Table 1 DEGs identified between the study groups.
(A) Up- and down-regulated genes in tubulointerstitium in ST dataa | ||
|---|---|---|
Comparison group | Direction | Gene |
pre-TCMR(b) vs. TCMR(b) | Upregulated | LYZ, CXCL9, TRBC1, CCL19, LCP1, IGHG3, IGLL5, HLA-DPA1, IGHG1, HLA-DPB1, PTPRC, IGHG4, IGHG2, CD74, HLA-B, HLA-DRA, HLA-DQB1, TMSB4X, LAPTM5, LSP1, HLA-DQA1, VIM, LIMD2, B2M, C1QB, HLA-E, CTSS, ARHGDIB, CORO1A, CD4, CYBB, H3C7, ARPC1B, H3C2, C1S, HLA-F, C1QC, IGHA1, HLA-DRB1, TGFB1, H1-3, SAMHD1, PTPRCAP, RAC2, CD53, IL2RB, ZNF385A, TRAC, ITGAL, EVI2B, GIMAP4, AKNA, CD247, TMSB10, PLAAT4, LGALS1, STAT1, HCLS1, ITGA4, H3C10, HLA-A, CD8A, TIMP1, H4C12, PLEKHO1, H3C11, TYROBP, RPS19, HLA-C, FLNA, FYB1, RPL28, H1-5, TYMP, LCP2, DOCK2, H2AC11, WIPF1, CD2, GMFG, TAPBP, RPL27A, ITGB2, ANXA2, PTPN6, HLA-DMA, UBD, ADGRE5, H2AC14, MPEG1, NCKAP1L, C1R, TUBB, SH3BGRL3, NKG7, RPS2, HCST, EMB, FCER1G, FGD2, CCL5, IFITM1, ADCY7, H4C6, IL18BP, GPR132, CD3E, FCN1, CD48, SMAP2, CTSZ, FXYD5, PSMB8, ARHGEF1, RPL18A, H2BS1, SELL, COL3A1, CD44, CD68, FGL2, INPP5D, RPS8, WAS, GBP2, LTB, RESF1, GNAI2, RPLP0, RNF213, SRGN, PIK3CD, GBP5, NCF1, C16orf54, TNFAIP2, IL7R, RPS5, CD37, TAP2, TRIM22, GPR174, GIMAP7, H4C15, IRF1, HLA-DMB, CNN2, RPL13, IFI16, S100A11, SPIB, BIRC3, H3C13, MYO1F, VSIR, RPS12, FCMR, FERMT3, RPS27A, BIN2, H3C3, RPS27, RPL10A, ACTA2, ARL6IP5, RPL30, HLA-DOA, DOCK8, RPS13, SLA, H3C4, PPP1R18, KLRG1, C1QA, IFI30, RPS3, TMC8, RPLP1, MARCKSL1, RPLP2, TCF7, JAK3, KLRB1, COL1A1, IFITM3, RPL36A, IKZF1, SASH3, FKBP1A, TCIRG1, PRKCB, TGM2, RPS15A, SIPA1, TUBA1C, IL2RG, DEF6, ARHGAP25, LST1, RPL32, MSN, SNX20, FBLN1, RPS18, JAML, RPS14, RPL18, RPL27, CCND2, RPL38, PARP8, TPM4, H2AC17, RPS9, H2BC9, CLEC10A, UBE2L6, RPL4, BTN3A1, STK17B, PLEK, ANKRD44, RPS11, RPL15, ZYX, RPS21, RPL39, ANXA6, RPL13A, CST3, SPI1, FYN, BST2, COL6A3, GZMK, APOL3, H2AC12, FMNL1, PLCB2, PSME2, RPL35, RPS29, AP1S2, CIITA, EVL, H2AC19, CRIP1, DOCK10, UBA52, RASSF2, RCSD1, TRAT1, MGP, PFN1, SEPTIN9, RPL11, GLIPR2, CAP1, CLEC7A, ACTN1, PABPC1, IL27RA, STK10, MAN2B1, PPP1CA, PSMB10, TLN1, CSK, LILRB4, SCO2 |
Downregulated | SLC6A19, SHOX, CCN1, SLC5A2, ATF3, MT1HL1, VASH2, GSTA1, OR8U9, CYP4F3, AFM, REN, SLC34A1, SLC5A12, LGALS14, EGFL6, FAM151A, SLC8A2, SLC25A25, ALDOB, RNF152, SLC22A8, SPRR2F, PER1, CYP3A5, SLC25A19, APOM, ARG2, PDZK1IP1, UGT2B7, DCAF4L2, UGT2B28, TEX38, SLC47A2, FUT6, GIPC2, CEACAM18, PRSS35, PRODH2, SLC16A9, MT1F, C4BPB, TCIM, SLC17A3, ABHD12B, ZNF579, PDZK1, ALB, SLC27A2, MT1G, ALDH4A1, PCSK1N, SLC22A6, KCNRG, NUP62CL, PLG, LAMC2, GSTA2, RRH, C19orf81, SLC7A8, MAFF, ASB9, DIO1, SLC6A13, AGXT2, QPRT, OVCH2, FRRS1, ERRFI1, LRP2, FOXC1, FOS, AZGP1, APOE, PRKD1, PPP3CA, MTRNR2L8, ZFP36, NR4A1, UGT3A1, MICALCL, RIDA, AK4, ETNK2, UPB1, USP2, CLTRN, ALDH1L1, ACSM2B, PCK1, EGR1, GATM, PSAT1, FAM110C, SLC6A18, CCDC200, LARS2, GSTA3, CYP4A22, SLC39A5, GPX3, DDC, CYP27B1, BBOX1, TMEM88, OR9G1, SLC13A3, HPD, AMN, FAM89A, MME, CNIH2, NRSN2, DPEP1, ASS1, SLC4A4, GDF15, XPNPEP2, DUSP1, SMIM24, GPR20, FABP1, TNFRSF18, ACP4, PDK4, TINAG, GPD1, SLC17A1, KANK1, RHOB, SLC12A3, ANKS4B, MT1H, CMBL, ZNF517, ALPK2, CES3, BMX, TAS2R16, GLYAT, SPINK8, SLC13A5, MIOX, CLDN14, BHMT, CBLC, AGMAT, JUN, MAGEB2, NR1H4, PAH, CDHR5, ACSM2A, G6PC1, SIK1, LECT2, SLC36A2, TMEM150B, TRABD2B, MT1X, BHMT2, GADD45A, FZD9, CUBN, KLHL33, DPYS, ALDH5A1 | |
(B) Up- and down-regulated genes in scRNA-seq datab | ||
|---|---|---|
Comparison group | Direction | DEG |
pre-TCMR(p) vs. TCMR(p) | Upregulated | LTB, STAT1, NFKBIA, UCP2, GBP5, PSME2, GZMK, UBE2L6, CTSW, CD74, CALR, RPS4Y1, RGCC |
Downregulated | YPEL3, CX3CR1, XCL2, HLA-DQA2, CDKN2D, METRNL, RHOB, MALAT1, GIMAP7, CCL3, BRD2, TXNIP, TUBB4B, TRDC, GADD45B, IFNG, TRBV5-5, CCL4, CCL4L2 | |
post-CTRL(p) vs. TCMR(p) | Upregulated | TRBV14, RPS4Y1, RPS26, TRAV38-2DV8, TRGV4, CD8B, TRBV5-1, COTL1, LTB, DDX3Y, GZMK, ARPC1B, KLRC2, HLA-DQA1, STAT1, CD27, FCRL6, CD8A, TIGIT, IFITM3, ZNF683, PSME2, TRAC, PSMB9, CCDC167, TRGV5, IFITM2, UBE2L6, XAF1, IFITM1, NUCB2, CD160, TRGV2, ANXA2, COL6A2, IRF1, IL7R, GSTM1, TMBIM6, HLA-DQB1, UTY, PFN1, UCP2, PRKY, S100A11, PYCARD, SAMHD1, DUSP2, SELENOH, CKLF, YBX3, TCF7, KLF2, HLA-A, RAC2, TNFAIP8, ANAPC16, GBP5, TAGLN2, USP9Y, RHOH, FLT3LG, PTGDR, CRIP1, PECAM1, ACTB, PRDX2, BST2, ISG20, TRADD, PLAAT4, NPC2, ITGB2-AS1, PLEK, THEMIS, IL32, FYB1, HLA-F, LINC02446, ANXA11, ORAI1, NUTM2B-AS1, PFKP, SLC9A3R1, WDR1, PTGER2, CMC1, H1FX, PARP9, INPP4B, AGTRAP, NSG1, PSMB10, APBA2, SMAGP, PIP4K2A, HOPX, NDUFAF3, NLRC5, CORO1A, GZMH |
Downregulated | PLEKHF1, HSD17B11, RASGRP1, MT-ND4L, ATP6V1G1, IDI1, STK17A, GLIPR1, CSNK1D, EIF2S3, SMAD7, ARL4C, SEC14L1, HLA-DRA, NR1D2, BRD7, RGS1, RORA, RALGAPA1, SARAF, LDHA, RIOK3, TSEN54, DDX3X, VPS37B, GLRX, MTFP1, TUBB4B, ID2, LEPROTL1, SNHG5, SLC2A3, IL18RAP, DUSP10, TRDV1, JMJD6, RNF166, NR4A2, SPON2, PIK3R1, OXNAD1, CST3, DDIT4, SRSF3, DSTN, MAFF, ZBTB44, HPGD, ENC1, TRDC, CISH, CNOT2, PTS, AREG, ARID5A, SYAP1, CD55, ID1, KLRC1, LITAF, TNFRSF1B, ZNF331, BHLHE40, AC243829.1, KIR3DL2, HLA-DQA2, FOSL2, RPS10, TRGC1, YPEL3, IER5L, SLC7A5, EIF1AX, SATB1, TRGV10, SH2D2A, SPOCK2, CEBPD, SLA2, ERAP2, TNFAIP3, CD5, RPS4X, RBM38, DNAJB6, MAP3K8, GADD45B, FTH1, RAB5IF, SYNGR1, GTF3C1, IFNGR1, RGS2, PDE4D, AUTS2, GNLY, CREM, SELL, MT2A, CD247, GZMB, TRBC1, FCGR3A, FGFBP2, HLA-C, METRNL, TRBV28, HLA-DRB5, MYOM2, CCL4L2, TRGV9, TRDV2 | |
