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Table 3 DEGs in plasma after HCV infection in clearance group compared to those in chronically infected group

From: Identification of the transcripts associated with spontaneous HCV clearance in individuals co-infected with HIV and HCV

DEGsa Function Fold difference P value FDR
MIXL1 Mix paired-like homeobox. Among its related pathways are Cardiac Progenitor differentiation and Adipogenesis. 142.7 3.52E–07 0.00142576
SLC30A3 Solute carrier family 30 (zinc transporter), member 3. Its related pathways are Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds and Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds. 23.8 5.32E–07 0.00142576
SFRP5 Secreted frizzled-related protein 5. Its related pathways are Wnt signaling pathway (KEGG) (Wnt proteins are secreted morphogens that are required for basic developmental processes) and Non-Canonical Wnt Pathway. 53.4 2.05E–06 0.00365475
AC007879.2 Uncharacterized 13.8 1.45E–05 0.00595947
AD000091.2 Uncharacterized 283.2 1.05E–05 0.00595947
C12orf44 Autophagy related 101 18.9 8.91E–06 0.00595947
HNF1A-AS1 HNF1A antisense RNA 1 affiliated with the antisense RNA class. 48.4 1.32E–05 0.00595947
LBR Lamin B receptor. Its related pathways are Metabolism and Metabolism. 70.9 1.36E–05 0.00595947
MTMR1 Myotubularin related protein 1. Its related pathways are Metabolism and Metabolism. 20.4 1.44E–05 0.00595947
NLRP13 NLR family, pyrin domain containing 13 10.9 5.86E–06 0.00595947
PPP1R3G Protein phosphatase 1, regulatory subunit 3G. It is related to protein phosphatase binding and glycogen binding. 82.1 1.25E–05 0.00595947
PRPSAP1 Phosphoribosyl pyrophosphate synthetase-associated protein 1. This gene is related to magnesium ion binding and enzyme inhibitor activity. 56.8 1.29E–05 0.00595947
RAB11FIP5 RAB11 family interacting protein 5 (class I). Its related pathways are Endocytosis and Delta508-CFTR traffic / ER-to-Golgi in CF. 53.4 1.01E–05 0.00595947
RP11-436F21.1 Uncharacterized 9.6 1.93E–05 0.00740049
C11orf95 Chromosome 11 open reading frame 95. Diseases associated with C11orf95 include ependymoma and chondroid lipoma. 119.4 2.56E–05 0.00913053
HOXD13 Homeobox D13. This gene is related to sequence-specific DNA binding transcription factor activity and chromatin binding. 96 3.07E–05 0.01028157
RP11-508M8.1 Uncharacterized 14.6 3.46E–05 0.0109017
CTC-504A5.1 Affiliated with the ncRNA class 9.9 3.82E–05 0.01135634
IRS4 Insulin receptor substrate 4. Its related pathways are Signaling by GPCR and Insulin receptor signaling cascade. 54.4 5.62E–05 0.01466991
MANEAL Mannosidase, endo-alpha-like. It is related to hydrolase activity. 14.7 5.95E–05 0.01466991
MCU Mitochondrial calcium uniporter. It is related to calcium channel activity and uniporter activity. 11.9 6.03E–05 0.01466991
SUV420H2_1 Uncharacterized 18.4 5.71E–05 0.01466991
SLC25A18 Solute carrier family 25 (glutamate carrier), member 18. It is related to this gene include symporter activity. 86.7 6.39E–05 0.01489091
GNAI1 Guanine nucleotide binding protein (G protein), alpha inhibiting activity polypeptide 1. Its related pathways are GPCR Pathway and GPCR Pathway. 10.8 6.69E–05 0.01492573
ADPRHL1 ADP-ribosylhydrolase like 1. It is related to magnesium ion binding and ADP-ribosylarginine hydrolase activity. 7.3 9.39E–05 0.01676156
CMTM4 CKLF-like MARVEL transmembrane domain containing 4. It is related to cytokine activity. 16 9.17E–05 0.01676156
F10 Coagulation factor X. it is related the pathways of Hemostasis and Formation of Fibrin Clot (Clotting Cascade). 11.4 8.76E–05 0.01676156
LPAR1 Lysophosphatidic acid receptor 1. Its related pathways are PI3K-Akt signaling pathway and Ras signaling pathway. 9.6 8.50E–05 0.01676156
LYSMD4 LysM, putative peptidoglycan-binding, domain containing 4 10.3 8.30E–05 0.01676156
RP11-886H22.1 Uncharacterized 9.3 9.38E–05 0.01676156
ATP12A ATPase, H+/K+ transporting, nongastric, alpha polypeptide. It is related to the pathways of Ion channel transport and Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds. 10.2 1.22E–04 0.01943478
POU4F1-AS1 RNF219 antisense RNA 1 8.1 1.23E–04 0.01943478
PRDM13 PR domain containing 13. This gene related to methyltransferase activity. 30.5 1.23E–04 0.01943478
ZXDA Zinc finger, X-linked, duplicated A. it is related to sequence-specific DNA binding transcription factor activity and C2H2 zinc finger domain binding. 45.3 1.17E–04 0.01943478
AC009495.4 Uncharacterized 8.9 1.59E–04 0.02368413
RP11–410N8.1 Uncharacterized 29.8 1.55E–04 0.02368413
ANKRD34B Ankyrin repeat domain 34B 10.4 2.00E–04 0.02675171
DPY19L3 Dpy-19-like 3. It is related to transferase activity, transferring glycosyl groups. 5.2 2.08E–04 0.02675171
LINC00609 long intergenic non-protein coding RNA 609 8.9 2.08E–04 0.02675171
RP11–180P8.3 Uncharacterized 96.5 2.15E–04 0.02675171
RP11–492E3.2 Uncharacterized −8.3 2.05E–04 0.02675171
TLX3 T-cell leukemia homeobox 3. Its related pathways are Transcriptional misregulation in cancer and SIDS Susceptibility Pathways. 83.1 1.96E–04 0.02675171
ZFHX3 Zinc finger homeobox 3. Its related pathways are Transcriptional Regulatory Network in Embryonic Stem Cell. 12.5 2.11E–04 0.02675171
SOHLH1 Spermatogenesis and oogenesis specific basic helix-loop-helix 1. It is related to sequence-specific DNA binding transcription factor activity and protein dimerization activity. 15.2 2.54E–04 0.03086759
SLC51A Solute carrier family 51, alpha subunit. It is related the Bile secretion and Drug Induction of Bile Acid Pathway. 7.6 2.60E–04 0.03093234
TCF15 Transcription factor 15 (basic helix-loop-helix). It is related to ERK Signaling and ERK Signaling pathways. 8.8 2.74E–04 0.03191743
RP11–118B18.1 Uncharacterized 6.5 3.08E–04 0.03504717
ATP6V1G2 ATPase, H+ transporting, lysosomal 13 kDa, V1 subunit G2. A multisubunit enzyme that mediates acidification of intracellular compartments of eukaryotic cells. 23.3 3.68E–04 0.04059745
RP11–435M3.2 Uncharacterized 15.9 3.71E–04 0.04059745
C4orf32 A Protein Coding gene 4.4 4.10E–04 0.04218642
ZC3H8 Zinc finger CCCH-type containing 8. It is related to sequence-specific DNA binding transcription factor activity and sequence-specific DNA binding. 7 3.94E–04 0.04218642
ZXDB A protein coding gene. It is related to nucleic acid binding. 32.1 4.03E–04 0.04218642
CHST10 Carbohydrate sulfotransferase 10. Its related pathways are Other types of O-glycan biosynthesis and Biological oxidations. 6.6 4.38E–04 0.04421968
RP11–7F17.5 Uncharacterized −5.1 4.50E–04 0.04426996
TMEM52 Transmembrane protein 52 108.9 4.55E–04 0.04426996
NEURL A Protein Coding gene. It is related the pathways of Signaling by GPCR and Disease. 6 4.68E–04 0.0447815
AP3B1 A protein coding gene. It is related to the pathway of Lysosome and Clathrin derived vesicle budding. 7.8 5.28E–04 0.04960697
  1. aDEG differentially expressed gene