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Transcriptome Changes in Muscle Tissue



The average variation pattern of gene expression in Muscle tissue over time after burn injuries is shown in the heatmap below. Each row of the heatmap shows the average expression level of one significant gene over the time. The left-most column shows the control level, which serves as a reference. The rest columns are the average expression levels among all the burned patients over 5 time bins, 0-4 days, 4-10 days, 10-21 days, 21-60 days and after 60 days, respectively.

3339 genes (5299 probesets) differentially expressed between patients and controls are grouped into 6 clusters by K-mean clustering algorithm. Among these significant genes, 1297 genes (1884 probesets) are up-regulated and 2058 genes (3415 probesets) are down-regulated.

Note: To see the detailed information of a cluster, click the cluster on the heatmap below.

Clustering

To see the detail information of a cluster, click the cluster on the heatmap below.




Pathway analysis of significant genes in Muscle tissue

Most significant 15 pathways by Ingenuity



Ingenuity Canonical Pathway p-value(log) Ratio Molecules
Calcium Signaling100.322ACTC1, ASPH, ATP2A1, ATP2A2, ATP2B2, ATP2B4, ATP2C1, CALM1, CAMK1D, CAMK2A, CAMK2B, CAMK2D, CAMK2G, CASQ1, CASQ2, CHRNA1, CHRNB1, CHRND, CREB1, CREB5, HDAC4, ITPR2, MEF2A (includes EG:4, MEF2D, MYH1, MYH2, MYH3, MYH6, MYH7, MYH8, MYH10, MYH14, MYH7B (includes EG:5, MYL1, MYL2, MYL5, MYL6, MYL6B, PPP3CA, PPP3CC, PPP3R1, PRKACB, PRKAG2, PRKAR1A, PRKAR2B, RAP1B, RAP2A, RAP2B, RCAN3, RYR1, SLC8A1, SLC8A3, TNNC1, TNNC2, TNNI1, TNNI2, TNNT1, TNNT2, TNNT3, TP63, TPM1, TPM2, TPM3, TRDN, TRPC1
Protein Kinase A Signaling8.980.298ADCY7, ADD3, AKAP2, AKAP6, AKAP7, AKAP9, AKAP10, AKAP11, AKAP12, ANAPC2, ANAPC5, CALM1, CAMK2A, CAMK2B, CAMK2D, CAMK2G, CDC27, CREB1, CREB5, CTNNB1, FLNC, GLI3, GNAI1, GNAI3, GNAQ, GNB4, GNB5, GNG2, GNG10, GNG12, GSK3B, GYS1, ITPR2, KDELR2, KDELR3, LEF1, MAP2K2, MAP3K1, MYH2, MYH10, MYL1, MYL2, MYL5, MYL6, MYL10, MYL6B, MYLK, MYLK2, MYLK3, MYLPF, NFKBIB, PDE11A, PDE1A, PDE3B, PDE4B, PDE4D, PDE5A, PDE7B, PDE8A, PDE8B, PLCB1, PLCD3, PLCE1, PLCG2, PLCL1, PPP1CB, PPP1R12A, PPP1R14B, PPP1R14C, PPP1R3C, PPP1R3D, PPP3CA, PPP3CC, PPP3R1, PRKACB, PRKAG2, PRKAR1A, PRKAR2B, PRKD1, PRKD3, PYGM, RAP1B, RELA, RYR1, SMAD4, TCF4, TCF7, TCF7L2, TGFB1, TGFB2, TGFB3, TNNI1, TNNI2, TTN, YWHAE, YWHAZ
Cardiac β-adrenergic Signaling7.940.331ADCY7, ADRB1, ADRBK2, AKAP2, AKAP6, AKAP7, AKAP9, AKAP10, AKAP11, AKAP12, ATP2A1, ATP2A2, CACNA1S, GNB4, GNB5, GNG2, GNG10, GNG12, MRAS, PDE11A, PDE1A, PDE3B, PDE4B, PDE4D, PDE5A, PDE7B, PDE8A, PDE8B, PKIA, PKIG, PPM1J, PPP1CB, PPP1R12A, PPP1R14B, PPP1R14C, PPP1R3C, PPP1R3D, PPP2R4, PPP2R1B, PPP2R2A, PPP2R3A, PPP2R3B, PPP2R5C, PRKACB, PRKAG2, PRKAR1A, PRKAR2B, SLC8A1, SLC8A3
Hepatic Fibrosis / Hepatic Stellate Cell Activation7.50.354AGTR1, BCL2, CCL5, COL1A1, COL1A2, COL3A1, EDN1, EDNRA, EGF, FAS, FGF1, FGF2, FGFR1, FGFR2, FN1, IFNAR1, IFNGR2, IGF1, IGFBP3, IL6R, LBP, LEP, LEPR, MET, MMP1 (includes EG:43, MYH1, MYH2, MYH3, MYH6, MYH7, MYH8, MYH10, MYH14, MYH7B (includes EG:5, MYL1, MYL2, MYL5, MYL6, MYL6B, PDGFA, PDGFC, PDGFRA, RELA, SMAD4, SMAD7, STAT1, TGFB1, TGFB2, TGFB3, TIMP2, TLR4
ILK Signaling7.470.33ACTC1, ACTN2, ACTN3, ATM, CCND1, CDC42, CFL2, CREB1, CREB5, CTNNB1, FLNC, FN1, FNBP1, GSK3B, ILKAP, IRS1, ITGB5, ITGB6, LEF1, MAPK10, MAPK12, MYC, MYH1, MYH2, MYH3, MYH6, MYH7, MYH8, MYH10, MYH14, MYH7B (includes EG:5, MYL1, MYL2, MYL5, MYL6, MYL6B, PARVA, PARVB, PDGFC, PIK3C2A, PIK3C2B, PIK3CA, PIK3R5, PPM1J, PPP1R14B, PPP2R4, PPP2R1B, PPP2R2A, PPP2R3A, PPP2R3B, PPP2R5C, PTEN, RAC1, RELA, RHOB, RHOD, RHOG, RHOJ, RHOU, SNAI2, VIM
ERK/MAPK Signaling6.590.299BCAR1, CREB1, CREB5, DUSP1, DUSP4, DUSP6, ELF1, ELF2, ELK3, ESR1, ETS1, ETS2, FYN, HSPB1, HSPB2, HSPB3, HSPB7, ITGA2, ITGA4, KRAS, KSR1, MAP2K2, MKNK2, MRAS, MYC, PAK1, PIK3C2A, PIK3C2B, PIK3CA, PIK3R5, PLA2G2A, PLA2G4A, PLA2G4C, PLCG2, PPARG, PPM1J, PPP1CB, PPP1R12A, PPP1R14B, PPP1R14C, PPP1R3C, PPP1R3D, PPP2R4, PPP2R1B, PPP2R2A, PPP2R3A, PPP2R3B, PPP2R5C, PRKACB, PRKAG2, PRKAR1A, PRKAR2B, RAC1, RAP1B, SOS1, STAT1, STAT3, TLN2, YWHAZ
Colorectal Cancer Metastasis Signaling6.080.282ADCY7, ADRBK2, ATM, BCL2L1, CCND1, CTNNB1, EGF, FNBP1, FZD5, FZD6, FZD7, FZD9, GNB4, GNB5, GNG2, GNG10, GNG12, GSK3B, IL6R, IL6ST, JAK1, JAK2, KRAS, LEF1, LRP6, MAP2K2, MAPK10, MAPK12, MMP14, MMP16, MMP28, MMP1 (includes EG:43, MRAS, MSH2, MSH6, MYC, PDGFC, PIK3C2A, PIK3C2B, PIK3CA, PIK3R5, PRKACB, PRKAG2, PRKAR1A, PRKAR2B, PTGER2, PTGER3, PTGER4, RAC1, RELA, RHOB, RHOD, RHOG, RHOJ, RHOU, SMAD4, SOS1, STAT1, STAT3, TCF4, TCF7, TCF7L2, TGFB1, TGFB2, TGFB3, TLR1, TLR3, TLR4, TLR7, TP53, WNT5A, WNT9A
Integrin Signaling6.060.302ADCY7, ADRA2A, ADRB1, ATM, CACNA1S, CALM1, CREB1, FNBP1, GNAI1, GNAI3, GNAQ, GNB4, GNB5, GNG2, GNG10, GNG12, GSK3B, HSPB1, IGF1, IL6R, IRS1, KRAS, MAP2K2, MAP2K7, MAP3K1, MAP3K7, MAP3K8, MAP3K13, MAP3K14, MAP3K5 (includes EG:, MAPK10, MAPK12, MAPKAPK3, MEF2A (includes EG:4, MEF2D, MRAS, MYL1, MYL2, MYL5, MYL6, MYL10, MYL6B, MYLPF, PIK3C2A, PIK3C2B, PIK3CA, PIK3R5, PLCB1, PLCD3, PLCE1, PLCG2, PLCL1, PPP3CA, PPP3CC, PPP3R1, PRKACB, PRKAG2, PRKAR1A, PRKAR2B, RHOB, RHOD, RHOG, RHOJ, RHOU, SOS1, TGFB1, TGFB2, TGFB3
Cardiac Hypertrophy Signaling60.28ADCY7, ATM, CALM1, CAMK1D, CAMK2A, CAMK2B, CAMK2D, CAMK2G, CSNK1A1, GNAI1, GNAI3, GNAQ, GNB4, GNB5, GNG2, GNG10, GNG12, GSK3B, HDAC4, IGF1, IL6ST, ITPR2, KRAS, MAP2K2, MAP2K7, MAP3K1, MAP3K7, MAPK10, MAPK12, MEF2A (includes EG:4, MEF2D, MRAS, PIK3C2A, PIK3C2B, PIK3CA, PIK3R5, PLCB1, PLCD3, PLCE1, PLCG2, PLCL1, PPP3CA, PPP3CC, PPP3R1, PRKACB, PRKAG2, PRKAR1A, PRKAR2B, PRKD1, PRKD3, RAC1, RCAN3, SLC8A1, SLC8A3, SOS1, TGFB1, TGFB2, TGFB3
Role of NFAT in Cardiac Hypertrophy5.850.28ACTC1, ACTN2, ACTN3, ACTR2, ARF1, ARPC5, ASAP1, ATM, BCAR1, CAPN3, CAPN6, CAPN7, CAV1, CDC42, FNBP1, FYN, GSK3B, ILKAP, ITGA2, ITGA4, ITGA6, ITGA8 (includes EG:8, ITGB5, ITGB6, KRAS, MAP2K2, MRAS, MYL2, MYL5, MYLK, MYLK2, MYLK3, PAK1, PARVA, PARVB, PIK3C2A, PIK3C2B, PIK3CA, PIK3R5, PLCG2, PPP1CB, PPP1R12A, PTEN, RAC1, RAP1B, RAP2A, RAP2B, RHOB, RHOD, RHOG, RHOJ, RHOU, SOS1, TLN2, TSPAN2, TSPAN6, TSPAN7, TTN, WIPF1, ZYX
Actin Cytoskeleton Signaling5.540.273ADCY7, APH1B, ARHGEF10, ATM, BCL2, BCL2L1, BMPR2, BMPR1A, CAMK2A, CAMK2B, CAMK2D, CAMK2G, CASP6, CASP8, CCND1, CCND2, CDC42, CDK6, CDKN1A, CDKN2C, CFLAR, CTNNB1, CTNND1, CYCS (includes EG:54, FAS, FNBP1, FOXO1, FYN, FZD5, FZD6, FZD7, FZD9, GAB1, GNAI1, GNAI3, GNAQ, GSK3B, HIPK2, IRS1, JAK1, JAK2, KRAS, LEF1, LRP6, MAP2K2, MAP3K7, MAP3K5 (includes EG:, MAPK10, MAPK12, MAX, MRAS, MYC, NAIP, NBN, NF1, NFKBIB, PAK1, PIK3C2A, PIK3C2B, PIK3CA, PIK3R5, PLCB1, PRKACB, PRKAG2, PRKAR1A, PRKAR2B, PRKD1, PRKD3, PSEN1, RAC1, RAP1B, RAP2A, RAP2B, RASA1, RASGRP1, RELA, RHOB, RHOD, RHOG, RHOJ, RHOU, SMAD4, SMAD6, SMAD7, SOS1, TCF4, TFDP1, TGFB1, TGFB2, TGFB3, TP53, WNT5A
Molecular Mechanisms of Cancer5.530.248ACTC1, ACTN2, ACTN3, ACTR2, ARPC5, ATM, BCAR1, CDC42, CFL2, DIAPH1, EGF, EZR, F2R, FGF1, FGF2, FGF9, FN1, GNG12, IQGAP1, IQGAP2, ITGA2, ITGA4, KRAS, LBP, MAP2K2, MRAS, MYH1, MYH2, MYH3, MYH6, MYH7, MYH8, MYH10, MYH14, MYH7B (includes EG:5, MYL1, MYL2, MYL5, MYL6, MYL10, MYL6B, MYLK, MYLK2, MYLK3, MYLPF, PAK1, PDGFA, PDGFC, PDGFD, PFN2, PIK3C2A, PIK3C2B, PIK3CA, PIK3R5, PPP1CB, PPP1R12A, RAC1, SOS1, SSH1, SSH2, TIAM2 (includes EG:2, TTN, WASF1
Aryl Hydrocarbon Receptor Signaling5.10.29ALDH18A1, ALDH1A1, ALDH1B1, ALDH4A1, ALDH5A1, ALDH6A1, ALDH7A1, ALDH9A1, ATM, CCND1, CCND2, CDK6, CDKN1A, CTSD, DHFR, ESR1, FAS, GSTA4, GSTM1, GSTM2, HSP90AB1, HSP90B1, HSPB1, HSPB2, HSPB3, HSPB7, MGST1, MGST2, MYC, NFIA, NFIB, NFIC, NFIX, NR2F1, RARA, RELA, SMARCA4, SP1, TFDP1, TGFB1, TGFB2, TGFB3, TGM2, TP53
PAK Signaling4.980.308ACTC1, ADCY2, ADCY7, CACNA1S, CACNG1, CALM1, ITPR2, KCNN3, MYH1, MYH2, MYH3, MYH6, MYH7, MYH8, MYH10, MYH14, MYH7B (includes EG:5, MYL1, MYL2, MYL5, MYL6, MYL10, MYL6B, MYLK, MYLPF, PDE1A, PDE3B, PDE4B, PDE4D, PDE5A, PLCB1, PLCD3, PLCE1, PLCG2, PLCL1, PPP1CB, PPP1R12A, PRKACB, PRKAG2, PRKAR1A, PRKAR2B, SLC4A11
Virus Entry via Endocytic Pathways4.870.33ATM, CAT, FNBP1, IFNGR2, IKBKB, IRF8, JAK1, JAK2, MAP2K7, MAP3K1, MAP3K7, MAP3K8, MAP3K13, MAP3K14, MAP3K5 (includes EG:, MAPK10, MAPK12, NFKBIB, PIK3C2A, PIK3C2B, PIK3CA, PIK3R5, PLCG2, PPM1J, PPP1CB, PPP1R12A, PPP1R14B, PPP1R14C, PPP1R3C, PPP1R3D, PPP2R4, PPP2R1B, PPP2R2A, PPP2R3A, PPP2R3B, PPP2R5C, PRKD1, PRKD3, RAC1, RAP1B, RELA, RHOB, RHOD, RHOG, RHOJ, RHOU, STAT1, TLR4