Schematic overview of the cellular and molecular mechanisms involved in the cancer progression, including the proposed cellular and molecular mechanisms in cancer cells trajectory. AT1: alveolar type 1 cells; AT2: alveolar type 2 cells; AAH: atypical adenomatous hyperplasia; AIS: adenocarcinoma in situ; MIA: minimally invasive adenocarcinoma; IA: invasive adenocarcinoma; EMT: epithelial-mesenchymal transition

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Center for Computational Systems Medicine
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Gene summary

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Malignant transformation analysis

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Malignant transformation related pathway analysis

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Cell-cell communication analysis

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Single-cell gene regulatory network inference analysis

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Somatic mutation of malignant transformation related genes

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Related drugs of malignant transformation related genes

Gene: PPARGC1A

Gene summary for PPARGC1A

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

PPARGC1A

Gene ID

10891

Gene namePPARG coactivator 1 alpha
Gene AliasLEM6
Cytomap4p15.2
Gene Typeprotein-coding
GO ID

GO:0000002

UniProtAcc

Q9UBK2


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Malignant transformation analysis

check button Identification of the aberrant gene expression in precancerous and cancerous lesions by comparing the gene expression of stem-like cells in diseased tissues with normal stem cells
check button Malignant transformation involving gene list.
Entrez IDSymbolReplicatesSpeciesOrganTissueAdj P-valueLog2FCMalignancy
10891PPARGC1AHTA11_3410_2000001011HumanColorectumAD8.31e-19-6.52e-010.0155
10891PPARGC1AHTA11_3361_2000001011HumanColorectumAD1.04e-02-4.65e-01-0.1207
10891PPARGC1AHTA11_866_3004761011HumanColorectumAD2.46e-13-5.83e-010.096
10891PPARGC1AHTA11_9408_2000001011HumanColorectumAD5.05e-04-8.05e-010.0451
10891PPARGC1AHTA11_8622_2000001021HumanColorectumSER1.25e-04-7.11e-010.0528
10891PPARGC1AHTA11_10711_2000001011HumanColorectumAD1.06e-10-6.81e-010.0338
10891PPARGC1AHTA11_7696_3000711011HumanColorectumAD3.89e-19-5.75e-010.0674
10891PPARGC1AHTA11_6818_2000001011HumanColorectumAD6.01e-03-6.23e-010.0112
10891PPARGC1AHTA11_99999970781_79442HumanColorectumMSS2.35e-04-4.07e-010.294
10891PPARGC1AHTA11_99999965104_69814HumanColorectumMSS6.52e-03-4.76e-010.281
10891PPARGC1AHTA11_99999971662_82457HumanColorectumMSS3.91e-14-5.37e-010.3859
10891PPARGC1AHTA11_99999973899_84307HumanColorectumMSS8.07e-08-6.95e-010.2585
10891PPARGC1AHTA11_99999974143_84620HumanColorectumMSS4.63e-37-7.87e-010.3005
10891PPARGC1AF007HumanColorectumFAP2.81e-05-3.94e-010.1176
10891PPARGC1AA001-C-207HumanColorectumFAP3.90e-09-4.80e-010.1278
10891PPARGC1AA015-C-203HumanColorectumFAP1.22e-28-6.23e-01-0.1294
10891PPARGC1AA015-C-204HumanColorectumFAP1.29e-08-4.66e-01-0.0228
10891PPARGC1AA014-C-040HumanColorectumFAP1.91e-05-5.20e-01-0.1184
10891PPARGC1AA002-C-201HumanColorectumFAP3.93e-17-4.95e-010.0324
10891PPARGC1AA002-C-203HumanColorectumFAP1.06e-07-4.13e-010.2786
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check button Transcriptomic changes along malignancy continuum.
TissueExpression DynamicsAbbreviation
Colorectum (GSE201348)The image shows the transcriptomic changes along malignancy continuum.log2FC in expression of this searched gene in stem-like cells from each diseased tissue sample relative to stem-like cells in normal samples in each tissue plotted against the malignancy continuum. Samples are colored based on if they are from different disease stage.FAP: Familial adenomatous polyposis
CRC: Colorectal cancer
Colorectum (HTA11)The image shows the transcriptomic changes along malignancy continuum.log2FC in expression of this searched gene in stem-like cells from each diseased tissue sample relative to stem-like cells in normal samples in each tissue plotted against the malignancy continuum. Samples are colored based on if they are from different disease stage.AD: Adenomas
SER: Sessile serrated lesions
MSI-H: Microsatellite-high colorectal cancer
MSS: Microsatellite stable colorectal cancer
LiverThe image shows the transcriptomic changes along malignancy continuum.log2FC in expression of this searched gene in stem-like cells from each diseased tissue sample relative to stem-like cells in normal samples in each tissue plotted against the malignancy continuum. Samples are colored based on if they are from different disease stage.HCC: Hepatocellular carcinoma
NAFLD: Non-alcoholic fatty liver disease
ThyroidThe image shows the transcriptomic changes along malignancy continuum.log2FC in expression of this searched gene in stem-like cells from each diseased tissue sample relative to stem-like cells in normal samples in each tissue plotted against the malignancy continuum. Samples are colored based on if they are from different disease stage.ATC: Anaplastic thyroid cancer
HT: Hashimoto's thyroiditis
PTC: Papillary thyroid cancer
∗log2FC in expression of this searched gene in stem-like cells from each diseased tissue sample relative to stem-like cells in normal samples in each tissue plotted against the malignancy continuum. Samples are colored based on if they are from different disease stage.

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Malignant transformation related pathway analysis

check buttonFind out the enriched GO biological processes and KEGG pathways involved in transition from healthy to precancer to cancer
check button Figure of enriched GO biological processes.
TissueDisease StageEnriched GO biological Processes
ColorectumADGO analysis - Figure of enriched GO biological processes: Top 15 enriched GO BP terms are showed in the bar plot of each disease state in each tissue. Each row represents a significant GO biological process which is colored according to the -log10(p.adjust).
ColorectumSERGO analysis - Figure of enriched GO biological processes: Top 15 enriched GO BP terms are showed in the bar plot of each disease state in each tissue. Each row represents a significant GO biological process which is colored according to the -log10(p.adjust).
ColorectumMSSGO analysis - Figure of enriched GO biological processes: Top 15 enriched GO BP terms are showed in the bar plot of each disease state in each tissue. Each row represents a significant GO biological process which is colored according to the -log10(p.adjust).
ColorectumMSI-HGO analysis - Figure of enriched GO biological processes: Top 15 enriched GO BP terms are showed in the bar plot of each disease state in each tissue. Each row represents a significant GO biological process which is colored according to the -log10(p.adjust).
ColorectumFAPGO analysis - Figure of enriched GO biological processes: Top 15 enriched GO BP terms are showed in the bar plot of each disease state in each tissue. Each row represents a significant GO biological process which is colored according to the -log10(p.adjust).
∗Top 15 enriched GO BP terms are showed in the bar plot of each disease state in each tissue. Each row represents a significant GO biological process which is colored according to the -log10(p.adjust).
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check button Enriched GO biological processes.
GO IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustCount
GO:00098954ColorectumFAPnegative regulation of catabolic process91/2622320/187239.66e-124.96e-0991
GO:00091504ColorectumFAPpurine ribonucleotide metabolic process96/2622368/187234.91e-101.20e-0796
GO:00083804ColorectumFAPRNA splicing108/2622434/187237.90e-101.86e-07108
GO:00159804ColorectumFAPenergy derivation by oxidation of organic compounds85/2622318/187231.36e-092.77e-0785
GO:00061634ColorectumFAPpurine nucleotide metabolic process100/2622396/187231.45e-092.77e-07100
GO:00092593ColorectumFAPribonucleotide metabolic process97/2622385/187232.90e-095.07e-0797
GO:00725214ColorectumFAPpurine-containing compound metabolic process101/2622416/187231.11e-081.33e-06101
GO:00453334ColorectumFAPcellular respiration65/2622230/187231.13e-081.33e-0665
GO:00060964ColorectumFAPglycolytic process32/262281/187231.28e-081.45e-0632
GO:00196933ColorectumFAPribose phosphate metabolic process97/2622396/187231.35e-081.51e-0697
GO:00060904ColorectumFAPpyruvate metabolic process38/2622106/187231.38e-081.51e-0638
GO:00460314ColorectumFAPADP metabolic process34/262290/187231.73e-081.84e-0634
GO:00067574ColorectumFAPATP generation from ADP32/262282/187231.82e-081.87e-0632
GO:00091354ColorectumFAPpurine nucleoside diphosphate metabolic process37/2622103/187232.00e-081.98e-0637
GO:00091794ColorectumFAPpurine ribonucleoside diphosphate metabolic process37/2622103/187232.00e-081.98e-0637
GO:00091854ColorectumFAPribonucleoside diphosphate metabolic process37/2622106/187234.79e-083.86e-0637
GO:00621974ColorectumFAPcellular response to chemical stress83/2622337/187231.15e-077.43e-0683
GO:00229004ColorectumFAPelectron transport chain51/2622175/187231.44e-079.03e-0651
GO:00069794ColorectumFAPresponse to oxidative stress102/2622446/187232.29e-071.33e-05102
GO:00076233ColorectumFAPcircadian rhythm56/2622210/187239.12e-074.14e-0556
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa05016ColorectumADHuntington disease147/2092306/84651.93e-199.26e-185.91e-18147
hsa04714ColorectumADThermogenesis120/2092232/84652.76e-191.16e-177.37e-18120
hsa04152ColorectumADAMPK signaling pathway47/2092121/84653.74e-042.82e-031.80e-0347
hsa04922ColorectumADGlucagon signaling pathway41/2092107/84651.18e-037.75e-034.94e-0341
hsa04211ColorectumADLongevity regulating pathway33/209289/84656.15e-032.68e-021.71e-0233
hsa050161ColorectumADHuntington disease147/2092306/84651.93e-199.26e-185.91e-18147
hsa047141ColorectumADThermogenesis120/2092232/84652.76e-191.16e-177.37e-18120
hsa041521ColorectumADAMPK signaling pathway47/2092121/84653.74e-042.82e-031.80e-0347
hsa049221ColorectumADGlucagon signaling pathway41/2092107/84651.18e-037.75e-034.94e-0341
hsa042111ColorectumADLongevity regulating pathway33/209289/84656.15e-032.68e-021.71e-0233
hsa047142ColorectumSERThermogenesis106/1580232/84651.15e-216.34e-204.61e-20106
hsa050162ColorectumSERHuntington disease127/1580306/84653.29e-211.37e-199.92e-20127
hsa049222ColorectumSERGlucagon signaling pathway38/1580107/84652.57e-053.28e-042.38e-0438
hsa047143ColorectumSERThermogenesis106/1580232/84651.15e-216.34e-204.61e-20106
hsa050163ColorectumSERHuntington disease127/1580306/84653.29e-211.37e-199.92e-20127
hsa049223ColorectumSERGlucagon signaling pathway38/1580107/84652.57e-053.28e-042.38e-0438
hsa050164ColorectumMSSHuntington disease141/1875306/84652.90e-211.62e-199.92e-20141
hsa047144ColorectumMSSThermogenesis113/1875232/84651.52e-194.62e-182.83e-18113
hsa049224ColorectumMSSGlucagon signaling pathway39/1875107/84655.00e-043.45e-032.11e-0339
hsa042112ColorectumMSSLongevity regulating pathway33/187589/84659.33e-045.58e-033.42e-0333
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Cell-cell communication analysis

check buttonIdentification of potential cell-cell interactions between two cell types and their ligand-receptor pairs for different disease states
LigandReceptorLRpairPathwayTissueDisease Stage
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Single-cell gene regulatory network inference analysis

check buttonFind out the significant the regulons (TFs) and the target genes of each regulon across cell types for different disease states
TFCell TypeTissueDisease StageTarget GeneRSSRegulon Activity
PPARGC1AICAFCervixHSIL_HPVSEMA3B,SLC7A2,KIAA0408, etc.2.52e-02The dot plots of a searched regulon are shown for all cell subpopulations in each disease state of each tissue based on the regulon specific score inferred using pySCENIC and by calculating the average expression.
∗The dot plots of a searched regulon are shown for all cell subpopulations in each disease state of each tissue based on the regulon specific score inferred using pySCENIC and by calculating the average expression.
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Somatic mutation of malignant transformation related genes

check buttonAnnotation of somatic variants for genes involved in malignant transformation
Hugo SymbolVariant ClassVariant ClassificationdbSNP RSHGVScHGVSpHGVSp ShortSWISSPROTBIOTYPESIFTPolyPhenTumor Sample BarcodeTissueHistologySexAgeStageTherapy TypesDrugsOutcome
PPARGC1ASNVMissense_Mutationrs749421285c.1063T>Ap.Tyr355Asnp.Y355NQ9UBK2protein_codingdeleterious(0)probably_damaging(0.994)TCGA-A2-A1G4-01Breastbreast invasive carcinomaFemale>=65III/IVChemotherapyadriamycinSD
PPARGC1ASNVMissense_Mutationrs139240743c.1841G>Ap.Arg614Glnp.R614QQ9UBK2protein_codingtolerated(0.06)benign(0.018)TCGA-AN-A046-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
PPARGC1ASNVMissense_Mutationc.695N>Tp.Ser232Ilep.S232IQ9UBK2protein_codingdeleterious(0.03)possibly_damaging(0.491)TCGA-B6-A0RL-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownSD
PPARGC1ASNVMissense_Mutationnovelc.202N>Ap.Gln68Lysp.Q68KQ9UBK2protein_codingdeleterious(0)benign(0.22)TCGA-BH-A0B6-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownSD
PPARGC1ASNVMissense_Mutationc.1817G>Ap.Ser606Asnp.S606NQ9UBK2protein_codingtolerated_low_confidence(0.26)benign(0.007)TCGA-BH-A0E1-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapycytoxanSD
PPARGC1ASNVMissense_Mutationc.1978N>Cp.Glu660Glnp.E660QQ9UBK2protein_codingtolerated(0.08)benign(0.153)TCGA-C8-A274-01Breastbreast invasive carcinomaFemale<65I/IIHormone TherapytamoxiphenSD
PPARGC1ASNVMissense_Mutationnovelc.1511G>Ap.Gly504Glup.G504EQ9UBK2protein_codingtolerated_low_confidence(0.11)probably_damaging(0.999)TCGA-E2-A1LH-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapyadriamycinSD
PPARGC1ASNVMissense_Mutationnovelc.2271N>Ap.Phe757Leup.F757LQ9UBK2protein_codingtolerated(0.26)benign(0.001)TCGA-C5-A901-01Cervixcervical & endocervical cancerFemale<65I/IIUnknownUnknownSD
PPARGC1ASNVMissense_Mutationc.664N>Tp.His222Tyrp.H222YQ9UBK2protein_codingdeleterious(0.02)benign(0.388)TCGA-EK-A3GK-01Cervixcervical & endocervical cancerFemale<65I/IIUnknownUnknownSD
PPARGC1ASNVMissense_Mutationrs143103266c.1951N>Tp.Arg651Cysp.R651CQ9UBK2protein_codingdeleterious(0)probably_damaging(0.985)TCGA-FU-A3HZ-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
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Related drugs of malignant transformation related genes

check buttonIdentification of chemicals and drugs interact with genes involved in malignant transfromation
(DGIdb 4.0)
Entrez IDSymbolCategoryInteraction TypesDrug Claim NameDrug NamePMIDs
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