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Table 3 68 upregulated and 18 downregulated genes in JHC7-CMTM3 cells vs. JHC7-MOCK cells (padj < 0.001)

From: CMTM3 suppresses chordoma progress through EGFR/STAT3 regulated EMT and TP53 signaling pathway

Gene ID Gene name Gene description Log2 fold change (CMTM3/MOCK) padj
Upregulated DEGs
 ENSG00000140931 CMTM3 CKLF like MARVEL transmembrane domain containing 3 12.25 6.90E−105
 ENSG00000141510 TP53 Tumor protein p53 11.14 9.02E−105
 ENSG00000173110 HSPA6 Heat shock protein family A (Hsp70) member 6 9.65 4.80E−88
 ENSG00000106211 HSPB1 Heat shock protein family B (small) member 1 5.42 2.11E−55
 ENSG00000204388 HSPA1B Heat shock protein family A (Hsp70) member 1B 6.41 1.53E−40
 ENSG00000204389 HSPA1A Heat shock protein family A (Hsp70) member 1A 6.93 5.06E−39
 ENSG00000132002 DNAJB1 DnaJ heat shock protein family (Hsp40) member B1 4.66 6.02E−25
 ENSG00000149257 SERPINH1 Serpin family H member 1 3.61 7.00E−24
 ENSG00000105550 FGF21 Fibroblast growth factor 21 4.44 2.35E−19
 ENSG00000151929 BAG3 BCL2 associated athanogene 3 3.53 6.39E−19
 ENSG00000120694 HSPH1 Heat shock protein family H (Hsp110) member 1 3.50 9.56E−16
 ENSG00000109846 CRYAB Crystallin alpha B 3.51 8.51E−14
 ENSG00000130513 GDF15 Growth differentiation factor 15 2.66 5.81E−13
 ENSG00000080824 HSP90AA1 Heat shock protein 90 alpha family class A member 1 3.77 1.56E−12
 ENSG00000100292 HMOX1 Heme oxygenase 1 4.62 7.00E−12
 ENSG00000004478 FKBP4 FK506 binding protein 4 2.56 9.83E−11
 ENSG00000109971 HSPA8 Heat shock protein family A (Hsp70) member 8 2.70 7.19E−09
 ENSG00000130766 SESN2 Sestrin 2 [Source:HGNC Symbol;Acc:HGNC:20746] 2.24 8.27E−09
 ENSG00000099875 MKNK2 MAP kinase interacting serine/threonine kinase 2 2.39 3.77E−07
 ENSG00000100591 AHSA1 Activator of HSP90 ATPase activity 1 2.07 5.39E−07
 ENSG00000188483 IER5L Immediate early response 5 like 2.72 6.14E−07
 ENSG00000168439 STIP1 Stress induced phosphoprotein 1 2.35 3.19E−06
 ENSG00000168209 DDIT4 DNA damage inducible transcript 4 2.71 3.41E−06
 ENSG00000174951 FUT1 Fucosyltransferase 1 (H blood group) 2.45 3.48E−06
 ENSG00000115541 HSPE1 Heat shock protein family E (Hsp10) member 1 2.14 3.58E−06
 ENSG00000128965 CHAC1 ChaC glutathione specific gamma-glutamylcyclotransferase 1 2.56 3.90E−06
 ENSG00000116161 CACYBP Calcyclin binding protein 2.16 4.86E−06
 ENSG00000224411 HSP90AA2P Heat shock protein 90 alpha family class A member 2, pseudogene 3.45 6.23E−06
 ENSG00000178381 ZFAND2A Zinc finger AN1-type containing 2A 1.98 8.53E−06
 ENSG00000110680 CALCA Calcitonin related polypeptide alpha 8.18 8.98E−06
 ENSG00000087074 PPP1R15A Protein phosphatase 1 regulatory subunit 15A 2.47 9.76E−06
 ENSG00000175084 DES Desmin 2.42 9.94E−06
 ENSG00000086061 DNAJA1 DnaJ heat shock protein family (Hsp40) member A1 2.01 9.94E−06
 ENSG00000121068 TBX2 T-box 2 2.47 1.06E−05
 ENSG00000162783 IER5 Immediate early response 5 1.91 1.06E−05
 ENSG00000121769 FABP3 Fatty acid binding protein 3 2.16 1.06E−05
 ENSG00000096384 HSP90AB1 Heat shock protein 90 alpha family class B member 1 2.18 1.43E−05
 ENSG00000161180 CCDC116 Coiled-coil domain containing 116 4.54 1.75E−05
 ENSG00000258469 CHMP4BP1 Charged multivesicular body protein 4B pseudogene 1 3.80 2.01E−05
 ENSG00000028277 POU2F2 POU class 2 homeobox 2 3.27 2.38E−05
 ENSG00000110172 CHORDC1 Cysteine and histidine rich domain containing 1 2.21 3.93E−05
 ENSG00000008517 IL32 Interleukin 32 2.40 4.39E−05
 ENSG00000139269 INHBE Inhibin subunit beta E 3.70 4.39E−05
 ENSG00000087086 FTL Ferritin light chain 2.01 4.95E−05
 ENSG00000144381 HSPD1 Heat shock protein family D (Hsp60) member 1 1.98 5.26E−05
 ENSG00000225217 HSPA7 Heat shock protein family A (Hsp70) member 7 7.46 5.27E−05
 ENSG00000101255 TRIB3 Tribbles pseudokinase 3 2.20 5.27E−05
 ENSG00000116717 GADD45A Growth arrest and DNA damage inducible alpha 1.79 5.27E−05
 ENSG00000149781 FERMT3 Fermitin family member 3 3.99 5.98E−05
 ENSG00000183696 UPP1 Uridine phosphorylase 1 1.80 6.76E−05
 ENSG00000064300 NGFR Nerve growth factor receptor 3.84 1.04E−04
 ENSG00000164045 CDC25A Cell division cycle 25A 1.93 1.05E−04
 ENSG00000200879 SNORD14E Small nucleolar RNA, C/D box 14E 5.05 1.10E−04
 ENSG00000148926 ADM Adrenomedullin 2.24 1.20E−04
 ENSG00000167513 CDT1 Chromatin licensing and DNA replication factor 1 2.02 1.20E−04
 ENSG00000282855 AC093591.3 INTS3 and NABP interacting protein (INIP) pseudogene 4.03 1.43E−04
 ENSG00000123358 NR4A1 Nuclear receptor subfamily 4 group A member 1 2.01 1.74E−04
 ENSG00000211891 IGHE Immunoglobulin heavy constant epsilon 6.74 1.96E−04
 ENSG00000131094 C1QL1 Complement C1q like 1 1.69 2.43E−04
 ENSG00000105219 CNTD2 Cyclin N-terminal domain containing 2 2.56 3.06E−04
 ENSG00000088826 SMOX Spermine oxidase 1.76 4.19E−04
 ENSG00000068028 RASSF1 Ras association domain family member 1 1.89 4.19E−04
 ENSG00000175183 CSRP2 Cysteine and glycine rich protein 2 2.22 5.01E−04
 ENSG00000213430 HSPD1P1 Heat shock protein family D (Hsp60) member 1 pseudogene 1 2.20 5.33E−04
 ENSG00000237596 AL138828.1 Novel transcript 3.98 6.21E−04
 ENSG00000127564 PKMYT1 Protein kinase, membrane associated tyrosine/threonine 1 2.14 7.75E−04
 ENSG00000066735 KIF26A Kinesin family member 26A 2.13 9.19E−04
 ENSG00000164070 HSPA4L Heat shock protein family A (Hsp70) member 4 like 1.99 9.97E−04
Downregulated DEGs
 ENSG00000147724 FAM135B Family with sequence similarity 135 member B − 2.91 1.04E−07
 ENSG00000147041 SYTL5 synaptotagmin like 5 − 2.36 3.81E−06
 ENSG00000155850 SLC26A2 Solute carrier family 26 member 2 − 2.01 5.79E−06
 ENSG00000103489 XYLT1 Xylosyltransferase 1 − 1.88 1.15E−05
 ENSG00000203727 SAMD5 Sterile alpha motif domain containing 5 − 1.97 1.61E−05
 ENSG00000146938 NLGN4X Neuroligin 4 X-linked − 2.06 2.08E−05
 ENSG00000176055 MBLAC2 Metallo-beta-lactamase domain containing 2 − 3.08 3.93E−05
 ENSG00000073282 TP63 Tumor protein p63 − 3.57 4.30E−05
 ENSG00000232727 YWHAEP1 Tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon pseudogene 1 − 2.16 1.04E−04
 ENSG00000114019 AMOTL2 Angiomotin like 2 − 2.01 1.20E−04
 ENSG00000143971 ETAA1 ETAA1, ATR kinase activator − 2.04 2.23E−04
 ENSG00000082482 KCNK2 Potassium two pore domain channel subfamily K member 2 − 1.67 2.40E−04
 ENSG00000225980 OR7E19P Olfactory receptor family 7 subfamily E member 19 pseudogene − 3.05 2.43E−04
 ENSG00000280798 LINC00294 Long intergenic non-protein coding RNA 294 − 1.78 4.11E−04
 ENSG00000138380 CARF Calcium responsive transcription factor − 2.40 5.01E−04
 ENSG00000143669 LYST lysosomal trafficking regulator − 1.56 6.21E−04
 ENSG00000250305 TRMT9B tRNA methyltransferase 9B (putative) − 2.14 7.52E−04
 ENSG00000104432 IL7 Interleukin 7 − 1.62 8.32E−04