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pmid:31545431
miR‑126a‑5p‑Dbp and miR‑31a‑Crot/Mrpl4 interaction pairs crucial for the development of hypertension and stroke.
Qini Zhao · Huan Sun · Liquan Yin · Libo Wang
Molecular medicine reports · 2019 doi:10.3892/mmr.2019.10679
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Complete file
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The datasets GSE41452, GSE31457, GSE41453 and GSE53363 were collected from the Gene Expression Omnibus (GEO) database to screen differentially expressed genes (DEGs). The GSE53361 dataset was obtained to analyze differentially expressed miRNAs (DEMs). The DEGs and DEMs were identified between SHR (or SHRSP) rats and normotensive Wistar‑Kyoto (WKY) rats using the Linear Models for Microarray (limma) data method. Venn diagrams were used to show the SHR‑specific, SHRSP‑specific and SHR‑SHRSP shared DEGs and DEMs, and these were utilized to construct the protein‑protein interaction (PPI) and miRNA‑mRNA regulatory networks. The Database for Annotation, Visualization and Integrated Discovery (DAVID) was used to explore the function of the genes. Subsequently, the connectivity Map (CMAP) database was searched to identify small‑molecule drugs. Comparisons between the GSE41452‑GSE31457‑GSE41453 merged and GSE53363 datasets identified 2 SHR‑specific, 8 SHRSP‑specific and 15 SHR‑SHRSP shared DEGs. Function enrichment analysis showed that SHRSP‑specific D‑box binding PAR bZIP transcription factor (Dbp) was associated with circadian rhythm, and SHR‑SHRSP shared carnitine O‑octanoyltransferase (Crot) was involved in fatty acid metabolic processes or the inflammatory response via interacting with epoxide hydrolase 2 (EPHX2). SHR‑SHRSP shared mitochondrial ribosomal protein L4 (Mrpl4) may exert roles by interacting with the threonine‑tRNA ligase, TARS2. The miRNA regulatory network predicted that upregulated Dbp could be regulated by rno‑miR‑126a‑5p, whereas downregulated Crot and Mrpl4 could be modulated by rno‑miR‑31a. The CMAP database predicted that small‑molecule drugs, including botulin, Gly‑His‑Lys, and podophyllotoxin, may possess therapeutic potential. In conclusion, the present study has identified Dbp, Crot and Mrpl4 as potential targets for the treatment of hypertension and stroke. 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"sha256:9f7dd53a7ca6b6f03bfcd414232f939225d74a49774737370c71f57bf5aa8ac6", "bytes": 3512, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[12]/table-wrap[2]#tIII-mmr-20-05-4151", "version": null, "note": "Differentially expressed genes between SHR (or SHRSP) and WKY.", "structure": {"pmcid": "PMC6797943", "section_index": 12, "section_title": "Differential expression analysis", "row_count": 43, "column_count": 8}, "table": {"label": "Table III.", "caption": "Differentially expressed genes between SHR (or SHRSP) and WKY.", "rows": [["", "", "GSE31457-GSE41452-GSE41453", "GSE53363"], ["", "", "", ""], ["", "Gene", "logFC", "P-value", "FDR", "logFC", "P-value", "FDR"], ["SHR-specific", "Ch25h", "0.51", "4.25E-03", "3.40E−01", "0.62", "6.53E-03", "3.82E−01"], ["", "Sec16b", "0.67", "2.61E-02", "9.16E−01", "0.50", "5.58E-03", "3.71E−01"], ["SHRSP-specific", "RGD1310414", "0.57", "1.44E-06", "8.96E-04", "0.53", "2.70E-03", "1.64E−01"], ["", "Nr1d2", "0.58", "6.35E-04", "1.10E−01", "0.54", "2.69E-03", "1.64E−01"], ["", "Dbp", "0.97", "1.15E-03", "1.63E−01", "0.87", "4.76E-03", "2.05E−01"], ["", "LOC686388", "−0.53", "1.41E-03", "1.81E−01", "−0.60", "6.61E-04", "8.71E−02"], ["", "Mb", "−0.53", "3.18E-03", "3.05E−01", "0.54", "4.04E-04", "7.10E−02"], ["", "Pigzl1", "1.23", "4.50E-02", "1.00E−01", "0.63", "3.13E-02", "4.07E−01"], ["", "Tgfbi", "−0.57", "4.66E-02", "1.00E−01", "−0.62", "2.09E-02", "3.59E−01"], ["", "Tef", "0.822", "4.84E-02", "1.00E−01", "0.74", "1.53E-02", "3.20E−01"], ["SHR-SHRSP (SHRSP)", "Endog", "−1.52", "5.13E-09", "7.06E-06", "−0.94", "9.03E-06", "6.20E-03"], ["", "Tor1b", "1.29", "7.91E-09", "1.02E-05", "1.37", "1.69E-08", "7.75E-05"], ["", "Chmp1b", "−1.08", "1.16E-08", "1.40E-05", "−0.70", "8.21E-04", "9.27E−02"], ["", "Riok1", "0.96", "2.01E-06", "1.21E-03", "0.66", "4.15E-04", "7.14E−02"], ["", "Fkbp5", "1.25", "1.15E-05", "5.05E-03", "1.76", "7.83E-06", "5.70E-03"], ["", "Mrpl4", "−0.74", "4.99E-05", "1.58E-02", "−0.87", "5.28E-06", "5.00E-03"], ["", "RGD1562351", "−0.89", "3.21E-04", "6.80E−02", "−0.50", "7.14E-03", "2.42E−01"], ["", "Tars2", "−0.66", "5.01E-04", "9.04E−02", "−0.93", "4.27E-07", "7.32E-04"], ["", "Crot", "−0.77", "1.27E-03", "1.74E−01", "−0.52", "9.78E-03", "2.83E−01"], ["", "Zfp597", "1.37", "2.35E-03", "2.52E−01", "1.00", "2.64E-05", "1.32E-02"], ["", "Ms4a11", "0.76", "4.37E-03", "3.72E−01", "1.09", "7.76E-03", "2.52E−01"], ["", "Aldh5a1", "−0.59", "5.85E-03", "4.45E−01", "−0.51", "2.75E-03", "1.66 E−01"], ["", "Retsat", "−1.07", "1.10E-02", "6.08E−01", "−0.66", "4.09E-02", "4.45E−01"], ["", "Pxmp4", "−0.68", "1.42E-02", "7.07 E−01", "0.93", "1.02E-05", "6.67E-03"], ["", "Tmem14a", "0.67", "1.75E-02", "7.93E−01", "0.80", "6.04E-06", "5.00E-03"], ["SHR-SHRSP (SHR)", "Endog", "−1.54", "1.30E-09", "1.94E-06", "−0.71", "4.88E-04", "1.01E−01"], ["", "Tor1b", "1.27", "3.43E-08", "2.55E-05", "1.04", "1.01E-04", "4.38E-02"], ["", "Chmp1b", "−1.09", "7.64E-09", "7.37E-06", "−0.88", "4.82E-05", "2.81E-02"], ["", "Riok1", "0.98", "1.38E-07", "6.17E-03", "0.56", "3.63E-03", "3.00E−01"], ["", "Fkbp5", "1.20", "5.53E-06", "2.32E-03", "1.22", "9.36E-04", "1.67E−01"], ["", "Mrpl4", "−0.68", "1.82E-05", "6.17E-03", "−0.90", "1.93E-06", "4.40E-03"], ["", "RGD1562351", "−0.81", "1.163E-03", "1.45E−01", "−0.60", "8.74E-04", "1.60E−01"], ["", "Tars2", "−0.61", "8.61E-04", "1.18E−01", "−0.721", "1.21E-04", "4.54E-02"], ["", "Crot", "−0.61", "1.26E-02", "6.10E−01", "−0.53", "4.67E-03", "0.3.48E−01"], ["", "Zfp597", "1.35", "5.63E-03", "3.92E−01", "0.94", "6.49E-05", "3.07E-02"], ["", "Ms4a11", "0.80", "1.34E-02", "6.33E−01", "0.71", "2.24E-02", "5.98E−01"], ["", "Aldh5a1", "−0.55", "8.58E-03", "5.12E−01", "−0.58", "3.00E-04", "7.34E−02"], ["", "Retsat", "−0.96", "2.42E-02", "8.81E−01", "−0.61", "3.19E-02", "6.45E−01"], ["", "Pxmp4", "−0.79", "9.60E-03", "5.41E−01", "0.77", "2.78E-04", "6.95E−02"], ["", "Tmem14a", "0.81", "4.98E-03", "3.72E−01", "0.93", "1.14E-03", "1.84E−01"]], "row_count": 43, "column_count": 8, "numeric_cells": 254, "header_rows": 3, "locator": "section[12]/table-wrap[2]#tIII-mmr-20-05-4151"}}, {"id": "asset:table:pmid:31545431:6", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:f451105755127de7234ea8d10a440bb9bffed3369bea8cd4db8ef7f40319a67c", "bytes": 3365, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[13]/table-wrap[1]#tIV-mmr-20-05-4151", "version": null, "note": "Function enrichment analysis for genes of the SHR-specific group of the PPI network.", "structure": {"pmcid": "PMC6797943", "section_index": 13, "section_title": "PPI network and function enrichment analyses", "row_count": 31, "column_count": 4}, "table": {"label": "Table IV.", "caption": "Function enrichment analysis for genes of the SHR-specific group of the PPI network.", "rows": [["Category", "Term", "P-value", "Genes"], ["GO BP", "GO:0008584~male gonad development", "2.69E−04", "TEX19.1, ADAM6, CYP11A1, RXFP2, CST3, UBB, INSL6"], ["GO BP", "GO:0050728~negative regulation of inflammatory response", "1.76E−03", "CXCL17, IER3, TNFAIP6, PPARD, SMAD3"], ["GO BP", "GO:0043066~negative regulation of apoptotic process", "4.11E−03", "IER3, PPARD, SGK1, PLK3, DUSP1, RXFP2, SMAD3, PALB2, INSL6, HIGD1A"], ["GO BP", "GO:0031640~killing of cells of other organism", "1.80E−02", "DEFA5, NP4"], ["GO BP", "GO:0030513~positive regulation of BMP signaling pathway", "2.00E−02", "HES1, TWSG1, GDF5"], ["GO BP", "GO:0006955~immune response", "2.30E−02", "CXCL1, CD244, CD36, SMAD3, COLEC12, CCL4"], ["GO BP", "GO:0001562~response to protozoan", "2.40E−02", "IER3, CYSS"], ["GO BP", "GO:0030174~regulation of DNA-dependent DNA replication initiation", "2.40E−02", "TEX10, CDT1"], ["GO BP", "GO:0014070~response to organic cyclic compound", "2.47E−02", "HES1, CYP2B2, CYP11A1, CYSS, CST3, FOSL1"], ["GO BP", "GO:0001701~in utero embryonic development", "2.76E−02", "HES1, MAFF, SMAD3, LIG4, PALB2, FOSL1"], ["GO BP", "GO:0007431~salivary gland development", "3.00E−02", "CYSS, CST3"], ["GO BP", "GO:0033262~regulation of nuclear cell cycle DNA replication", "3.00E−02", "TIPIN, CDT1"], ["GO BP", "GO:0010332~response to gamma radiation", "3.10E−02", "CXCL1, CYP11A1, LIG4"], ["GO BP", "GO:0046677~response to antibiotic", "3.28E−02", "CYP11A1, CYSS, SKIL"], ["GO BP", "GO:0006952~defense response", "3.41E−02", "CXCL1, NP4, CST3"], ["GO BP", "GO:0006954~inflammatory response", "3.43E−02", "CXCL1, IL17B, KNG2, LTB4R, CCL4, TLR7"], ["GO BP", "GO:0032755~positive regulation of interleukin-6 production", "3.67E−02", "CD36, IL33, TLR7"], ["GO BP", "GO:0042493~response to drug", "4.10E−02", "CD36, CYP11A1, CYSS, CST3, FABP3, NDUFA10, CDH3, FOSL1"], ["GO BP", "GO:0000076~DNA replication checkpoint", "4.16E−02", "TIPIN, CDT1"], ["GO BP", "GO:0044539~long-chain fatty acid import", "4.16E−02", "CD36, FABP3"], ["GO BP", "GO:0001756~somitogenesis", "4.39E−02", "SMAD3, ZEB2, PALB2"], ["GO BP", "GO:0071356~cellular response to tumor necrosis factor", "4.68E−02", "HES1, MAP3K5, CYP11A1, CCL4"], ["GO MF", "GO:0003677~DNA binding", "6.91E−04", "BATF3, POLL, RCOR3, PTF1A, TIPIN, SMAD3, ZEB2, LIG4, CDT1, HES1, POU2F1, H2AFX, SP7, SKIL, PALB2, FOSL1"], ["", "GO:0070538~oleic acid binding", "1.63E−02", "CD36, FABP3"], ["", "GO:0004869~cysteine-type endopeptidase inhibitor activity", "2.31E−02", "KNG2, CYSS, CST3"], ["", "GO:0001078~transcriptional repressor activity, RNA polymerase II core promoter proximal region sequence-specific binding", "2.69E−02", "BATF3, HES1, PRDM5, SKIL"], ["", "GO:0004559~alpha-mannosidase activity", "4.29E−02", "MAN2B2, MANEA"], ["GO CC", "GO:0005615~extracellular space", "7.23E−04", "CXCL1, TWSG1, KNG2, DEFB14, GDF5, CST3, IL33, CCL4, CXCL17, TNFAIP6, CTSK, CD36, IL17B, DEFA5, SERPINA4, NP4, CYSS, FABP3, UBB"], ["", "GO:0043231~intracellular membrane-bounded organelle", "7.83E−03", "SEC16B, CYP2B2, GLUL, ATP2B3, KNG2, CD36, POU2F1, TIPIN, TREM2, FOSL1, PKD2L1"], ["", "GO:0000785~chromatin", "3.77E−02", "HES1, PLK3, MTBP, H2AFX"]], "row_count": 31, "column_count": 4, "numeric_cells": 75, "header_rows": 1, "locator": "section[13]/table-wrap[1]#tIV-mmr-20-05-4151"}}, {"id": "asset:table:pmid:31545431:7", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:209ce3a8aa8d1fb966f241dc647b3fe658a1e010f7a9eb7268d39759e4d90ce1", "bytes": 5893, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[13]/table-wrap[2]#tV-mmr-20-05-4151", "version": null, "note": "Function enrichment analysis for the genes of the SHRSP group of the PPI network.", "structure": {"pmcid": "PMC6797943", "section_index": 13, "section_title": "PPI network and function enrichment analyses", "row_count": 36, "column_count": 4}, "table": {"label": "Table V.", "caption": "Function enrichment analysis for the genes of the SHRSP group of the PPI network.", "rows": [["Category", "Term", "P-value", "Genes"], ["GO BP", "GO:0032570~response to progesterone", "1.00E−05", "CCNE1, FOS, PTGER2, NCF2, ERBB4, ADH1, HSPA8, JUNB, TGFB1"], ["GO BP", "GO:0010033~response to organic substance", "1.69E−05", "TNF, CYP2D1, MGP, TGFB1, AMPD1, AFP, C1QB, PLA2G4A, BTG2, DUSP1, ALB, SQLE, SPP1"], ["GO BP", "GO:0007067~mitotic nuclear division", "7.62E−05", "ITGB3BP, SPC25, CDK1, PLK1, NUF2, CENPW, MAPRE2, FABP1, CEP55, CCNG1, WEE1"], ["GO BP", "GO:0000122~negative regulation of transcription from RNA polymerase II promoter", "7.95E−04", "TNF, PRRX1, ZEB2, AURKB, ZBTB16, TGFB1, CCNE1, EZR, NR1D1, SOX18, CRY1, TBX6, ISL1, PROX2, JUNB, NKX6-1, SHOX2, HHEX, ATF3, BTG2, PLK1, IRF2BPL, TRPS1, BCL6B, NELFE, NFIA, CRYM"], ["GO BP", "GO:0051301~cell division", "1.34E−03", "ITGB3BP, SPC25, CDK1, CCNE1, CHMP1B, DSN1, NUF2, CENPW, MAPRE2, CCNG1, WEE1"], ["GO BP", "GO:0032496~response to lipopolysaccharide", "1.50E−03", "FOS, SLC11A1, TNFRSF11B, PLA2G4A, PTGER2, TNF, RELT, NCF2, SERPINE1, ACP5, C2, LOXL1, JUNB, TRIB1"], ["GO BP", "GO:0030198~extracellular matrix organization", "1.67E−03", "COL18A1, TNFRSF11B, TNF, ADAMTSL2, OLFML2B, TGFBI, NID1, POSTN"], ["GO BP", "GO:0001755~neural crest cell migration", "1.69E−03", "ERBB4, SEMA3D, ZEB2, ISL1, HTR2B, GDNF"], ["GO BP", "GO:0045880~positive regulation of smoothened signaling pathway", "1.83E−03", "SHOX2, SCUBE3, PRRX1, GAS1, POR"], ["GO BP", "GO:0030316~osteoclast differentiation", "2.07E−03", "TF, TNF, ACP5, DCSTAMP, JUNB"], ["GO BP", "GO:0002062~chondrocyte differentiation", "8.72E−03", "SHOX2, TRPS1, TGFBI, CYTL1, TGFB1"], ["GO BP", "GO:0001889~liver development", "1.47E−02", "AFP, CCNE1, HHEX, COBL, BAAT, HMGCS2, DBP, TK1"], ["GO BP", "GO:0007623~circadian rhythm", "2.06E−02", "DHX9, TNF, NR1D1, DBP, NTRK2, CRY1, TPH1"], ["GO BP", "GO:0045944~positive regulation of transcription from RNA polymerase II promoter", "2.50E−02", "TNF, HEXB, PRRX1, CYTL1, FSTL3, ZEB2, GDNF, TGFB1, HSPH1, SLC11A1, FOS, TEF, SOX18, TBX6, CCNH, NR4A1, ISL1, MECOM, PROX2, JUNB, SHOX2, HHEX, ATF3, IRF2BPL, DBP, TRPS1, NELFE, NFIA"], ["GO BP", "GO:0001525~angiogenesis", "4.50E−02", "COL18A1, SERPINE1, TGFBI, APOLD1, SOX18, PLXND1, EPHB3, THY1"], ["GO BP", "GO:0042542~response to hydrogen peroxide", "4.94E−02", "CDK1, PLA2G4A, DUSP1, ERBB4, MB"], ["GO MF", "GO:0042803~protein homodimerization activity", "6.49E−04", "CADM3, ERBB4, HEXB, ZBTB16, GREM2, GDNF, TGFB1, SLC11A1, ADH1, FAP, ALOX5AP, TEF, CIB2, ZFP423, TESC, OLFML2B, ERP29, EPHX2, FZD1, NR4A1, MECOM, HHEX, C1QB, PPP1R9A, ATF3, NTRK2, CTSE, CRYM"], ["", "GO:0005515~protein binding", "2.81E−03", "COBL, ERBB4, KCNAB1, WASF1, KCNA2, CACNB3, ZBTB16, CDH2, RAB3IP, SDC3, FOS, EZR, HSPA2, NR1D1, ARPC2, SCG3, GUCY1A2, DNAJA1, C2, VMP1, HSPA8, SCN10A, NGEF, CDK1, RAB8B, KCNB1, ERP29, FZD1, NR4A1, NID1, ISL1, THY1, SH3BP5, RT1-A2, EPHA4, PPP1R9A, BTG2, NTRK2, FABP1, ALOX5, MAP6, HTR2B, NFIA"], ["", "GO:0005525~GTP binding", "5.84E−03", "TF, RAB8B, GBP5, GIMAP6, GIMAP8, RRAD, NPR2, RRAGD, GNAT2, RND3, RAB19, RAC3, GUCY1A2, RAB15, RAB26"], ["", "GO:0050840~extracellular matrix binding", "1.06E−02", "OLFML2B, TGFBI, NID1, SPP1"], ["", "GO:0046982~protein heterodimerization activity", "1.50E−02", "ZFP423, CD3G, CD3E, KCNB1, HEXB, CRLF1, FZD1, NR4A1, RRAGD, TGFB1, FOS, ATF3, ALOX5AP, TEF, GUCY1A2, ADRA1A, CENPW, SOX18"], ["GO CC", "GO:0005615~extracellular space", "9.32E−06", "TF, DHH, TNF, LTBP2, IGFBP7, HEXB, PLBD1, SERPINB1A, CCL9, FSTL3, ACP5, POSTN, GREM2, GDNF, TGFB1, CHIT1, MTHFD2, TNFRSF11B, PTGIS, EZR, ALB, SERPINA5, FAP, SERPINE1, TGFBI, SEMA3D, C2, CES1C, HSPA8, SPP1, DPT, WNT8B, COL18A1, CPA6, PRG4, IL9, MGP, CLIC1, SOD3, AFP, CBLN2, F5, IRF2BPL, CPXM1, ALOX5, UBB"], ["", "GO:0031012~extracellular matrix", "1.48E−04", "COL18A1, LTBP2, IGFBP7, CKAP4, MGP, NID1, POSTN, TGFB1, SOD3, CFP, TGFBI, SERPINE1, LOXL1, CLEC14A, DPT"], ["", "GO:0070062~extracellular exosome", "1.59E−04", "LTBP2, IGFBP7, HEXB, TSPAN6, TSPAN8, HSPH1, DES, SLC2A5, SERPINA5, SERPINE1, TGFBI, SCN10A, MB, PTPRJ, DBNL, CDK1, PTPRF, ERP29, MGP, PRKCH, CLIC1, THY1, C1QB, RND3, CHMP1B, DHRS4, BTG2, RELT, RAB19, CTSE, RAB15, UBB, TNFAIP3, AKR1D1, TF, ECH1, SERPINB1A, ACP5, CDH2, GIPC2, ITM2C, EZR, HSPA2, ARPC2, ALB, RAC3, DNAJA1, C2, NDRG2, HSPA8, SPP1, ARHGDIB, DPT, COL18A1, RAB8B, CPPED1, CKAP4, EPHX2, NID1, TMBIM1, RACGAP1, ANXA4, SOD3, NKX6-1, LYVE1, TMEM8A, HEBP1, MYH11, FABP1, CRYM, CLEC14A"], ["", "GO:0005604~basement membrane", "2.12E−04", "COL18A1, TF, LAMC3, ALB, TGFBI, NTN4, NID1, LOXL1, COL4A5"], ["", "GO:0030027~lamellipodium", "3.81E−04", "DBNL, TESC, PPP1R9A, MYO10, WASF1, KCNA2, FAP, CDH2, ARAP3, PLXND1, RAB3IP"], ["KEGG", "rno04010:MAPK signaling pathway", "3.86E−03", "TNF, NR4A1, CACNB3, FGF13, MECOM, TGFB1, FOS, PLA2G4A, HSPA2, DUSP1, NTRK2, GADD45A, HSPA8"], ["KEGG", "rno04610:Complement and coagulation cascades", "1.22E−02", "C1QB, F10, F5, SERPINA5, SERPINE1, C2"], ["KEGG", "rno05142:Chagas disease (American trypanosomiasis)", "1.69E−02", "C1QB, FOS, CD3G, TNF, CD3E, SERPINE1, TGFB1"], ["KEGG", "rno04110:Cell cycle", "3.54E−02", "CDK1, CCNE1, CCNH, PLK1, GADD45A, WEE1, TGFB1"], ["KEGG", "rno04380:Osteoclast differentiation", "3.78E−02", "FOS, TNFRSF11B, TNF, NCF2, ACP5, JUNB, TGFB1"], ["KEGG", "rno04612:Antigen processing and presentation", "3.89E−02", "RT1-A2, TNF, HSPA2, RT1-CE4, RT1-M2, HSPA8"], ["KEGG", "rno04141:Protein processing in endoplasmic reticulum", "4.30E−02", "HSPH1, HSPA2, CKAP4, ERP29, DNAJA1, DDOST, SSR2, HSPA8"], ["KEGG", "rno04115:p53 signaling pathway", "4.53E−02", "CDK1, CCNE1, SERPINE1, CCNG1, GADD45A"], ["KEGG", "rno04514:Cell adhesion molecules (CAMs)", "4.77E−02", "RT1-A2, CADM3, OCLN, PTPRF, RT1-CE4, RT1-M2, CDH2, SDC3"]], "row_count": 36, "column_count": 4, "numeric_cells": 92, "header_rows": 1, "locator": "section[13]/table-wrap[2]#tV-mmr-20-05-4151"}}, {"id": "asset:table:pmid:31545431:8", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:7fcfaf25df57bf4d37122a907b67647663f736e1a877867464e7daab3e91b240", "bytes": 5052, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[13]/table-wrap[3]#tVI-mmr-20-05-4151", "version": null, "note": "Function enrichment for the genes of SHR-SHRSP shared group in the PPI network.", "structure": {"pmcid": "PMC6797943", "section_index": 13, "section_title": "PPI network and function enrichment analyses", "row_count": 37, "column_count": 4}, "table": {"label": "Table VI.", "caption": "Function enrichment for the genes of SHR-SHRSP shared group in the PPI network.", "rows": [["Category", "Term", "P-value", "Genes"], ["GO BP", "GO:0006954~inflammatory response", "9.20E−05", "CXCL1, BMP2, OLR1, AIF1, PTGS1, CHI3L1, EPHX2, CCL19, TLR3, CX3CL1, CYP4F5, CCR5, CYP26B1, CD27"], ["GO BP", "GO:0006955~immune response", "1.33E−04", "CXCL1, RT1-A2, RT1-A1, RT1-CE1, ENPP1, CCR5, IL12A, RT1-CE10, IFI44L, CX3CL1, CTSS, CD27, RT1-BB"], ["GO BP", "GO:0007631~feeding behavior", "8.99E−04", "HCRTR1, HTR1B, NPY4R, NPY1R, APLN"], ["GO BP", "GO:0002474~antigen processing and presentation of peptide antigen via MHC class I", "1.00E−03", "RT1-A2, RT1-A1, RT1-CE1, RT1-CE10, RT1-S3"], ["GO BP", "GO:0055114~oxidation-reduction process", "1.33E−03", "HSD17B11, PTGR1, BMP2, CYP2D5, ALDH5A1, FADS1, HSD17B13, PTGS1, RDH7, P4HA2, CYP4F5, CPOX, CYP26B1, FMO3, OXNAD1, CYP8B1, BDH1, RETSAT, ALOX12"], ["GO BP", "GO:0001916~positive regulation of T cell mediated cytotoxicity", "1.59E−03", "RT1-A2, RT1-A1, IL12A, RT1-S3"], ["GO BP", "GO:0032355~response to estradiol", "3.72E−03", "CXCL1, PENK, FCGR1A, ENDOG, MAP1B, TFPI, BRCA2, NPY1R, BDH1"], ["GO BP", "GO:0045785~positive regulation of cell adhesion", "5.49E−03", "PTPRJ, DUSP26, IL12A, CX3CL1, ALOX12"], ["GO BP", "GO:0007568~aging", "6.20E−03", "CCR5, PENK, FADS1, ENDOG, PTGS1, GFRA1, EPOR, NPY1R, CX3CL1, TIMP1, ALOX12"], ["GO BP", "GO:0006631~fatty acid metabolic process", "6.58E−03", "ACOX2, PER2, ACSF2, ACSM5, CROT"], ["GO BP", "GO:0007417~central nervous system development", "8.57E−03", "NOG, ALDH5A1, DNER, VCAN, LIG4, ZBTB16"], ["GO BP", "GO:0001666~response to hypoxia", "2.00E−02", "AJUBA, VEGFB, PLAT, BMP2, PENK, EPOR, CX3CL1, CBFA2T3, AGTRAP"], ["GO BP", "GO:0009612~response to mechanical stimulus", "4.08E−02", "ACTB, BMP2, ENDOG, MAP1B, CHI3L1"], ["GO MF", "GO:0042605~peptide antigen binding", "1.09E−03", "RT1-A1, RT1-CE1, RT1-CE10, RT1-S3, RT1-BB"], ["", "GO:0005102~receptor binding", "1.83E−03", "ACOX2, PLAT, BMP2, RT1-CE1, HFE2, EPHX2, RT1-S3, HCST, TRDN, RT1-A1, RT1-CE10, CROT, TEC"], ["", "GO:0008083~growth factor activity", "8.50E−03", "VEGFB, CXCL1, BMP2, IL12A, GDNF, TIMP1, THBS4"], ["", "GO:0004829~threonine-tRNA ligase activity", "3.67E−02", "TARS2, TARSL2"], ["", "GO:0001602~pancreatic polypeptide receptor activity", "3.67E−02", "NPY4R, NPY1R"], ["GO CC", "GO:0005615~extracellular space", "2.96E−06", "CXCL1, NAMPT, NOG, HFE2, ENPP1, GLDN, MST1, CX3CL1, C1QC, GDNF, TIMP1, GPC2, APOA1, SERPINA5, PTX3, APLN, SRGN, SPON1, THBS4, ACTB, PLAT, BMP2, UCMA, IL1F10, CHI3L1, CILP, CCL19, CTSS, VEGFB, PROM1, AFP, SERPINA3M, CD59, TFPI, IL12A, SEMA4B, GFRA1, VCAN"], ["", "GO:0009986~cell surface", "9.64E−06", "PLAT, PTPRJ, ITGAL, BMP2, HFE2, ENPP1, TNMD, TLR3, RT1-S3, CX3CL1, CTSS, RT1-BB, HCST, PROM1, APOA1, CCR5, FOLR2, CD59, TFPI, VCAN, ROS1, CLEC5A, CD27"], ["", "GO:0009897~external side of plasma membrane", "3.39E−05", "LY75, ITGAL, TRPM8, ANO1, CCL19, RT1-BB, RT1-A2, CCR5, SERPINA5, FCGR1A, GFRA1, EPOR, CD27, ICOSLG"], ["", "GO:0042612~MHC class I protein complex", "1.76E−04", "RT1-A2, RT1-A1, RT1-CE1, RT1-CE10, RT1-S3"], ["", "GO:0005576~extracellular region", "1.70E−03", "HSD17B11, COL4A2, OLR1, ENPP1, HSD17B13, CTSS, CX3CL1, GDNF, C1QC, TIMP1, DNASE2B, VEGFB, APOA1, PENK, TFPI, VCAN, APOL11A, PLA2G2D, NMU, THBS4"], ["KEGG", "rno04145:Phagosome", "1.97E−06", "ACTB, MSR1, RT1-CE1, OLR1, CTSS, ATP6V1G1, RT1-S3, RT1-BB, RT1-A2, RT1-A1, FCGR1A, ATP6V1E2, RT1-CE10, RT1-N1, THBS4"], ["KEGG", "rno05416:Viral myocarditis", "8.38E−05", "ACTB, RT1-A2, ITGAL, RT1-A1, RT1-CE1, RT1-CE10, RT1-S3, RT1-N1, RT1-BB"], ["KEGG", "rno05330:Allograft rejection", "1.12E−04", "RT1-A2, RT1-A1, RT1-CE1, IL12A, RT1-CE10, RT1-S3, RT1-N1, RT1-BB"], ["KEGG", "rno04940:Type I diabetes mellitus", "1.89E−04", "RT1-A2, RT1-A1, RT1-CE1, IL12A, RT1-CE10, RT1-S3, RT1-N1, RT1-BB"], ["KEGG", "rno04514:Cell adhesion molecules (CAMs)", "3.86E−04", "RT1-A2, SIGLEC1, ITGAL, RT1-A1, RT1-CE1, RT1-CE10, VCAN, RT1-S3, RT1-N1, ICOSLG, RT1-BB"], ["KEGG", "rno05332:Graft-versus-host disease", "5.91E−04", "RT1-A2, RT1-A1, RT1-CE1, RT1-CE10, RT1-S3, RT1-N1, RT1-BB"], ["KEGG", "rno04612:Antigen processing and presentation", "8.43E−04", "RT1-A2, RT1-A1, RT1-CE1, RT1-CE10, RT1-S3, CTSS, RT1-N1, RT1-BB"], ["KEGG", "rno05320:Autoimmune thyroid disease", "1.34E−03", "RT1-A2, RT1-A1, RT1-CE1, RT1-CE10, RT1-S3, RT1-N1, RT1-BB"], ["KEGG", "rno05168:Herpes simplex infection", "2.21E−03", "RT1-A2, RT1-A1, RT1-CE1, CSNK2A1, PER2, IL12A, RT1-CE10, TLR3, RT1-S3, RT1-N1, RT1-BB"], ["KEGG", "rno04610:Complement and coagulation cascades", "5.57E−03", "PLAT, C1QA, CD59, SERPINA5, TFPI, C1QC"], ["KEGG", "rno00650:Butanoate metabolism", "9.57E−03", "HMGCS2, ALDH5A1, BDH1, ACSM5"], ["KEGG", "rno05150:Staphylococcus aureus infection", "1.04E−02", "C1QA, ITGAL, FCGR1A, C1QC, RT1-BB"], ["KEGG", "rno05169:Epstein-Barr virus infection", "3.01E−02", "RT1-A2, ITGAL, RT1-A1, RT1-CE1, RT1-CE10, RT1-S3, RT1-N1"]], "row_count": 37, "column_count": 4, "numeric_cells": 99, "header_rows": 1, "locator": "section[13]/table-wrap[3]#tVI-mmr-20-05-4151"}}, {"id": "asset:table:pmid:31545431:9", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": 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The physical bench the paper used is not, so a physical validation cannot be run here."}, "data": {"tier": "R1", "reachable": true, "accessions": ["GSE41452", "GSE31457", "GSE41453", "GSE53363", "GSE53361"], "resolved_accessions": ["GSE41452", "GSE31457", "GSE41453", "GSE53363", "GSE53361"], "statements": ["The sequencing data GSE41452, GSE31457, GSE41453, GSE53363 and GSE53361 were downloaded from the GEO database in NCBI (http://www.ncbi.nlm.nih.gov/geo/)."], "basis": "The paper names GSE41452, GSE31457, GSE41453, GSE53363, GSE53361 in Gene Expression Omnibus (GEO) database in NCBI and the accession resolves in the repository. 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