C RSBN1L MSN TCF20 PDGFC GOSR1 AFF1 PCGF6 MCM5 PPP2R5A JKAMP ANP32A TBCA SEC23A FEM1B ZNF333 VHL UFC1 SARNP ARF1 AGO2 NSD3 PTTG1IP MAP2K2 AUP1 NDUFS8 CTNNB1 ESF1 RNF181 PPA2 SAFB2 AAMDC IL10RB-DT POLB PNPLA2 BOD1L1 SNRPB EIF4B ECPAS CEBPG BIRC3 GPRASP1 SRI AP2M1 MFN2 CHP1 EVA1B EP300 ICMT
|
10cc50a0-af80-4fa1-b668-893dd5c0113a
|
ff69f0ee-fef6-4895-9f48-6c64a68c8289
|
Single-Cell Atlas Of Human Pediatric Liver Reveals Age-Related Hepatic Gene Signatures
| null |
Background:
The liver plays a critical role in metabolism and immune function, yet the contributions of its heterogeneous cell types to these processes remain unclear. While most liver studies focus on adults, pediatric liver diseases often present differently, underscoring the need for age-specific research.
Methods:
To better understand cellular drivers of childhood liver diseases, we generated single-cell RNA-sequencing maps of the normal pediatric liver and used this map to examine disease-related populations in biopsies from pediatric patients with intestinal failure–associated liver disease (IFALD).
Results:
The normal pediatric liver map consists of 42,660 cells from 9 donors under 17 years of age. Compared with normal adult liver (26,372 cells; 7 donors, age 26–69), pediatric livers exhibited differences in myeloid populations. Specifically, pediatric Kupffer-like cells (MARCO+C1QA+VSIG4+) exhibited higher expression of immune activation genes, including CCL4, CCL3, and IL1B. In vitro stimulation confirmed more IL-1β-secreting myeloid cells in pediatric versus adult livers, supporting these findings. Using the pediatric atlas as a reference, we analyzed 3 IFALD biopsies (11,969 cells; 3 donors, under 9 y of age) and identified increased expression of fibrosis-associated genes (eg, LY96) in Kupffer-like cells. In addition, mesenchymal cells in IFALD showed fibrotic gene modules resembling adult liver cells more than healthy pediatric cells. These signatures, undetectable when comparing IFALD to adult liver alone, highlight the value of a pediatric map.
Conclusion:
Taken together, our healthy pediatric liver atlas reveals distinct age-related signatures and provides a background against which to interpret pediatric liver disease data.
|
Sonya MacParland
|
s.macparland@utoronto.ca
|
26
|
GRCh38
|
v92
|
Cell Ranger count v3.1.0
|
no
|
C82
|
26 years
|
unknown
|
unknown
|
False
|
5d7af9f2-45b2-4c68-b967-204db4d5f2cc
|
fresh
|
UBERON:0001117
|
HsapDv:0000120
|
surgical resection
|
tissue
|
na
|
enzymatic dissociation
|
unknown
|
unknown
|
19f2ef36-b787-4fe9-ad8e-f8c7b5a40983
|
cell
|
unknown
|
2b12dc3e-e1b6-49e8-804a-dbd24e59b042
|
EFO:0009922
|
3 prime tag
|
University of Toronto
|
nan
|
Illumina NovaSeq 6000 (EFO:0008637)
| false
|
CL:0000084
|
CD3+ T-cells
|
PATO:0000461
|
PATO:0000384
| 2,765.009867
| 1,027
|
Healthy
|
Adult
| 0.09548
| 0.433249
|
cell
| 18.423647
| 0.091119
| -0.088111
|
S
|
0
|
Adult Healthy
|
Perfusion
|
T cell
|
10x 3' v3
|
normal
|
male
|
caudate lobe of liver
|
unknown
|
26-year-old stage
|
LQ+exQB|Je
|
MT-CO2 MALAT1 MT-CO3 MT-CO1 MT-ATP6 MT-CYB MT-ND4 B2M RPL10 TMSB4X RPS12 RPL13 TPT1 MT-ND3 RPS27 RPS29 MT-ND1 RPLP1 RPS14 RPS27A RPS8 EEF1A1 RPL41 MT-ND2 RPS19 RPS18 RPL27A RPLP2 RPL21 RPL28 RPL30 RPS6 CCL5 RPS16 RPS3 RPL34 RPS23 RPL19 RPL18A RPS2 ACTB RPL18 RPL29 RPL35A RPL8 RPL7A RPL32 HLA-C RPSA RPS20 RPS28 RPL11 RPL13A CD3D HLA-B RPL26 RPL10A RPL37 RPL9 RPS11 RPS3A FAU RPL15 RPS15 TMSB10 CALM1 HLA-E HLA-A PFN1 RPL39 RPS4X RPS15A RPS13 MT-ND5 SON HCST PFDN5 RPS26 RPL7 RPS24 RPS9 CD3G PRF1 CLIC1 H3-3A IFITM2 EIF1 PTMA MYL6 RPL24 RPL23A RPL5 RPL6 RPS7 UBA52 RPS5 RPL3 MT-ND4L LSP1 GZMH GZMA CCND3 SUB1 IL32 ENO1 RBM3 SRGN MYL12A DDX5 HMGB1 PLCG2 ATP5MG RPL36AL CD63 EEF1B2 ATP5F1E RPL38 RPL22 RPLP0 OAZ1 RPL14 RPL37A RPL36 RPL12 FTH1 FTL SKAP1 TUBA4A CXCR4 TRBC1 CMC1 CD48 GZMK IFITM1 CD53 PTPRC CCL4 SSR2 CD99 YWHAZ EIF3F CDC42 EID1 BTG1 BSG HNRNPA1 CNBP BRK1 TOMM7 BTF3 TCF25 GMFG NKG7 GNAI2 ARPC3 ROMO1 PABPC1 ITGB2 ITM2B SLC25A6 CFL1 EEF1D RPL27 RPL23 SERF2 RPS25 GAPDH RPL35 IFI27 MT-ND6 SYTL3 GNG2 STK17A FCRL6 APOBEC3G CD2 MATK NGDN IL2RG CCDC186 PRKDC PSTPIP1 TMCO1 CD69 SF3B2 CCNQ RASA2 PRKACB ITM2A IRF1 ANKRD39 ANKRD44 CCT2 ARL6IP5 ALOX5AP CMTM3 SRSF7 COMMD7 BAX LNPEP IFI16 EVL CD7 CAPN2 UBE2I MAGOH URI1 ISG20 SNRPF UBXN4 ABI3 NAP1L1 EPB41L4A-AS1 JAK1 C15orf40 SET COMMD6 GPSM3 PSMB9 SUMO2 METAP2 CAPZB GIMAP4 JMJD1C ADGRE5 VDAC2 REEP5 CD164 JPT1 MBD4 UFC1 SNU13 FAAP20 HP1BP3 MORF4L1 PARK7 RBCK1 HNRNPF SIGIRR SPOP EIF3E NEDD8 SF3B1 C19orf53 BBLN COX6C EIF3K TAGLN2 TPI1 SLTM APRT NOP53 NPM1 SLC25A5 TMEM256 MIF F2R MTMR10 POLR2J EMP3 ATP5MC2 PTAR1 NUCKS1 SCOC GUK1 ATP5F1D GSTP1 LAMTOR4 COX7C NDUFS7 HINT1 SRSF11 UBC ELOB S100A10 RPL31 COX4I1 ZFP36L1 MIDN RACK1 ALB MT-ATP8 CSGALNACT2-DT PRR7 ATP6V0E2 S1PR5 BACE1-AS GPR174 ZNF235 SLC10A7 SLC39A10 SENP1 AGAP5 TRPA1 LINC03057 ZNF236-DT BRF2 IFT172 ABHD12 TTI2 EZH2 LINC02987 TTC16 TP53RK CUTC GTF2E1 PLK4 CCDC51 RIOX1 XNDC1N ZFP69B TFAP2E-AS1 DCUN1D5 CCDC9 LCK PTGDR ARHGAP15 CD8A PTPN22 ZAP70 CWC22 PLEKHF1 RUNX3 IKZF3 NIFK PHF6 VRK1 SP4 FRG1 ZNF567 DTHD1 APOBEC3C CISH TNFAIP8 NIN PTPN7 TBC1D10C NAA16 BTG1-DT RHOH POC1B MBP XCL2 BCL2L12 C1orf174 APBB1IP KIAA0040 RAC2 ITGB2-AS1 TRGV9 H2AX CEP44 DDX41 LYRM2 BAZ1A CD247 BTN3A1 DOCK8 SURF6 EIF2A DNMT1 STAMBPL1 APBA2 LPXN GTF3C3 KLRF1 SPON2 STK39 CASP8 PPIH PHF5A THYN1 BUB3 IRAG2 PPP2R3C SF3B3 C1D GGPS1 RNF157 RABEP1 GNPTAB AKNA STIP1 CRLF3 KBTBD4 SH2D3C SREBF2-AS1 DAXX SIRPG ABHD14A IRF9 RPA2 IPCEF1 PAG1 TRAPPC4 HIKESHI TRBC2 RINL CD3E CCDC12 C1GALT1 DHX9 RNASEH2B TMC6 CASP4 FNBP1 THUMPD1 TLK1 PSMB8 SAMD9 RAB8A USP28 RPF2 TAF3 RRM1 ACBD3 ZBTB38 CELF2 MPHOSPH10 ZNF32 CYRIB APMAP PPP6R1 ATM UBLCP1 THRAP3 CD44 MTM1 SKIC3 PTPRE VRK3 FKBP11 SLC4A7 TCERG1 PARVG HAGH ELF1 OSER1 ZNF609 RSBN1 ZNF33A SLC75A1 SEL1L3 PCMT1 IL16 SURF1 PTPN12 KLRD1 SRPK2 POLR2B SYNC PLAAT4 CEP350 KHDRBS1 POLR1H CCDC167 RGS10 NEDD9 CCDC66 GIMAP1 HUS1 RSRP1 ANAPC7 DARS1 FYB1 UTY STK4 MYSM1 LSM6 MICB ZNF121 ASNSD1 CYLD NCBP2AS2 NUP153 ARPC5L POLR2G FERMT3 G3BP2 PAK2 HLA-F COPS6 RAD21 PPP1R18 CGRRF1 MANBAL MRM2 PSMA5 ABHD17A RGS3 SMAP1 SLC16A1-AS1 LYRM4 KIR2DL3 FMNL1 APTX ELMO1 SENP7 PRKAA1 LRIG2 OSTF1 UBASH3A NOL4L MAPKAPK3 CDK12 CCNK BCAS2 CNOT2 MOAP1 MRPL35 SLFN13 SRPRA SNHG12 TIPRL TMEM160 EIF4H DEK GPATCH8 PJA2 POLR1D PRPF8 USP1 RPP21 TNFRSF10B CRIP1 C9orf78 H1-4 DDX24 DNAJC1 SH3GLB1 UCHL5 GZMM BIRC6 TADA3 PIP4P1 FUS SRSF9 STK16 BZW1 COMMD2 PAXX KLF13 SP100 MAGED2 PDCD2 ARHGAP18 PPP4C KLC1 TSPAN31 HERC4 SETD2 SLA PHB1 TBCB PTK2B ZNF267 KRTCAP2 TOMM5 TMEM263 WDR76 SLAIN2 RPL22L1 KIF21A LSM7 MTPN DCP2 SUCO TMX2 SLC39A3 SNRPD3 PDCD6 JADE1 NRBF2 GPR180 SF3B6 SBNO1 GIMAP7 REXO2 ICE1 CCDC107 ZRANB2 CINP ARL1 ORMDL1 CCAR1 EMC4 TFPT ELOF1 PTGES3 PPP2R2D SHLD1 KMT5B NAP1L4 ATP6V1G1 SRSF5 LSM3 ZNF493 TOMM20 ISCU IDH3G DPY30 STMP1 PSMG2 CBX3 CHMP4A SUMO1 RBPJ DDX6 C1orf122 PAFAH1B1 C6orf120 IFI27L2 SRSF1 RARS2 AIP PGP PHF1 URM1 CCDC82 BUD31 ABCF1 UBE3A SZT2 UFD1 SDHAF4 SEM1 CAPZA1 NDUFB8 TBL1X UBXN2A CORO1A KDM5A PKN2 SHOC2 RRAGA CLOCK VAMP2 CCNY NHERF1 CENPX PAIP2 TM9SF2 U2AF1L4 TTC1 CCL3 INPP5D RWDD1 PYURF NDUFAF2 UQCRC1 TMEM30A CD2AP UBR5 FNTA COPE IMMT IGIP UBA6 DNAJB6 COPZ1 DCAF15 ANKRD13D SPCS2 NUDT1 COQ10B ATG14 GPBP1L1 ITPA ANAPC11 UXT SIRT2 CDV3 SELENOH PHF3 UBE2M NT5C2 MDH2 SNRPG CHMP5 SNHG9 ZNF511 SRSF10 KPNA2 UBALD2 HNRNPDL PLD5P1 PAXIP1-DT CCDC91 CCDC25 ASXL2 UHMK1 ATXN1 HSPD1 EIF4G2 CFDP1 KIAA1143 C19orf48P EIF3G ERP29 MRPS34 RTF1 EIF1AX USP34 TMEM203 RBM33 INO80D POLM PSMB7 DAD1 METTL16 SEC61G CD37 MSL3 ATP2B4 RABGAP1L MAT2B WIPI2 SNX29 COPS9 NOP10 SEC11A TOX4 SRSF2 ISG15 MSN HMGN2 PLAAT3 DSTN POLE4 PDCD5 SERBP1 ECH1 ISG20L2 EFHD2 RNF115 SH3BGRL XPO1 TRIM13 DDHD2 CDC37 SEPTIN9 VCP C12orf57 H2AZ2 PSMC5 RNASET2 TMEM43 EIF5 ARF1 UQCR10 DDX21 WDR33 EIF4B SRP14 GYPC CAP1 TPM3 KIAA0232 SMIM7 TCIRG1 TAF9 THUMPD2 RAB14 CCM2 SNX3 MPHOSPH8 NDUFA12 VAPA WBP4 TMA7 RPAP2 ENY2 ATP5MC1 PSMB1 ARHGDIB FLOT1 EIF5A NPEPPS BLVRA CAPNS1 SPCS1 PSMA7 LINC01003 ANAPC16 ENTPD4 GATC PUM2 POMP CSNK1A1 JTB CCDC57 SSU72 OST4 CNOT8 GGNBP2 MRPS15 EPS15 MRPS33 PIK3R1 DYNLT1 COX7B PEF1 YWHAB ARL2 PTP4A2 TECPR1 RWDD4 NDUFA2 DNM2 FNDC3A SRSF3 HNRNPA2B1 ARF5 MIA2 MRPL14 MCCC2 LY6E ATG13 SUPT20H CIRBP REV3L PSMA2 IMP4 RPS4Y1 PLIN2 HSP90AB1 CD81 STIM1 TAF10 UBL5 ATP9B TRIP12 GTPBP4 TFG CTDNEP1 COX7A2 NHLRC2 RPN2 SARNP SNAPC3 EXOC6B PPAN CCDC85B CDIP1 NAA10 RNF181 DDRGK1 DDX3X NEDD1 ATMIN RBM39 SNX1 UQCRH PPP2R1A PMVK MRPL34 NOSIP MAP4K4 ATP6V0E1 KLHL36 KIDINS220 PCBP2 BAG5 SLC25A3 CAMTA1 ZSWIM7 RIOK3 PIK3AP1 PAN3 BCL9L H3-3B JUNB RPL4 ANKRD10 CHCHD2 SLX4IP SCAND1 WSB1 SNRNP48 SNX5 CDK13 RNF7 C6orf62 COX5B ABHD5 GMPPA TTN COX5A YJU2B GDI2 STOM PRPF38B ZNF512 NDUFS1 UBE2K MYL12B FBXO11 NDUFB10 TPGS1 ACIN1 UQCR11 DDX54 NOTCH2 GNAS ACTG1 SPTAN1 ARL6IP4 MAPK3 FAM174C NRIP1 UBB CHPT1 SFPQ PRDX5 CARHSP1 YBX1 LRRFIP1 STARD7 DAP HLA-DPB1 HLA-DQB1 FOXP1 VKORC1 SAT2 NENF MRPL41 ZNHIT1 IFIT5 OAS1 DBI BST2 HSD17B4 COXFA4 AKT2 SRRM2 EDF1 USP22 WDR45B BDP1 ADIPOR2 PTBP1 PNPLA2 TGFBR2 DEXI PPIA TXNIP RNF13 PGLS ITCH EIF4G1 PANK2 RELL1 TMBIM6 CIAO3 HAPSTR1 CTNNB1 AP2S1 SSR4 PIAS2 RPS21 KMT2B DFFA TGFBR3 DUSP23 SSH1 COMT RARA MRPL28 NCLN OSGIN2 PYCARD RBM25 HERC2 OAZ2 SLC9D1 CHCHD10 LASP1 PIGU NPC2 PRKACA MAP3K11 ARL4D APLP2 PRDX6 RNF130 BTBD7 EVA1B CYBA NACA SREK1 ARPC1A SH3BGRL3 CRTC1 ZNF318 TCEAL4 PPP1R16A ATP6V0A2 RHBDD1 SFMBT1 PIM3 FLT3 MPST RAB13 CTSD MT1X MT2A CYB5A PPP1R3B HPX ARG1 TMT1A AMBP NEAT1 APOE SERPINA1 APOC1 HP LINC02537 LTA TNF LST1 LTB VEGFA NFKBIL1 ABHD16A LY6G6F LY6G6F-LY6G6D LY6G6E YIPF3 POLR1C LY6G6D ATP6V1G2 LY6G6C DDAH2 MSH5 MSH5-SAPCD1 LRRC73 SAPCD1 TJAP1 SAPCD1-AS1 MPIG6B NCR3 MRPS18A AIF1 PRRC2A BAG6 APOM C6orf47 C6orf47-AS1 XPO5 GPANK1 CSNK2B MAD2L1BP LY6G5B LY6G5C GTPBP2 POLH-AS1 POLH RSPH9 MEP1A TRIM39-RPP21 ANKRD66 LINC02569 GNL1 PLA2G7 TDRD6 PRR3 TDRD6-AS1 SLC25A27 CYP39A1 DLK2 RCAN2 ENPP5 ENPP4 PPP1R10 MRPS18B ATAT1 C6orf136 CLIC5 DHX16 NRM RUNX2-AS1 RCAN2-DT OR2H2 MOG ZFP57 HLA-G HCP5B PTCHD4 OPN5 ADGRF4 HCG9 PPP1R11 ADGRF2P ADGRF5 TRIM31 TRIM31-AS1 CD2AP-DT TRIM40 TRIM10 TRIM15 TNFRSF21 ADGRF1 ADGRF5-AS1 TRIM26 HCG18 TRIM39 RNF39 HCG22 C6orf15 PSORS1C1 SLC29A1 CDSN MYMX PSORS1C2 CCHCR1 TCF19 POU5F1 HCG27 RUNX2 MICA-AS1 CAPN11 MICA LINC01149 TMEM63B MCCD1 DDX39B ATP6V1G2-DDX39B LINC03040 DDX39B-AS1 SCIRT LINC02571 MDC1 SUPT3H CDC5L MDC1-AS1 TUBB IER3-AS1 IER3 HCG20 LINC00243 LINC02570 SPATS1 MUC22 DDR1 GTF2H4 AARS2 VARS2 DRC5 SFTA2 MUCL3 HCG21 MUC21 TMEM151B NFKBIE SLC35B2 DDR1-DT BAK1 KIF6 KCNK16 LINC00336 ITPR3 UQCC2 KCNK17 IP6K3 LEMD2 MLN LINC01016 GRM4 CYP21A2 SMIM29 NUDT3 KCNK5 RPS10-NUDT3 SAYSD1 GLP1R DNAH8-AS1 DNAH8 RPS10 DNAH8-DT GLO1 PACSIN1 SPDEF HMGA1 B3GALT4 TREM1 WDR46 TREML4 TREML2 PFDN6 TREM2 RGL2 TAPBP TREML1 NFYA APOBEC2 DAAM2 OARD1 UNC5CL ZBTB22 KIFC1 CUTA SYNGAP1 SYNGAP1-AS1 LRFN2 ZBTB9 LINC00951 TDRG1 MOCS1 DAAM2-AS1 TSPO2 PPIL1 TULP1 LINC03135 CPNE5 FKBP5 RAB44 ARMC12 CDKN1A PANDAR CLPSL2 CLPSL1 STK38 BTBD9-AS1 LHFPL5 SRPK1 KCTD20 PXT1 ETV7-AS1 SLC26A8 MAPK14 ETV7 BNIP5 MAPK13 PNPLA1 BRPF3-AS1 BRPF3 CLPS ILRUN ILRUN-AS1 BTBD9 ZFAND3 ZFAND3-DT SNRPC BLTP3A MDGA1 LINC02520 TAF11 ANKS1A CMTR1 RNF8 C6orf89 SCUBE3 TBC1D22B TMEM217 PIM1 SCUBE3-AS1 ZNF76 FGD2 DEF6 PPARD MTCH1 FANCE PI16 TEAD3 TCP11 SKIC2 DXO CUL7 WHR1 C4A C4A-AS1 RRP36 KLHDC3 C4B MEA1 PPP2R5D C4B-AS1 VPS52 ATF6B FKBPL PEX6 PRRT1 GNMT LINC02976 CNPY3 PTCRA PPT2 PEX39 RPL7L1 PPT2-EGFL8 EGFL8 TNXB ABCC10 VWA7 VARS1 CRIP3 SLC22A7 LSM2 TTBK1 HSPA1L HSPA1A DNPH1 CUL9-AS1 HSPA1B SNHG32 NELFE SLC44A4 CUL9 SRF EHMT2-AS1 PTK7 KLC4-AS1 EHMT2 C2 MRPL2 ZBTB12 C2-AS1 CFB KLC4 NEU1 HLA-DOB TAP2 PRICKLE4 PSMB8-AS1 FRS3 PGC TAP1 TFEB-AS1 HLA-DMB HLA-DMA TFEB BRD2 AGPAT1 HLA-DPA1 MDFI FOXP4 HCG24 COL11A2 RXRB SLC39A7 HSD17B8 LINC01276 RING1 FOXP4-AS1 NCR2 HCG25 HLA-DOA RNF5 AGER PBX2 NOTCH4 TSBP1-AS1 TSBP1 BICRAL TBCC PRPH2 UBR2 TRERF1 MRPS10 GUCA1B HLA-DQB2 C6orf132 TAF8 BTNL2 HLA-DRA BYSL HLA-DRB5 HLA-DRB1 MED20 HLA-DQA1 USP49 HLA-DQB1-AS1 TOMM6 HLA-DQA2 GUCA1A AKAP12 ZBTB2 RMND1 DCPH1 CCDC170 ESR1 SYNE1 SYNE1-AS1 SYNE1-AS2 NANOGP11 FHL5 VIP LINC02840 FBXO5 MTRF1L RGS17 OPRM1 CNKSR3 SCAF8 TIAM2 TFB1M MYCT1 TAB2 TAB2-AS1 SUMO4 ZC3H12D PPIL4 GINM1 KATNA1 LATS1 NUP43 LRP11 MTHFD1L RAET1E-AS1 RAET1E RAET1E-AS1 RAET1G ULBP2 ULBP1 RAET1L ULBP3 PPP1R14C IYD PLEKHG1 LRP11-AS1 WTAP SOD2-OT1 ACAT2 TCP1 MRPL18 PNLDC1 MAS1 IGF2R AIRN SLC22A1 CLDN20 SLC22A3 LPA PLG MAP3K4-AS1 MAP3K4 AGPAT4 PRKN PACRG PACRG-AS2 PACRG-AS3 SLC22A2 NOX3 ARID1B ARID1B-AS1 TMEM242 TMEM242-DT ZDHHC14 SNX9 SNX9-AS1 SYNJ2 SERAC1 SOD2 TULP4 TMEM181 EZR EZR-AS1 LINC02901 RSPH3 TAGAP-AS1 TAGAP FNDC1-AS1 FNDC1 LINC02529 GTF2H5 PEX7 SLC35D3 NHEG1 IL20RA IL22RA2 IFNGR1 OLIG3 LINC03004 LINC02539 WAKMAR2 UST-AS2 SIMALR LINC02865 PERP ARFGEF3 PBOV1 SMIM28 HEBP2 NHSL1 NHSL1-AS1 CCDC28A-AS1 TNFAIP3 LINC01312 TCF21 TBPL1 SLC2A12 SGK1 CT69 LINC01010 LINC03002 ALDH8A1 HBS1L MAP3K5-AS1 MYB-AS1 AHI1 AHI1-DT LINC02524 PDE7B PDE7B-AS1 MTFR2 BCLAF1 MAP7 MAP7-AS1 MAP3K5 MYB PHACTR2-AS1 LTV1 ZC2HC1B PLAGL1 SF3B5 STX11 UTRN EPM2A FBXO30 EPM2A-DT CCDC28A GRM1 RAB32 ADGB-DT ADGB STXBP5-AS1 LUADT1 STXBP5 SAMD5 SASH1 UST UST-AS1 SHPRH ECT2L REPS1 ABRACL HECA TXLNB CITED2 LINC01625 FILNC1 LINC02941 NMBR PHACTR2 GJE1 VTA1 LINC02919 ADGRG6 HIVEP2 HIVEP2-DT LINC01277 AIG1 ADAT2 PEX3 FUCA2 NMBR-AS1 USP42 CYTH3 FAM220A RAC1 DAGLB KDELR2 GRID2IP ZDHHC4 INTS15 ZNF853 PACRG-AS1 ZNF12 RSPH10B2 CCZ1B COL28A1 MIOS-DT MIOS RPA3 UMAD1 GLCCI1-DT GLCCI1 ZNF316 FOXK1 AP5Z1 RADIL PAPOLB MMD2 RBAK-RBAKDN RBAK RBAKDN SLC29A4 TNRC18 ANKRD61 LINC02983 LINC03073 FBXL18 FSCN1 RNF216 OCM CCZ1 RSPH10B PMS2 AIMP2 EIF2AK1 TNRC18-AS1 AGR3 AHR LINC02888 LINC02889 SNX13 PRPS1L1 HDAC9 HDAC9-AS1 TWIST1 FERD3L ICA1 TMEM196 MACC1 MACC1-AS1 ITGB8-AS1 ITGB8 ABCB5 SP8 LINC01162 DNAH11 CDCA7L STEAP1B POLR1F ICA1-AS1 NXPH1 MGC4859 PHF14 THSD7A TMEM106B VWDE C7orf78 SCIN ARL4A AGR2 DGKB AGMO MEOX2 LINC02587 CRPPA CRPPA-AS1 SOSTDC1 LRRC72 ANKMY2 BZW2 TSPAN13 ETV1 AFDN KIF25-AS1 KIF25 FRMD1 DACT2 SMOC2 LINC01615 THBS2-AS1 THBS2 LINC02519 SDK1 PHF10 DYNLT2 ERMARD LINC00242 LINC00574 LINC01624 DLL1 FAM120B TBP LINC03015 WDR27 CAHM QKI C6orf118 PDE10A LINC00602 TBXT PRR18 SFT2D1 MPC1 MPC1-DT AFDN-DT RPS6KA2-AS1 CEP43 CCR6 TCP10L2 GPR31 HPAT5 UNC93A TTLL2 TCP10L3 LINC02538 LINC02487 RPS6KA2 INTS1 MAFK TMEM184A PSMG3 PSMG3-AS1 ELFN1 LNCRI ELFN1-AS1 MAD1L1 SNX8 LINC03014 CHST12 GRIFIN LFNG BRAT1 IQCE TTYH3 AMZ1 GNA12 CARD11 CARD11-AS1 SDK1-AS1 EIF3B FAM20C FOXL3 PDGFA PDGFA-DT PRKAR1B PRKAR1B-AS2 PRKAR1B-AS1 DNAAF5 SUN1 GET4 MICALL2-DT ADAP1 COX19 CYP2W1 CHLSN GPR146 CHLSN-AS1 GPER1 ZFAND2A ZFAND2A-DT UNCX MICALL2 GET4-AS1 ELOVL4 TTK BCKDHB TENT5A LINC01526 LINC02542 IBTK TPBG UBE3D DOP1A TARID RWDD2A ME1 PRSS35 SNAP91 RIPPLY2 CYB5R4 LINC02857 MRAP2 CEP162 LINC01611 PGM3 CGAS MTO1 EEF1A1-AS1 SLC17A5 CD109-AS1 CD109 COL12A1 TMEM30A-DT FILIP1 FILIP1-AS1 LINC01621 MYO6 IMPG1 LINC02540 HTR1B MEI4 IRAK1BP1 PHIP HMGN3 HMGN3-AS1 LCA5 SH3BGRL2 SENP6 GABRR2 UBE2J1 RRAGD ANKRD6 ANKRD6-AS1 MDN1 MDN1-AS1 CASP8AP2 GJA10 BACH2 TBX18 CASC6 LINC02531 EPHA7 MANEA-DT MANEA FUT9 UFL1-AS1 UFL1 GPR63 NDUFAF4 MAP3K7 TBX18-AS1 LINC02535 NT5E SNX14 SYNCRIP HTR1E CGA ZNF292 GJB7 SMIM8 GABRR1 CFAP206 SLC35A1 ORC3 AKIRIN2 SPACA1 CNR1 RNGTT PNRC1-DT PNRC1 SRSF12 PM20D2 C6orf163 TRAM2 TRAM2-AS1 TMEM14A GSTA2 GSTA1 GSTA5 GSTA3 GSTA4 CILK1 FBXO9 DDX43 ELOVL5 GCLC GCLC-AS1 KILH LINC01564 KLHL31 LRRC1 MLIP MLIP-AS1 TINAG GCM1 MMUT CENPQ GLYATL3 C6orf141 RHAG CRISP2 CRISP3 PGK2 CRISP1 DEFB133 EFHC1 DEFB113 DEFB110 DEFB112 TFAP2D TFAP2B PKHD1 LINCMD1 IL17A IL17F MCM3 PAQR8 DEFB114 ADGRB3-DT ADGRB3 LMBRD1 COL19A1 COL9A1 LINC01610 FAM135A-AS1 FAM135A B3GAT2 OGFRL1 TINAG-AS1 LINC01626 RIMS1 KCNQ5 KCNQ5-AS1 KHDC1L KHDC1 KHDC1-AS1 DPPA5 KHDC3L OOEP OOEP-AS1 LINC00472 FAM83B HCRTR2 GFRAL HMGCLL1 BMP5 COL21A1 DST DST-AS1 BEND6 KIAA1586 LINC02549 ZNF451-AS1 BAG2 RAB23 PRIM2 KHDRBS2 FKBP1C LGSN PTP4A1 EYS SCAT8 ERVH-3 ZNF451 MCM9 ASF1A FAM184A MAN1A1 TBC1D32 GJA1 HSF2 SERINC1 PKIB FABP7 KLHL32 CLVS2 TRDN TRDN-AS1 NKAIN2 RNF217-AS1 RNF217 TPD52L1 HDDC2 HEY2-AS1 LINC02523 SMPDL3A COL10A1 TSPYL4 DSE TSPYL1 CALHM6-AS1 CALHM6 TRAPPC3L CALHM5 CALHM4 RSPH4A PLN KPNA5 FAM162B GPRC6A RFX6 VGLL2 ROS1 DCBLD1 GOPC NUS1 SLC35F1 CEP85L ZUP1 MED23 ENPP3 OR2A4 CTAGE9 ENPP1 CCN2 LINC01013 MOXD1 STX7 TAAR9 HEY2 TAAR6 TAAR5 TAAR2 TAAR1 VNN1 VNN3P VNN2 SLC18B1 LINC00326 EYA4 EYA4-AS2 TAAR8 NCOA7 NCOA7-AS1 HINT3 TRMT11 CENPW RSPO3 RNF146 ECHDC1 KIAA0408 MTCL3 AKAP7 LINC02536
|
10cc50a0-af80-4fa1-b668-893dd5c0113a
|
ff69f0ee-fef6-4895-9f48-6c64a68c8289
|
Single-Cell Atlas Of Human Pediatric Liver Reveals Age-Related Hepatic Gene Signatures
| null |
Background:
The liver plays a critical role in metabolism and immune function, yet the contributions of its heterogeneous cell types to these processes remain unclear. While most liver studies focus on adults, pediatric liver diseases often present differently, underscoring the need for age-specific research.
Methods:
To better understand cellular drivers of childhood liver diseases, we generated single-cell RNA-sequencing maps of the normal pediatric liver and used this map to examine disease-related populations in biopsies from pediatric patients with intestinal failure–associated liver disease (IFALD).
Results:
The normal pediatric liver map consists of 42,660 cells from 9 donors under 17 years of age. Compared with normal adult liver (26,372 cells; 7 donors, age 26–69), pediatric livers exhibited differences in myeloid populations. Specifically, pediatric Kupffer-like cells (MARCO+C1QA+VSIG4+) exhibited higher expression of immune activation genes, including CCL4, CCL3, and IL1B. In vitro stimulation confirmed more IL-1β-secreting myeloid cells in pediatric versus adult livers, supporting these findings. Using the pediatric atlas as a reference, we analyzed 3 IFALD biopsies (11,969 cells; 3 donors, under 9 y of age) and identified increased expression of fibrosis-associated genes (eg, LY96) in Kupffer-like cells. In addition, mesenchymal cells in IFALD showed fibrotic gene modules resembling adult liver cells more than healthy pediatric cells. These signatures, undetectable when comparing IFALD to adult liver alone, highlight the value of a pediatric map.
Conclusion:
Taken together, our healthy pediatric liver atlas reveals distinct age-related signatures and provides a background against which to interpret pediatric liver disease data.
|
Sonya MacParland
|
s.macparland@utoronto.ca
|
26
|
GRCh38
|
v92
|
Cell Ranger count v3.1.0
|
no
|
C82
|
26 years
|
unknown
|
unknown
|
False
|
5d7af9f2-45b2-4c68-b967-204db4d5f2cc
|
fresh
|
UBERON:0001117
|
HsapDv:0000120
|
surgical resection
|
tissue
|
na
|
enzymatic dissociation
|
unknown
|
unknown
|
19f2ef36-b787-4fe9-ad8e-f8c7b5a40983
|
cell
|
unknown
|
2b12dc3e-e1b6-49e8-804a-dbd24e59b042
|
EFO:0009922
|
3 prime tag
|
University of Toronto
|
nan
|
Illumina NovaSeq 6000 (EFO:0008637)
| false
|
CL:1000398
|
LSEC
|
PATO:0000461
|
PATO:0000384
| 2,993.174623
| 1,296
|
Healthy
|
Adult
| 0.047757
| 0.351395
|
cell
| 20.03408
| -0.050867
| 0.007452
|
G2M
|
2
|
Adult Healthy
|
Perfusion
|
endothelial cell of hepatic sinusoid
|
10x 3' v3
|
normal
|
male
|
caudate lobe of liver
|
unknown
|
26-year-old stage
|
Uc(6m(o5zx
|
MT-CO1 MT-ATP6 MT-CO3 MT-CO2 MT-CYB DNASE1L3 MT-ND4 MT-ND3 B2M TPT1 CRHBP CLEC1B IFI27 MT-ND5 TIMP1 RPL10 FTL STAB1 MRC1 KLF2 FCN3 MT-ND1 CTSD MT-ND2 RPS8 MALAT1 CLEC4G IGFBP7 RPS27 RPL13 GNG11 ENG HLA-E HLA-C RPL30 TMSB4X RPL19 RPS14 RPS12 CCL14 CLDN5 LIFR EGFL7 HLA-B RPS28 RPS27A RPL28 MT-ND4L PDLIM1 TIMP3 GPX4 UBC RPL35A RPL41 RPS19 RPLP1 RPS18 ACP5 FCN2 F8 IL6ST TFPI NFKBIA FCGRT IFITM3 AP2S1 EIF1 SERF2 EEF1A1 RPS23 RPS11 RPL11 RPL18 RPL12 CYBA LGMN CALM1 HMGB1 COX7A2L RACK1 RPS26 RPL7 RPS15A RPS9 SSR4 RPL32 TMSB10 FTH1 APOC3 ORM1 NTN4 CCL23 OIT3 NPY1R ADGRF5 MARCKSL1 STAB2 TGFBR3 APP TINAGL1 TSPAN14 MARCKS MS4A6A NR2F2 RHOC NFIA GYPC CLTA POLR2L ID3 SRRM2 CCDC85B PPIA TXNIP RPL22 RPS7 RPL37 SCP2 RPS16 RPL23A RPLP2 RPL7A RPS29 RPL13A SAA1 ALB IL13RA2 CLEC4M EPOR FCGR2B ITPRIP SPARC SEC14L1 IGFBP3 PRCP TSPAN7 KLF4 PPP1R14A SCARB2 KLF11 RAMP3 CAVIN2 CTSL BMPR2 PNRC2 CLTC CD99 CFLAR ECE1 GIMAP7 SOX18 EIF4EBP1 HSPG2 TNFSF10 ISG15 DNAJC8 SELENOS ECH1 MYL12B GSTO1 GNAI2 LY6E SOD1 EIF3G SELENOP HOXA5 CALR OS9 SLC25A6 CFL1 SMDT1 H3-3A SLC25A3 DHCR24 LAMTOR4 ARPC3 RPL24 RPL23 RPS20 RPL39 S100A11 RPL37A RPL6 COX4I1 RPL34 RPL27A RPS4X RPS6 RPL15 CST3 ACTB RPL8 RPL36 RPS3 RPL35 RPS3A RPS2 RAB5C-AS1 PVALB GPIHBP1 BMP2 USP13 MID1 RELN NOSTRIN TM4SF18 CETP SEMA6A NR2F1 ESAM CNN3 NRP2 LIMA1 HECW2 F2R PCGF2 SGK1 PGAM1 WARS1 MPPE1 GPR4 ATRNL1 PLPP1 NPDC1 ADM TMEM37 CDH5 SIPA1 IRF1 IL33 MYADM TAMALIN CALCRL TMEM123 NEU1 TCF4 ICAM1 KDSR REC8 ORAI1 SLC27A3 MAF PURB RDX CFAP97 MRPL16 HYAL2 TMEM255B JUN IFI6 STOM PARP9 LIMS2 MTPN RBP1 PTPRB ATP2B4 PPP1R8 SLC40A1 TRAM1 APH1A VDAC2 FSCN1 SEM1 BCL3 TJP1 SLC25A37 VAPB QKI TNFRSF1A TM4SF1 SERPINB6 SERTAD1 SLC38A2 SON GIMAP8 NUDT16 LRP10 BST2 CAPNS1 TOMM20 IFIT5 KLF10 ACTR3 CCDC50 TMPO TNFRSF14 LSM14A NRN1 EIF5 ATP5F1C PRKRA PLCG2 NOP10 NPC2 FAAP20 HNRNPK S100A13 CAMTA1 ST13 TSC22D3 FAM98A KLF6 VASP SQSTM1 KIF5B LTAP1 PRDX1 PCMT1 ITM2B SRSF4 JPT1 ALG5 TXNDC17 MYL12A SRSF11 TMBIM6 C12orf57 PRMT1 CD14 COX5B NDUFAF3 ATOSB SEC61G NDUFC2 ARPC5L UBE2D3 ARF5 TRIR ARHGDIB NDUFA8 GMFG SF3B5 NAPA HLA-DRB1 A2M VPS28 ID1 ATP5PF GRN UBB MPST RAC1 EEF2 ATP5MJ TMEM219 NDUFB3 SNRPD2 CEBPD COX7B ATP5F1E RNASE1 EIF3F EDF1 PSAP NOP53 S100A10 MYL6 CHPF2 CHCHD2 ACTG1 VAMP8 CYP3A5 CALD1 HADH MYDGF COX7C MRPL41 PTMA ATP5MG PRDX6 FIS1 PFDN5 RPL26 EMP3 RPL36AL PFN1 MPC2 RPSA FABP1 RPS24 RPL9 ACSM2B RPL3 UBA52 MT2A RPS13 EEF1B2 RPL29 SH3BGRL3 RPL21 RPS15 FGB RPS5 NEAT1 URB1-AS1 CETN3 TP53RK CTNS GALNT18 ZNF880 TERLR1 TPPP RLF SPAG4 PIGF VIRMA-DT WDHD1 TSNARE1 RIPK1 PLEKHA2 CHADL GLA MANEA-DT RGL3 USP18 ZNF48 LRRK1 ZNF799 UXS1 TGFB1I1 RCHY1 GABARAP CCDC126 FAM78A LINC00028 FASTKD1 IFT172 CENPW CCDC85A ACSM3 BTG3 CCSER2 DOLK ACKR5 PDGFB ADGRL4 OSTM1 CFAP251 APBB2 CD200R1 GBP4 BTNL9 LPAR6 RIC8B TOPBP1 EXOC3L2 BHLHE40 SFT2D3 CD36 CBX2 JAM3 RBMS1 MYO10 LYVE1 RAB35 ANKS1A TRIM35 FRMD4A ATP1B3 ADGRL2 SLC39A7 C1orf54 ANKRD46 DPYSL2 OSMR RETSAT PPP2CB NUTM2A-AS1 DGKE TMX1 MYRIP CEMIP2 MTREX AKAP12 TPP2 HIBCH RBL2 NR5A2 ZNF506 DNAJB9 PLEKHG1 ELK3 BCAP29 SMTN VGLL4 RYBP FAM43A POGZ IRF9 PRKD3 DPP4 CDC42EP1 GPM6A SIGLEC7 TM2D3 SFMBT2 INPP5A RAPH1 MEF2C ATXN7L3 CNOT6 BMPER MEX3C CNPY4 RGS3 ICAM2 IL4R ATG12 ZC3HC1 ROBO4 TEK CXCL16 NR3C2 RTP4 CARD8-AS1 TP53I11 IRF2 TULP4 NT5E ETS1 SH3GLB2 FAR1 SH3GLB1 CLCN3 VSIG10 TMEM204 FCHO2 TMEM150C PLXND1 PLTP VTA1 ARHGAP12 TMCO1 CCDC6 ZFYVE16 LAMB2 ME2 TSPAN9 MRPL2 DDX56 CORO7 FBXL12 VPS18 CDK17 CERT1 ZNF770 GJA4 BROX RASIP1 IER5L FEZ1 STK32C TNS3 ZNF462 REEP1 SPNS1 ECD PPIL4 TXNRD1 ASAP1 SEMA3F AFF1 ERCC6 ERICH1 SLC35E2A FZD4 TGFBR2 YTHDF3 TMEM50B CHST15 CALCOCO2 TMEM88 CLPTM1 PSMA3 NANS SGMS1 SC5D DARS1 ATXN7L3B IL1R1 MTIF3 CYP20A1 DEGS1 NIN MEIS2 OAS2 XPA GMPR2 ERMAP TIMP2 NFE2L2 BCO2 ZBTB43 ITGA1 C1orf21 MPHOSPH10 DPP8 B4GALT1 YTHDF2 PITPNB CD164L2 RAMP2 ING1 SF3A2 MPDZ QTRT2 MOB2 SLC23A2 BLTP1 MPZL1 UBE2J1 CDKN1C PLPP3 SH3BP5 HIF1A CLPP PCDH17 SEC23A PCDHGA6 SPSB1 PRKAA1 AFF4 G6PC3 DTX3L AP2B1 RARS2 STARD13 LBR MAX DNAJC5 ARL4A DDX19B UBR3 G3BP2 GTF2A1 C9orf40 AQP3 TACC1 ATF4 IFI44L MAP3K13 SLC3A2 XAF1 BICRA SEC13 SNUPN ACTN4 RPN1 SORBS3 ACLY MAN1A1 ING4 SPRED2 NFYC KHDRBS1 SNX5 TCF12 RAB3IL1 SNX2 SETD2 UTP3 STK25 KLHL24 SURF4 SLC43A3 SNX6 WASF2 HPCAL1 FUS SDCBP PCM1 NECAP2 COX7A1 PCID2 DCTN6 MRTO4 PSMD2 CD59 UBL7 TMED9 PTCD2 CAPZA2 DYNC1I2 PLSCR4 UNC50 LY96 CPM CTSA CASKIN2 ETV6 NUFIP2 AP1S2 NDUFS2 RNF13 BRD10 REXO4 MAPRE3 PNPLA2 ZMPSTE24 TPP1 TONSL NAGLU DNAJA1 AKR1C3 TMEM263 EPAS1 PLEKHO2 ZBED1 DNPEP TSG101 SSBP4 CSRNP1 ZNF680 SPRYD7 EMILIN1 AVL9 LAMP1 SMG9 GADD45B STK40 PTGES3 CPQ CRIM1 PSMA1 TBC1D15 AKR1B1 DAB2IP SNX29 SRSF9 RAB5C GALNT11 TM7SF2 DSTN TPRKB CTBS MAP3K11 ARIH2 UBLCP1 DUSP6 RBBP7 UFL1 SEPTIN2 OSTC TMEM186 ECI2 DLL1 KRTCAP2 TSPAN4 PDK4 VPS13C MACF1 CHAMP1 PTTG1IP C7 UBE2D1 CHM CTPS2 SNX3 GNG12 USP19 BNIP3L PCBP2 ATP7A SYNE2 SYNC ZFAND5 ADH5 ABHD18 MRPL32 UBE3A CMAS ACTN1 BEX3 SENP7 SHOC2 RBBP4 SLC30A7 SNAPC5 RAB1B PRKACB ELK4 ADRM1 YWHAH DDX6 CDC37 IL13RA1 TCEAL4 PAPOLA EMC3 NMI ARL8A SART1 CENPC SLCO3A1 DNAJB14 WDR45B GOLPH3 ZNF264 SLC30A6 IGF2R MAGT1 CDV3 PEA15 DDX17 TRIM45 AP1AR KMT5B ELF2 ANXA5 BSG CPD SRPK1 ANKRD54 NUMB TUBA1B SKIC8 CCDC71L XYLT2 KRAS HSPB1 MYH9 CD58 FLOT2 KTN1 MAPRE1 GRTP1 MCL1 ADAM10 PNKD COMMD9 PDIA3 ZDHHC3 MRPL24 WBP2 AHCYL1 GLUD1 OPA1 ATG101 RPA3 ASAH1 RSRP1 PFDN2 SPTBN1 TK2 PLAAT3 AMDHD2 MBOAT7 HNRNPA3 FBXL5 SELENOW DYNLL1 PEX26 CHURC1 VTI1B MAP4K3-DT ATP5PD TMED10 SP3 CLINT1 FDPS XRCC1 CUL7 MAPK14 CAPZB PLCB3 KRT10 RPP40 TSPYL2 DYNLT1 CBX3 SPOP DDX52 RAB8A SF1 COG3 STAG1 RESF1 ZNF655 JKAMP MRPL51 CAPN1 COX14 GOLGA4 MALL ANKFY1 REEP5 EIF4A1 IFNGR1 SSR1 PHYH CAST YWHAE PIP4K2B ARL6IP5 SEC62 UBIAD1 RABIF AAK1 DDX27 RANBP6 ST6GAL1 PHB2 NDUFB8 CKB ZC3H15 AIG1 SETD3 DPM3 IPO7 GPR108 DNAJB6 PSMB4 LENG1 TMBIM4 SF3B4 COA4 CPEB4 MINPP1 ACAT1 TRAPPC1 PSMA2 UBR2 ADAR COL18A1 ARLN MDN1 IRF2BP2 P4HB SREK1 SRI RGL2 ZFP36L1 MCFD2 ILK BRPF1 YWHAZ PTPRM CHMP2A INTS12 ZDHHC20 ARMC5 PNRC1 CNOT2 TXN ABHD17A HM13 CDC42EP5 NENF TRMT112 IGFBP4 UBE2B TUBB4B PAK2 PPP1R2 HOOK3 YY1 CDC42 INTS11 CD81 RAB34 RPIA ZNF585A PEBP4 NUPR1 POMP COPS9 SUPT4H1 MARCHF6 ZNF395 HSPA4 ARHGEF2 RAN GANAB CAP1 GABARAPL2 SRP14 GLMP RILPL2 HSD17B11 SLC9D1 CACYBP STAT2 PPP2R5C LAPTM4A ALDH1A1 TUSC2 OST4 SRPX SAP18 ARL1 HNRNPAB ATXN2 WIPI2 HINT2 HSBP1 SUPT16H AMIGO2 WDR25 PDCD6 LRCH3 ERH ZNF358 PSME1 CCNG1 UBE2L3 EIF3J YKT6 CHRAC1 SNRNP35 ENTPD6 SEC61A1 RHOB HNRNPC ATP5IF1 PPP6C TSPAN3 SHMT1 GIMAP1 BRI3 SNHG32 HADHA BCAP31 SPCS2 UBE2G2 PFDN4 PSMB9 COMMD6 MPHOSPH8 EAPP SLC49A4 TOR1AIP1 MGST3 SNX18 EDEM1 GLG1 SDHC GNG5 LSM4 CASP7 RTN4 KRR1 YPEL3 WDR6 CCT2 PRDX2 SGSM2 PINK1 PDE4A TMEM179B XIAP HLA-F RBM25 EIF4B COPB2 EIF1AX CLIC1 ARHGEF6 AKAP8L DHRS7 CD63 STUB1 CTDSP2 TBCA BTF3 MRPL20 LMAN2 RRAS RBM3 HMGN1 NFIC CCT5 NDUFA12 IQSEC1 COTL1 SIK3 DOHH KGD4 GRINA CCDC80 PSMB1 RRBP1 COX15 MAZ ZNF768 ATP5PO SARAF MRPS34 SSR2 H6PD PARK7 TMEM127 TMEM160 COX6A1 NOSIP LMAN1 HDDC3 HSCB MRPL18 CDS2 RAPGEF1 SERP1 MRPS31 PRG4 YBX1 TIMM13 MZT2A MRPL37 RNASEH2C TFR2 BAZ2B ATP6V0E1 DYNLRB1 MANF H2AJ HDAC5 POLK R3HDM4 PSMD8 HNRNPA1 MS4A4A CBR1 EMC7 GPX3 LFNG LRPAP1 JUNB TMEM245 GGCX CARD16 SRP68 YWHAQ NTAN1 PPP1CA SEC61B REX1BD PLD3 NDUFB2 MGMT ALDOB RABAC1 YIPF4 TBCB DST JUND HNRNPF BRWD1 CARD19 SAA4 KDM1A GSN PBLD NDUFV2 NDUFS4 PGP ABHD14A C19orf53 ZBTB20 TOMM7 EXT1 UBE2V2 PSMB5 KARS1 SEC11A TM7SF3 MTDH SSNA1 PWWP3A PEX16 RNPEPL1 SFT2D2 HINT1 FUNDC1 MRPL54 PTMS CREBRF POLR2J UQCR10 PLIN3 PPM1D PTP4A2 C2 ANKRD9 SNHG8 MRPS33 LIPE-AS1 TP53I3 NR2C2AP MOCS1 ZNF524 HIGD2A MRPL14 MRPS18B OXR1 SHMT2 ADH4 MRPL52 JTB APRT C9orf78 LCP2 ACSM5 RNF181 GIGYF1 NPM1 GOLGA6L4 PDXDC1 SMYD4 EMC10 NDUFS3 MRPS21 APOB RPS27L IDI1 IFITM2 SHFL PCYT2 RPS17 SRA1 ATP5F1D COX6B1 CNN2 AGPAT5 RAP2C EIF5A ATP5MC2 UQCRB GSTP1 SRGN COX7A2 ELOB RAP2B TBC1D23 RPL38 APLP2 CYP2E1 CCT7 UQCC2 SERPING1 SNRPE GNMT NDUFB11 MX2 CISD3 RXRA NACA UGT2B7 HDGF RPLP0 ANG MYL6B MT1X QPRT PGLS UBXN1 KNG1 UQCRQ FBXW5 TF TMEM176A SULT2A1 TBCC RPL27 SARDH GAPDH HLA-DPB1 H1-0 MAIP1 RPL14 IAH1 FGA HACD4 NOA1 FAU GSTA1 APOE OAZ1 AMBP AGT PLP2 RPL18A SIDT2 SAA2 SIRT7 SWI5 SERPINA1 HP LIMD2 MT-ATP8 MAP3K4-AS1 DAAM2-AS1 PRR3 HCG18 RPL10A SYNE1-AS1 TDRG1 LINC00951 NCR2 CNKSR3 TEAD3 SYNE1-AS2 ILRUN-AS1 PACRG-AS1 FBXL18 GLP1R SAYSD1 TIAM2 KCNK5 LPA LINC01276 TULP1 KCNK17 PLG KCNK16 LINC03135 TRIM39 KIF6 DAAM2 TREM1 SCAF8 FOXP4-AS1 PRKN OARD1 SCUBE3 MTRF1L TCP11 PACRG-AS3 FBXO5 MYCT1 FANCE TSPO2 APOBEC2 TAF11 PACRG-AS2 NFYA TREML1 PACRG VIP LINC02840 NANOGP11 LRFN2 IPCEF1 RSPH10B OPRM1 TREML4 MAP3K4 SNRPC BLTP3A UNC5CL DEF6 TREML2 ZNF76 AGPAT4 SCUBE3-AS1 TREM2 RGS17 PPARD PPIL1 C6orf89 BRPF3-AS1 EZR SYTL3 MAPK13 FNDC1 TMEM181 PI16 DNAH8 MTCH1 SLC26A8 GTF2H5 SERAC1 SYNJ2 SOD2 LHFPL5 CLPS RPP21 FGD2 LINC02529 KCTD20 TAGAP-AS1 PXT1 ETV7-AS1 STK38 TAGAP SRSF3 RSPH3 LINC02901 BRPF3 EZR-AS1 PANDAR LINC02569 CDKN1A RNF216 RAB44 FNDC1-AS1 BNIP5 CPNE5 PNPLA1 ETV7 TMEM242-DT ZFAND3 BTBD9 TMEM242 BTBD9-AS1 ARID1B-AS1 ARID1B SLC22A1 GLO1 WTAP SLC22A2 DNAH8-AS1 CLPSL2 ARMC12 NOX3 CLDN20 CCZ1 TFB1M SLC22A3 FKBP5 DNAH8-DT CLPSL1 PIM1 SNX9-AS1 SNX9 TMEM217 TBC1D22B SOD2-OT1 ACAT2 ZDHHC14 GNL1 TRIM39-RPP21 TCP1 CMTR1 CCDC167 LINC02520 MDGA1 OCM PNLDC1 MAS1 ZFAND3-DT AIRN RNF8 LSM2 VARS1 PSMG3 PSMG3-AS1 VWA7 ELFN1 SAPCD1-AS1 SAPCD1 MSH5-SAPCD1 LNCRI MSH5 DDAH2 LY6G6C ELFN1-AS1 MPIG6B FRMD1 C6orf47 C6orf47-AS1 NRM GPANK1 CSNK2B LY6G5B SNX8 LY6G6D LY6G5C NUDT1 MRM2 ABHD16A LY6G6F LY6G6F-LY6G6D LY6G6E MAD1L1 PPP1R18 SUN1 DXO SKIC2 GET4 NELFE CFB GET4-AS1 ADAP1 C2-AS1 COX19 ZBTB12 CYP2W1 EHMT2 EHMT2-AS1 SLC44A4 TMEM184A DHX16 HSPA1L MAFK INTS1 MICALL2-DT MICALL2 HSPA1A CHLSN UNCX C6orf136 ZFAND2A-DT ZFAND2A GPER1 CHLSN-AS1 ATAT1 GPR146 HSPA1B FOXK1 TCF19 CCHCR1 PSORS1C2 CDSN PSORS1C1 C6orf15 HCG22 MUC22 AP5Z1 RADIL PAPOLB MUC21 HCG21 MMD2 EIF3B RBAKDN TUBB FLOT1 IER3-AS1 IER3 HCG20 LINC00243 MUCL3 DDR1-DT RBAK MDC1-AS1 DDR1 GTF2H4 VARS2 SFTA2 RBAK-RBAKDN LINC02570 DDX39B-AS1 IQCE ATP6V1G2 NFKBIL1 LTA TNF BRAT1 POU5F1 LST1 GRIFIN NCR3 AIF1 CHST12 PRRC2A BAG6 APOM LTB HCG27 SDK1 SDK1-AS1 CARD11-AS1 LINC02571 MICA-AS1 MICA MDC1 CARD11 GNA12 MICB MCCD1 DDX39B AMZ1 ATP6V1G2-DDX39B TTYH3 LINC01149 BAK1 ZBTB9 SYNGAP1-AS1 SYNGAP1 TCP10L3 CUTA PHF1 LINC02538 LINC02487 AFDN-DT KIFC1 DAXX ZBTB22 AFDN TAPBP WHR1 C6orf120 WDR27 LINC02519 THBS2 THBS2-AS1 HSD17B8 LINC01615 KIF25-AS1 HCG25 SMOC2 VPS52 DACT2 B3GALT4 WDR46 PFDN6 KIF25 RING1 MPC1-DT MPC1 SMIM29 SFT2D1 NUDT3 PRR18 TBXT TTLL2 PDE10A RPS10-NUDT3 RPS10 PACSIN1 SPDEF ILRUN C6orf118 CAHM LINC00602 UNC93A LINC00336 HPAT5 GPR31 ITPR3 TCP10L2 CCR6 RPS6KA2 LEMD2 CEP43 MLN RNASET2 LINC01016 RPS6KA2-AS1 GRM4 HMGA1 IP6K3 TSBP1-AS1 FAM20C NOTCH4 FOXL3 GPSM3 PBX2 TNRC18-AS1 PDGFA AGER RNF5 PDGFA-DT AGPAT1 EGFL8 PPT2-EGFL8 PRKAR1B PHF10 C4A C4A-AS1 C4B PPP1R10 C4B-AS1 CYP21A2 TNXB TNRC18 DNAAF5 FKBPL PRRT1 PRKAR1B-AS1 PPT2 PRKAR1B-AS2 ABCF1 SLC29A4 ATF6B FAM120B TAP1 HLA-DMB LINC01624 HLA-DMA BRD2 LINC03073 TSBP1 LINC00574 LINC00242 HLA-DPA1 HCG24 COL11A2 RXRB ERMARD DYNLT2 HLA-DOA LINC03014 BTNL2 LINC02983 HLA-DRA HLA-DRB5 LINC03015 PDCD2 PSMB8-AS1 HLA-DQB1 TBP HLA-DQB1-AS1 HLA-DQA2 HLA-DQB2 HLA-DOB TAP2 PSMB8 HLA-DQA1 SNAP91 RIPPLY2 CYB5R4 LINC02857 MRAP2 CEP162 KIAA0408 CRIP3 TBX18 TBX18-AS1 LINC02535 ECHDC1 RNF146 SNX14 SYNCRIP HTR1E LINC01611 LINC02542 TMEM244 IBTK ARHGAP18 LAMA2 PTPRK-AS1 TPBG UBE3D PRSS35 PGM3 PTPRK RWDD2A THEMIS LINC02536 ME1 C6orf58 MTCL3 DOP1A CNR1 RNGTT TPD52L1 PNRC1-DT RNF217 RNF217-AS1 NKAIN2 TRIM26 CGA TRDN-AS1 PM20D2 GABRR1 TRDN GABRR2 CLVS2 SMPDL3A FABP7 SRSF12 ZNF292 RSPO3 GJB7 SMIM8 C6orf163 CFAP206 TRMT11 SLC35A1 HDDC2 NCOA7-AS1 ORC3 AKIRIN2 SPACA1 NCOA7 HEY2 LINC02523 HEY2-AS1 HINT3 KHDC1-AS1 DPPA5 KHDC3L OOEP TAAR8 TAAR9 OOEP-AS1 L3MBTL3 CGAS STX7 MTO1 MOXD1 EEF1A1-AS1 SLC17A5 LINC01013 CD109-AS1 DDX43 FAM135A-AS1 FAM135A SDHAF4 VNN1 SMAP1 B3GAT2 OGFRL1 LINC00472 KHDC1 LINC01626 RIMS1 KCNQ5 TAAR2 KCNQ5-AS1 TAAR5 KHDC1L TAAR6 TAAR1 ARG1 AKAP7 PHIP HMGN3 HMGN3-AS1 LCA5 SH3BGRL2 LINC01621 CD109 ELOVL4 TTK BCKDHB SMLR1 TENT5A TMEM200A SAMD3 LINC01526 EPB41L2 CCN2 ENPP1 COL12A1 TMEM30A TMEM30A-DT CTAGE9 FILIP1 FILIP1-AS1 IRAK1BP1 OR2A4 MYO6 ENPP3 IMPG1 MED23 LINC02540 HTR1B MEI4 SENP6 LAMA4-AS1 RTN4IP1 LAMA4 QRSL1 LINC02526 FAM229B LINC02532 PKIB CCN6 LINC02527 CD24 MTRES1 BEND3 PDSS2 SOBP FYN TUBE1 GRIK2 HACE1 LINC02880 MROCKI LIN28B-AS1 LIN28B POPDC1 POPDC1-AS1 CRYBG1 PREP PREP-AS1 LINC02836 LINC02541 LINC02518 RFPL4B ATG5 PRDM1 POPDC3 CD164 GTF3C6 AMD1 PPIL6 CDK19 SLC22A16 DDO SMPD2 SCML4 CDC40 MICAL1 ZBTB24 ZBTB24-DT AK9 WASF1 FIG4 GPR6 METTL24 TRAF3IP2 SEC63 TRAF3IP2-AS1 OSTM1-AS1 REV3L-AS1 NR2E1 REV3L SLC60A2 CEP57L1 SLC16A10 AFG1L FOXO3 LINC00222 RPF2 ARMC2 ARMC2-AS1 SESN1 SLC60A2-DT CASC6 SLC35F1 LINC02531 EPHA7 NUS1 MANEA GOPC FUT9 ASCC3 ROS1 UFL1-AS1 VGLL2 RFX6 GPRC6A FAM162B KPNA5 ZUP1 DCBLD1 RRAGD ANKRD6 SERINC1 HSF2 GJA1 ANKRD6-AS1 TBC1D32 LYRM2 CEP85L ASF1A MCM9 PLN MDN1-AS1 CASP8AP2 GJA10 BACH2 MAP3K7 FAM184A CALHM6-AS1 PRDM13 TSPYL1 MCHR2 DSE TSPYL4 COL10A1 NT5DC1 FHL5 LINC02534 LNCPOIR HS3ST5 HDAC2-AS2 MCHR2-AS1 HDAC2 SIM1 SIM1-AS1 FRK GPR63 NDUFAF4 RSPH4A RWDD1 KLHL32 MMS22L POU3F2 FBXL4 CALHM6 COQ3 PNISR CALHM4 PNISR-AS1 USP45 CALHM5 CCNC TRAPPC3L FAXC RAB32 GRM1 VEGFA SHPRH LINC02537 EPM2A-DT
|
10cc50a0-af80-4fa1-b668-893dd5c0113a
|
ff69f0ee-fef6-4895-9f48-6c64a68c8289
|
Single-Cell Atlas Of Human Pediatric Liver Reveals Age-Related Hepatic Gene Signatures
| null |
Background:
The liver plays a critical role in metabolism and immune function, yet the contributions of its heterogeneous cell types to these processes remain unclear. While most liver studies focus on adults, pediatric liver diseases often present differently, underscoring the need for age-specific research.
Methods:
To better understand cellular drivers of childhood liver diseases, we generated single-cell RNA-sequencing maps of the normal pediatric liver and used this map to examine disease-related populations in biopsies from pediatric patients with intestinal failure–associated liver disease (IFALD).
Results:
The normal pediatric liver map consists of 42,660 cells from 9 donors under 17 years of age. Compared with normal adult liver (26,372 cells; 7 donors, age 26–69), pediatric livers exhibited differences in myeloid populations. Specifically, pediatric Kupffer-like cells (MARCO+C1QA+VSIG4+) exhibited higher expression of immune activation genes, including CCL4, CCL3, and IL1B. In vitro stimulation confirmed more IL-1β-secreting myeloid cells in pediatric versus adult livers, supporting these findings. Using the pediatric atlas as a reference, we analyzed 3 IFALD biopsies (11,969 cells; 3 donors, under 9 y of age) and identified increased expression of fibrosis-associated genes (eg, LY96) in Kupffer-like cells. In addition, mesenchymal cells in IFALD showed fibrotic gene modules resembling adult liver cells more than healthy pediatric cells. These signatures, undetectable when comparing IFALD to adult liver alone, highlight the value of a pediatric map.
Conclusion:
Taken together, our healthy pediatric liver atlas reveals distinct age-related signatures and provides a background against which to interpret pediatric liver disease data.
|
Sonya MacParland
|
s.macparland@utoronto.ca
|
26
|
GRCh38
|
v92
|
Cell Ranger count v3.1.0
|
no
|
C82
|
26 years
|
unknown
|
unknown
|
False
|
5d7af9f2-45b2-4c68-b967-204db4d5f2cc
|
fresh
|
UBERON:0001117
|
HsapDv:0000120
|
surgical resection
|
tissue
|
na
|
enzymatic dissociation
|
unknown
|
unknown
|
19f2ef36-b787-4fe9-ad8e-f8c7b5a40983
|
cell
|
unknown
|
2b12dc3e-e1b6-49e8-804a-dbd24e59b042
|
EFO:0009922
|
3 prime tag
|
University of Toronto
|
nan
|
Illumina NovaSeq 6000 (EFO:0008637)
| false
|
CL:1000398
|
LSEC
|
PATO:0000461
|
PATO:0000384
| 4,533.599203
| 1,653
|
Healthy
|
Adult
| 0.167752
| 0.308069
|
cell
| 17.720746
| -0.02072
| -0.023498
|
G1
|
26
|
Adult Healthy
|
Perfusion
|
endothelial cell of hepatic sinusoid
|
10x 3' v3
|
normal
|
male
|
caudate lobe of liver
|
unknown
|
26-year-old stage
|
^Vv&>`pN)G
|
MT-ATP6 MT-CO1 MT-CO2 MT-CO3 MALAT1 MT-ND4 MT-CYB MT-ND3 FABP4 ID1 VIM TFF3 TPT1 FTL MT-ND2 RPL10 EEF1A1 MT-ND5 IGFBP7 B2M TMSB10 MGP RPS23 RPS8 MT-ND1 RPS18 HLA-E TMSB4X RPLP1 FTH1 MMRN1 RPL35A RPL41 RPS14 TIMP3 DNASE1L3 RPL8 RPL13 ADIRF S100A10 MYL6 RPS27 RPL32 RPL11 RPS2 DDIT4 ID3 RPL14 RPL9 ANXA2 CALM1 EIF1 RPL36 RPL34 GNAS MYL12B RPL5 RPL37A RPS3 RPL30 RPL3 RPS27A RPS28 RPS9 RPL13A MT-ND4L IL6ST PTMA RPL23 RPS26 RPL37 UBA52 RPS15A RPS3A RPL15 RPS13 RPL18 RPL29 RPS15 RPS12 RPS19 RPL28 CD9 ITM2B RPL26 RPS20 RPL35 RPS11 ARL4A HYAL2 TFPI MYL12A CD63 RPL22 RPL7 RPS25 RPL6 RPS29 RPL12 H3-3B UBC KRT18 S100A6 RPL23A RPL10A RPL27A RPL7A FAU RPL18A STMN1 TGFBR2 GNG11 KLF6 ITGB1 CAVIN2 ZFP36L2 GNAI2 NHERF2 AHNAK POLR2L PRDX1 RAC1 HMGB1 IFITM2 RPL24 CST3 RPS7 RPS24 NEAT1 HRCT1 ECSCR REEP3 ZNF22 IL33 SNCG SUMO2 DYNLL1 PNRC1 ATP5F1B BCAP31 CD81 YWHAB FIS1 UBB MAF EEF1D H3-3A RPL38 RPL27 RPL31 RPS16 GAPDH RPS6 RPL19 EDNRB LEPROT PDLIM1 CYB5R3 NR2F1 HMGN3 LRP10 PDCD5 S100A13 BRK1 PCBP1 EID1 TM4SF1 NEDD8 LGALS3 DUSP1 ID2 HNRNPK UBXN1 SPTBN1 CIRBP RHOA GYPC PPDPF SRP14 ARPC5 BRI3 RPL4 SRRM2 YBX1 CCL21 RPL36AL ATP5F1E VAMP8 PFN1 SERF2 RACK1 RPLP2 RPL21 CRTAC1 LINC00924 VGLL4 S1PR1 PLPP1 GPIHBP1 PTPRE RPS6KA2 PHF20 CTDSPL SH3GLB1 CNN3 PUM1 ARL6IP1 CTNNA1 DUSP22 TGFBR3 USP14 CD47 HES1 CCPG1 SOX18 RAB11A GABARAPL2 NDUFS4 RAB2A GNB2 ESD XRCC5 ATP1A1 DEK SLC16A1-AS1 MAP1B SH3BGRL2 PSMD4 PDLIM2 SLC40A1 RAB14 MORF4L1 PSMD7 CD59 PSMB4 TMEM59 COMMD6 CD99 PKHD1L1 TACC1 TAMALIN HSPB1 KTN1 MRC1 MGST3 ARLN CNBP MRPS21 TRIR TIMM13 SNRPD2 HNRNPA1 RBM3 MTUS1 GSTO1 TPI1 EGFL7 EIF3K NENF COX6A1 NPM1 CLIC1 HSP90AB1 COX5B ARL6IP4 NUCKS1 ETFB EEF2 MZT2B HSP90B1 ENG ARPC3 CALM3 GSTP1 GUK1 JUND COX7C PEBP1 HINT1 PPIA TXNIP PFDN5 RARRES2 HLA-B A2M RPL39 RPS4X ACTB FAM174B EIF4A3 GGT5 MSRB3 THBD GJA1 THYN1 METRNL TBX1 ZFYVE21 C9orf85 FAM210B SAP30L TUBB6 MAPDA FLT4 HRAS C1D ERLEC1 DPEP2 GPM6A REXO2 THUMPD1 RBMS1 MTCH1 KANK3 YIPF3 SBDS BBX SYPL1 DPY30 MIS18BP1 TMEM230 TMEM14C ITM2A MAP3K3 CAMK1 ATF4 SEC63 C1QBP PARD6G RASIP1 TUSC2 MED4 ARMC10 PLA1A PLAC9 CCS NDUFC1 GNAQ PGGT1B RNF19A ORAI2 ZMYND11 CLPP THEM6 YBX3 YPEL5 LITAF PCGF5 SYNJ2BP POLR1D GLTP DNAJC3 DSTN SMIM27 ETS2 MAPK1IP1L ADH5 VDAC2 FNBP4 TRAPPC12 EPHX1 LTC4S FAM107B MXI1 NFIB TCF4 LMO2 NPHP3 RBPMS UFD1 GNG12 ZNF600 RNH1 MRPL43 METAP2 CAV1 DHRS4-AS1 SOX4 CDC25B STX4 PPIE DHPS NSD3 LTAP1 DNAJC21 NIPBL TUBB4B PSMB7 ARPC1A LAMTOR1 GUSB WASF2 NR2F2 ATP5F1C PDCD6IP CLTB S100A16 PTGES3 SEC11A PAIP2 ASH1L SKP1 PSMB6 FABP5 ECI1 DUSP5 ZMIZ1 CD151 PLAAT4 KLF3 SOCS5 AK2 SMAD5 CLNS1A RPN1 MAN1A1 SLIRP INTS11 APP SRSF5 FDPS AKR1A1 VPS29 C12orf57 EIF4G2 TM4SF18 KIF5B CCNI YWHAE UBE3A SRPX EIF3F SH3BP5 TSPAN4 DAD1 SERPINB6 AP2M1 TCEAL4 PRKAR1A SMIM19 SYF2 HSBP1 SERP1 RAP1B CAST VPS28 DYNLRB1 CHMP2A TRAPPC1 C12orf43 ATP5PD MAP3K2 HSPA8 NDUFC2 CCDC50 SNRPB NEMF NUCB1 RBX1 NBEAL1 TMEM160 ALDH2 H2AJ PRDX2 DYNC2I1 SF3B5 PARK7 TPD52L2 NDUFS5 RNF145 SPCS2 SF3B1 ALKBH7 CAP1 GSTK1 NPC2 SUB1 ADI1 NDUFB9 IRF3 TMEM245 NDUFB10 CHCHD5 CTSL GOLGB1 MTDH SLC25A5 KDR SCAND1 UQCRH SPCS1 ATP6V0E1 HEBP2 KLF2 TMA7 PRSS23 ST6GAL1 ATP5PF NFKBIA DDX17 TCF25 H2AZ1 RPS4Y1 NKTR COX8A IGFBP4 DDX5 HSP90AA1 SOD1 GPX4 COX6B1 FCGRT COXFA4 TMBIM6 JPT1 PTMS ACAA2 CFL1 GPX3 GMFG NNMT S100A11 EEF1B2 RPS21 LAPTM5 HLA-C PRRC2C HLA-A RPSA COX4I1 RPLP0 OAZ1 SELENOP NACA SH3BGRL3 ALB SFR1 ZFP90 C2CD4D LOXL1-AS1 RFESD MAPKBP1 PDE9A PPP1R3E ANAPC10 SUN1 NRARP MIR222HG ZNF8-DT POLR3G LRRC1 C8orf58 CHMP4C HDAC3 DIPK2B CUTC EIF4EBP3 ZFP28 ARL17B TBC1D19 ZNF138 VILMIR SLC35G2 SNCAIP MEF2C-AS1 TICAM2-AS1 STK33 MCM6 FBN1 SCNN1B NT5C3A RTL6 ATIC DNAAF4 DOCK9-DT CHRDL1 TSPAN5 HOXB2 RAI1 DLST OLFML2A NPNT TJAP1 PRICKLE1 MTA3 CYP46A1 FAM110D SPRY1 TNFSF12 PPIC CFAP36 BMX ZNF43 TCEAL8 FHL1 FGF12 PIGS TANC2 MGST2 ZNF226 LTBP4 NOC3L BMP2 HID1 GOPC AHSA1 ANKRD36 ICA1 PAIP1 NGDN KIFBP GLT8D2 ABI3BP OSBPL1A RAB35 CLEC3B IPO11 RAB30-DT ZNF830 DOCK9 GIPC1 CYB5D2 SRGAP2C TMEM150A NIFK RAI14 SEMA3A PMP22 SPINT2 CDK2AP1 TSPAN18 EIF2A SFRP1 OSTM1 GAS6 LOX RECQL FXYD6 ZNF704 CCDC68 PDPN HAGH WLS MAP7D3 EHD4 ELN NOL7 CSRNP2 SEPTIN10 GINM1 HOTAIRM1 APBB2 ADPRS FAM174A ATP1B3 PGAM1 SEH1L ATL3 DTYMK TRAM2-AS1 PLSCR1 CYB5R1 SPIN4 ZNF302 ENDOD1 PIEZO2 ARB2A HDGFL3 GRAP PLEKHF2 SMC4 MOB3C TNXB TCEAL3 TMEM14B TTC9C CPLX1 NEXN GABARAPL1 SLC75A1 TRAPPC8 STARD3 CRACR2B SAP30BP FEZ2 MEF2D ODF2L CHTF8 CDC42EP5 VAMP3 EIF2B1 DNAAF9 APOL3 CFAP298 GLS DNAJC9 LZTR1 PEAR1 TMCO1 UBE3B DCTD SAMD4B GOLGA7 NT5C3B PODXL PTPN12 NUDT7 SNRPN ART4 WAC-AS1 PRKDC TLE4 DNAJB12 CAV2 PCGF2 PLPP6 CALCOCO1 SNX13 DMAP1 MTX3 NBL1 SCGN PSMG2 PCYT1A ERG AP2B1 CMSS1 EPB41L4A-AS1 SNN PSMD10 MECR LAMC1 SMC3 SLC39A1 SETD3 ATXN3 SCCPDH POC1B UBLCP1 MRPL32 GORASP2 ARHGAP23 NDRG1 ZNF680 PRXL2B ZNF649 ADAM15 MAML2 DHX9 ZCCHC17 DEF8 MOB2 CFAP68 SGF29 RBM12 CCDC47 TSC22D1 TTF1 ZNF32 VEZF1 PLS3 HEXB KAT7 CSRP1 PITPNC1 STX2 MIR4435-2HG POLR2K ETHE1 TMEM204 SLC39A7 ATG4A TMEM109 CABLES1 MRPS18C TM2D1 VPS26A MCFD2 RPF2 RARS2 BFAR ZFHX3 ACTR10 CASP4 RRAS CCT2 RANBP1 ATRAID RBMX2 SHC1 DYNC2H1 UBE2E3 SPATS2 PIH1D1 USP33 MYCT1 DARS1 PLPBP SMAP1 FAM3C MANSC1 MDK PDCD2 ZNF502 EXOSC6 CAMLG APH1A RBMS3 WASHC3 DAB2 ARF4 EAPP BCAT2 ZNF467 TAF12 PPHLN1 GOLPH3 NMI HIBCH FNTA PGM5 ANXA3 IPO7 NOTCH1 YWHAG CHSY1 BROX TBL3 EIF2S1 UROD SMAD1 PPTC7 ATP6V1E1 EIF3D METTL9 ZNF595 TJP1 SMIM30 NUDT4 RTL8C PIGT NR1D2 FILIP1 AKIRIN2 PPP3CB TNFRSF14 MAP3K1 COPZ1 FAM117A EPC1 MYO1C PRKCH PTPRA YKT6 ACSL4 TBC1D15 RAMP2 PKP4 DNAAF2 PLAT SNHG7 PNPLA2 ARRB1 HDAC7 ARSD MEF2C B4GALT1 COX7A1 XRRA1 ARL2 TUBGCP3 REST C1orf21 SSR3 CREB1 TSPAN7 CEBPZ NFU1 RPA2 OCIAD1 IMP3 ARPP19 SNRPB2 RTRAF RAD21 PIK3IP1 SP1 BCAR1 MIER1 ARL2BP PHACTR2 SARS1 WAC ZFTRAF1 LARS1 SHARPIN CCND1 HSPH1 ISCU RTF2 COMMD4 MKNK2 TMEM9B TCEA2 BCL7C CTSF BEX3 C14orf132 TM9SF4 LRCH3 IGBP1 MITD1 HUWE1 A4GALT CCDC82 EIF3M MIGA1 FZD4 NOL10 MRPL16 RAB7A SLC38A1 NUP43 UACA GPATCH2 PAK2 UQCC3 ZFAT EIF5A2 MICU1 TMEM242 RFC1 YPEL3 DCTN1 LAPTM4A STARD3NL HOMER1 BRD1 GPN3 SCARF2 CACYBP CKS1B SDHA STING1 ZFPL1 SEC14L1 PSMB8 PIK3R3 ERLIN1 SSB C1orf122 PDZD4 G3BP2 VAMP2 SMIM7 LAMA4 UBE2I PSMG1 ALKBH5 AAK1 KMT2E LEMD2 HYI QSOX1 LEPROTL1 GPBP1L1 RHEB MRPL21 CPSF6 GAN HNRNPH2 SUMO1 TIMP2 PRMT1 TXNRD1 PFDN1 RIPOR1 GPATCH8 ATP6AP2 TRIP4 B3GNT2 PPP3CA CUEDC2 RAB8A UQCRC2 RNF13 COQ10B GGCT MOSMO ARL6IP5 CHD7 ZSWIM7 UBL3 SPOUT1 USP48 KXD1 MTIF3 ADD1 DNAJA1 SMIM29 FBXO25 MFNG CAMTA1 MESD RAB5IF CEP57 NDRG2 NUDT9 SSBP1 NFYB ACP2 JOSD1 HIPK3 ADGRF5 TNFRSF1A PNPLA4 CDC40 PQBP1 SNX14 TMEM50A ANXA11 PYURF SELENOS PRPF40A PGRMC2 CFDP1 TSPAN3 ARID5A TNPO1 ARMCX3 SMARCA1 MAP1LC3B DIPK2A CCT7 PDCD6 SEPTIN11 MPG NDUFB6 RHBDD2 ZBTB8OS TNIP2 NEK3 SPAG7 DGUOK COMMD1 PPCS VDAC1 PLAAT3 RBM8A TOP1 EIF4E3 CLN8-AS1 ELK4 VIPAS39 CTNNB1 PSMC6 RHOT1 PSMC3 TXNL1 BNIP3L SLC17A5 LSM3 ALDH3A2 ERH DMTN DDX24 TIMM50 MYL6B DBN1 TINAGL1 VPS4B DDRGK1 TMEM11 SRSF9 TMEM187 BAG1 LNPEP BZW1 KRT10 EIF2S2 RSF1 BLTP1 WDR26 SNRNP200 PIN4 TUBA1A SHE ADRM1 PDGFC PFDN2 SNHG19 SENP7 TATDN1 VTI1B NSA2 RDX FLNB IRF2BP2 RNF168 SHISA5 PHF1 WARS1 RNF115 PCM1 STOX2 DUT FAM229B CHML FAM162A RASAL2 NDUFA10 ZC3H15 NARF DYRK2 TOMM5 DYNC1LI2 STAU1 TBCB CMTR1 RWDD1 ZEB1 SNTB2 PSME3 USP16 ACP1 POLE4 PCF11 APEX1 ATG101 SCYL1 ACTR6 LAMTOR5 GRSF1 AGO3 SASH1 SRP19 TMEM203 CD36 PPP4C YWHAH BRMS1 PPP1R12A SUCLG1 METTL5 GSTCD MRPL13 CCT3 EXOSC1 ATG12 SELENOK COPRS THUMPD2 CRLS1 SUZ12 CREBBP ATP5PB LMNA COASY BMPR2 NDUFAB1 LMO4 HSD17B11 MBD2 REEP5 SUPT4H1 FGD6 SMTN EIF3I NAA50 RAP1A PRCP MYH10 IFI16 CRIP2 TGS1 CAPNS1 PIP5K1C KGD4 LMF2 PHB1 LIN7C ALG5 TST ZFP36 PECAM1 TSPYL4 EIF1AX KIAA0232 MEGF8 RELN NTAN1 AFF1 ARRDC2 CBX3 RBM27 UQCRFS1 NDRG3 SRM FAM177A1 PNKD WSB1 CFL2 TMEM123 SKIC8 RNF130 TRAK2 FIBP LRPAP1 TAF15 ARF5 EHBP1 RCE1 MRPS2 CCND3 COPB2 PAFAH1B3 BAIAP2-DT EIF4ENIF1 SRRM1 MAZ LLPH HNRNPD MORF4L2 KRR1 NPTN RELA ANP32B NUMA1 NDUFB8 GPR107 METTL23 MNT PTS PDCL3 EMC7 VASP TMBIM4 RPS6KA3 SEPTIN2 POU2F1 MZT2A WDR37 UTRN ZNF91 EFCAB14 POLR2H OLA1 ENY2 ARID4B MRPS33 DCAF10 ACSS2 IL13RA1 NTS HNRNPAB UFC1 RTN4 NR3C1 REEP4 OAZ2 POP7 DERL2 SDCBP ANAPC11 RPL17 KDM5B CORO1B DECR1 KNOP1 WDR82 CDC37 SF1 ANXA5 NDUFA1 EIF3H CASKIN2 MAP3K11 STMP1 HIC1 EMP2 PIK3C3 RAN EIF4EBP2 HIGD1A SELENOW FAM50A PPP2CA ECH1 MRPL20 GTF2H5 TRAF3 DNAJC15 TAPBP CDV3 C1GALT1C1 TUBB EIF4B GIMAP7 PGRMC1 CSNK1A1 SHPRH STUB1 U2SURP SNRPG PUM2 TGFB1 SPTAN1 MIR22HG ATP5PO WDR45 CSDE1 ARF1 GIMAP4 UBE2G1 CDC42SE2 HSPE1 FUS HPCAL1 PLD3 C11orf58 MRPL57 CGGBP1 MRPS26 HPRT1 SAT2 TMEM101 GDE1 SAP18 LAMP1 PDLIM7 MDH2 VMA21 RPGR SMARCD1 NFIA BCL9L HNRNPA3 SMC5 ABI3 DDX46 ARHGEF12 LPGAT1 EIF5B HYCC1 RPN2 USP25 DDX3X ZNF844 MGAT1 BLTP2 MPHOSPH8 FKBP1A INPP5K SMC1A C1orf35 JTB SLC61A1 IDI1 AKIRIN1 CCDC88A ST13 SUMO3 TTYH3 UNC5B TMEM141 TMEM258 TUBGCP2 NOSIP B4GALT3 SGK1 PCBP2 TRIM38 SMIM26 GLUL NDEL1 ZNF414 TASOR2 SIGIRR NDUFA2 GLUD1 AMFR HNRNPL SYNCRIP TTN-AS1 PRRC2B TSPYL1 SMAD2 SEL1L IGFBP5 SYS1 CLTA ANKRD12 BLZF1 NDUFA12 DUSP7 RASSF3 LSM5 XRN1 TUBA1B DHX36 ZNF512 WDR74 YWHAQ SLC38A2 YY1 KLF10 SEC62 DDX21 UBE2L3 FARP2 HADHA DYNC1H1 SSR2 NDUFS8 RAB11FIP3 DYNLL2 GAB1 MICOS13 L3MBTL2 TPM4 ENO1 ACKR1 CDC42 HNRNPDL DCTN3 POMP TXN CDK13 ARID4A HNRNPC TSFM FKBP2 POC5 CLK1 PSMD8 SERBP1 BOLA1 SPAG9 ATP5MK PTBP1 H2AZ2 ANAPC16 HDGF AGO4 DLG1 MRPL36 NDUFB1 SRRT PPP1R14B NUDC HOOK3 ATP5MC1 SSNA1 RIOK3 ATP5MC3 RNPS1 APLP2 SLTM OST4 IREB2 MIF CANX ERC1 TWF2 SRSF3 PPP3R1 INSR RPS10 NRP2 AEBP2 HERC2 ADAR PSMB1 TTN CUTA HTATSF1 EHD1 SAR1B HLA-F WDR18 MGMT UBE2D3 TLN1 PTP4A2 LRBA MSN CHD4 PPRC1 PSME1 ATP5IF1 ANKH DENND1B SON VAMP5 SNAP47 GADD45GIP1 SIK3 ARID3A TMEM219 EBNA1BP2 GLG1 BRD4 CHD1 YBEY CISD2 TGOLN2 PDIA3 AKAP12 RBM5 NDUFB7 ISG15 LMAN1 COX7A2 ZBTB20 HSD17B10 STIM1 N4BP2L2 CREG1 BIVM TALDO1 TLE5 PPIB ZZEF1 COX6C ATOX1 LY6E ZNF550 BTG1 PSMA7 LIPE-AS1 ZNHIT1 LRRFIP1 NDUFS7 LRR1 ZFP36L1 BTF3 SPA17 UBL5 MIDN ETNK1 ATP5MF MAFB ATP5MJ H1-0 DDT PLEKHA1 TOMM7 CALM2 TPGS1 RPS27L HTT LYVE1 UBALD2 KIAA0319L NDUFS6 ATP6V0B SPARC SPCS3 GRN CHCHD2 ST3GAL1 DPY19L3 ATP5MC2 HLA-DPB1 ALDH6A1 CEBPD HNRNPA2B1 NDUFB11 GRINA RAMP3 TGM2 PRDX5 GLRX PPP1CA TSPO HLA-DRB1 TAF10 BTN3A1 CXorf38 TNPO2 PDIA5 PCSK7 MTCH2 PRELID1 MRPL41 IWS1 BRF1 MMAB PLBD1 METTL13 BAZ1B LIFR SMARCC1 LUC7L3 UQCR11 ATP5MG GTF3A EDF1 ANKRD11 ACOX1 ATP5F1D SLC2A1 ZNF555 H2BC21 AKAP17A PRDX6 ZNF846 CLIP2 SRSF4 TCEA3 PXMP2 METTL8 ADGRG3 IFITM3 ABRACL ZBTB16 EXOC3L1 POLRMT ARGLU1 SPEN PSAP CYB5A DSP NSD2 SAT1 SCP2 FKBP5 PAXBP1 SSR4 BLVRB TSKU PHLDB3 TIMP1 SERPING1 LIMD1 MT2A USP28 RPS5 C1RL-AS1 DHCR24 APOB IL6R TAT ORM1 APOA1 MT-ND6 SUMO4 PRR18 CDSN SFT2D1 DEF6 PSORS1C1 LINC02520 TNF CCDC167 TEAD3 ZFAND3-DT LST1 PCMT1 LATS1 FANCE KATNA1 TULP1 PPIL4 UNC93A LINC03135 LTB MDGA1 ZC3H12D RNF8 PPARD DDX39B C6orf89 SAMD5 PI16 UST GRM1 LINC02571 ZNF76 ATP6V1G2-DDX39B UST-AS1 STK38 RNASET2 KCTD20 UST-AS2 RPS6KA2-AS1 PXT1 CEP43 STXBP5-AS1 LUADT1 TCP10L2 LINC01149 ADGB MICA ADGB-DT CDKN1A STXBP5 MICA-AS1 MCCD1 RAB44 CPNE5 PPIL1 PANDAR RAB32 CCR6 MICB TCF19 MAPK14 CCHCR1 SLC26A8 SRPK1 MPC1 TMEM217 FBXO30 DDX39B-AS1 TBC1D22B EPM2A CLPS CLPSL1 CLPSL2 LTA PSORS1C2 ARMC12 LHFPL5 TAB2 MPC1-DT TAB2-AS1 ETV7-AS1 ATP6V1G2 GPR31 ETV7 EPM2A-DT NFKBIL1 BNIP5 HCG27 POU5F1 PNPLA1 PIM1 BRPF3 BRPF3-AS1 MAPK13 FGD2 VWA7 TAP2 VARS1 HLA-DOB LSM2 PLG HSPA1L TMEM181 LPA HLA-DQB2 DYNLT1 SYNGAP1-AS1 HSPA1A EZR SLC22A3 EZR-AS1 HLA-DQA2 HLA-DQB1-AS1 HLA-DQB1 LINC02901 HSPA1B HLA-DQA1 SLC22A2 HLA-DRB5 SYTL3 LY6G6C COL11A2 HCG24 ZDHHC14 DDAH2 HLA-DPA1 SNX9 SNX9-AS1 HLA-DOA BRD2 SYNJ2 SERAC1 MAP3K4-AS1 HLA-DMA MSH5-SAPCD1 HLA-DMB PRKN AGPAT4 TAP1 MAP3K4 PSMB9 SAPCD1 TULP4 PSMB8-AS1 SAPCD1-AS1 MSH5 WTAP PRRT1 FKBPL ATF6B CYP21A2 ZBTB12 C4B-AS1 AIRN IGF2R C2-AS1 C4B HLA-DRA C4A-AS1 MAS1 PNLDC1 CFB ACAT2 C4A NELFE WHR1 DXO TCP1 SKIC2 MRPL18 SOD2-OT1 RSPH3 BTNL2 SLC22A1 TSBP1 TSBP1-AS1 NOTCH4 SNHG32 TAGAP-AS1 NEU1 GPSM3 PBX2 TAGAP PPT2 SLC44A4 AGER EHMT2-AS1 EHMT2 RNF5 AGPAT1 EGFL8 FNDC1 PPT2-EGFL8 LINC02529 SOD2 C2 FNDC1-AS1 ULBP3 PACSIN1 APOM PPP1R14C IYD C6orf118 C6orf47 RPS10-NUDT3 NUDT3 HMGA1 GRM4 RXRB LINC01016 PLEKHG1 MLN MTHFD1L QKI IP6K3 UQCC2 ZBTB2 ITPR3 RMND1 DCPH1 CAHM C6orf47-AS1 SCUBE3-AS1 SCUBE3 TCP11 ANKS1A LRP11 LRP11-AS1 TBXT RAET1E-AS1 RAET1E NCR3 RAET1E-AS1 AIF1 SPDEF TAF11 BLTP3A SNRPC ILRUN-AS1 RAET1G ULBP2 PRRC2A BAG6 ULBP1 PDE10A RAET1L ILRUN LINC00602 MTRF1L RGS17 PFDN6 OPRM1 WDR46 LY6G6E IPCEF1 B3GALT4 CNKSR3 SCAF8 VPS52 LINC00336 TIAM2 TFB1M HCG25 CLDN20 MPIG6B RING1 NOX3 ARID1B HSD17B8 ARID1B-AS1 TMEM242-DT PACRG LY6G6D GPANK1 CSNK2B BAK1 CCDC170 LY6G5B PACRG-AS1 ZBTB9 SYNGAP1 ESR1 SYNE1 KIFC1 DAXX PACRG-AS2 ZBTB22 LY6G5C SYNE1-AS2 NANOGP11 VIP LINC02840 ABHD16A FBXO5 LY6G6F PACRG-AS3 RGL2 LY6G6F-LY6G6D SYNE1-AS1 KHDC3L OOEP OOEP-AS1 DDX43 CGAS KPNA5 MTO1 DNPH1 EEF1A1-AS1 CD109-AS1 CD109 COL12A1 TMEM30A RSPH4A TMEM30A-DT CALHM4 ZUP1 B3GAT2 OGFRL1 LINC00472 LINC01626 RIMS1 KCNQ5 KCNQ5-AS1 FAM162B DCBLD1 KHDC1 ROS1 VGLL2 KHDC1-AS1 DPPA5 RFX6 GPRC6A KHDC1L FRK LINC02534 LNCPOIR LINC01621 HS3ST5 ELOVL4 HDAC2-AS2 FILIP1-AS1 TTK BCKDHB LINC02880 TENT5A LINC01526 LINC02542 IBTK TPBG HDAC2 SENP6 CALHM5 MYO6
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10cc50a0-af80-4fa1-b668-893dd5c0113a
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ff69f0ee-fef6-4895-9f48-6c64a68c8289
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Single-Cell Atlas Of Human Pediatric Liver Reveals Age-Related Hepatic Gene Signatures
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Background:
The liver plays a critical role in metabolism and immune function, yet the contributions of its heterogeneous cell types to these processes remain unclear. While most liver studies focus on adults, pediatric liver diseases often present differently, underscoring the need for age-specific research.
Methods:
To better understand cellular drivers of childhood liver diseases, we generated single-cell RNA-sequencing maps of the normal pediatric liver and used this map to examine disease-related populations in biopsies from pediatric patients with intestinal failure–associated liver disease (IFALD).
Results:
The normal pediatric liver map consists of 42,660 cells from 9 donors under 17 years of age. Compared with normal adult liver (26,372 cells; 7 donors, age 26–69), pediatric livers exhibited differences in myeloid populations. Specifically, pediatric Kupffer-like cells (MARCO+C1QA+VSIG4+) exhibited higher expression of immune activation genes, including CCL4, CCL3, and IL1B. In vitro stimulation confirmed more IL-1β-secreting myeloid cells in pediatric versus adult livers, supporting these findings. Using the pediatric atlas as a reference, we analyzed 3 IFALD biopsies (11,969 cells; 3 donors, under 9 y of age) and identified increased expression of fibrosis-associated genes (eg, LY96) in Kupffer-like cells. In addition, mesenchymal cells in IFALD showed fibrotic gene modules resembling adult liver cells more than healthy pediatric cells. These signatures, undetectable when comparing IFALD to adult liver alone, highlight the value of a pediatric map.
Conclusion:
Taken together, our healthy pediatric liver atlas reveals distinct age-related signatures and provides a background against which to interpret pediatric liver disease data.
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Sonya MacParland
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s.macparland@utoronto.ca
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