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: PPIF

Gene summary for PPIF

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

PPIF

Gene ID

10105

Gene namepeptidylprolyl isomerase F
Gene AliasCYP3
Cytomap10q22.3
Gene Typeprotein-coding
GO ID

GO:0000302

UniProtAcc

A0A024QZS4


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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
10105PPIFHTA11_3410_2000001011HumanColorectumAD1.29e-081.85e-010.0155
10105PPIFHTA11_2487_2000001011HumanColorectumSER1.04e-083.70e-01-0.1808
10105PPIFHTA11_1938_2000001011HumanColorectumAD2.39e-123.54e-01-0.0811
10105PPIFHTA11_78_2000001011HumanColorectumAD3.96e-052.58e-01-0.1088
10105PPIFHTA11_347_2000001011HumanColorectumAD2.35e-246.11e-01-0.1954
10105PPIFHTA11_411_2000001011HumanColorectumSER5.18e-075.53e-01-0.2602
10105PPIFHTA11_2112_2000001011HumanColorectumSER2.21e-024.05e-01-0.2196
10105PPIFHTA11_3361_2000001011HumanColorectumAD1.31e-074.18e-01-0.1207
10105PPIFHTA11_83_2000001011HumanColorectumSER3.11e-063.72e-01-0.1526
10105PPIFHTA11_696_2000001011HumanColorectumAD3.50e-144.00e-01-0.1464
10105PPIFHTA11_866_2000001011HumanColorectumAD2.30e-062.12e-01-0.1001
10105PPIFHTA11_1391_2000001011HumanColorectumAD3.19e-175.35e-01-0.059
10105PPIFHTA11_5212_2000001011HumanColorectumAD3.90e-055.38e-01-0.2061
10105PPIFHTA11_546_2000001011HumanColorectumAD1.78e-022.99e-01-0.0842
10105PPIFHTA11_7862_2000001011HumanColorectumAD7.73e-053.89e-01-0.0179
10105PPIFHTA11_866_3004761011HumanColorectumAD3.21e-082.93e-010.096
10105PPIFHTA11_8622_2000001021HumanColorectumSER6.40e-032.60e-010.0528
10105PPIFHTA11_7663_2000001011HumanColorectumSER2.57e-042.62e-010.0131
10105PPIFHTA11_10623_2000001011HumanColorectumAD1.41e-073.40e-01-0.0177
10105PPIFHTA11_6801_2000001011HumanColorectumSER3.55e-138.96e-010.0171
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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
EsophagusThe 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.ESCC: Esophageal squamous cell carcinoma
HGIN: High-grade intraepithelial neoplasias
LGIN: Low-grade intraepithelial neoplasias
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
Oral CavityThe 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.EOLP: Erosive Oral lichen planus
LP: leukoplakia
NEOLP: Non-erosive oral lichen planus
OSCC: Oral squamous cell carcinoma
SkinThe 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.AK: Actinic keratosis
cSCC: Cutaneous squamous cell carcinoma
SCCIS:squamous cell carcinoma in situ
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:0046034ColorectumADATP metabolic process142/3918277/187232.64e-298.26e-26142
GO:0006091ColorectumADgeneration of precursor metabolites and energy209/3918490/187233.17e-286.61e-25209
GO:0009060ColorectumADaerobic respiration108/3918189/187239.14e-281.43e-24108
GO:0045333ColorectumADcellular respiration119/3918230/187233.21e-254.02e-22119
GO:0006119ColorectumADoxidative phosphorylation83/3918141/187237.95e-238.30e-2083
GO:0015980ColorectumADenergy derivation by oxidation of organic compounds143/3918318/187232.78e-222.49e-19143
GO:0006839ColorectumADmitochondrial transport102/3918254/187231.87e-123.08e-10102
GO:0097193ColorectumADintrinsic apoptotic signaling pathway108/3918288/187236.25e-116.41e-09108
GO:1902600ColorectumADproton transmembrane transport66/3918157/187231.59e-091.17e-0766
GO:2001242ColorectumADregulation of intrinsic apoptotic signaling pathway67/3918164/187234.94e-093.16e-0767
GO:0006979ColorectumADresponse to oxidative stress145/3918446/187235.16e-093.23e-07145
GO:2001233ColorectumADregulation of apoptotic signaling pathway119/3918356/187232.14e-081.21e-06119
GO:0010639ColorectumADnegative regulation of organelle organization114/3918348/187231.41e-076.49e-06114
GO:0010821ColorectumADregulation of mitochondrion organization57/3918144/187232.43e-079.92e-0657
GO:0007006ColorectumADmitochondrial membrane organization48/3918116/187234.53e-071.72e-0548
GO:0062197ColorectumADcellular response to chemical stress109/3918337/187235.33e-071.95e-05109
GO:0000302ColorectumADresponse to reactive oxygen species78/3918222/187236.17e-072.21e-0578
GO:0034599ColorectumADcellular response to oxidative stress94/3918288/187232.03e-066.02e-0594
GO:0006457ColorectumADprotein folding73/3918212/187233.24e-069.10e-0573
GO:0043467ColorectumADregulation of generation of precursor metabolites and energy49/3918130/187238.33e-061.99e-0449
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa05012ColorectumADParkinson disease147/2092266/84652.53e-278.48e-255.41e-25147
hsa05208ColorectumADChemical carcinogenesis - reactive oxygen species126/2092223/84651.01e-241.68e-221.07e-22126
hsa05415ColorectumADDiabetic cardiomyopathy114/2092203/84653.65e-223.06e-201.95e-20114
hsa05010ColorectumADAlzheimer disease174/2092384/84651.82e-199.26e-185.91e-18174
hsa05016ColorectumADHuntington disease147/2092306/84651.93e-199.26e-185.91e-18147
hsa05020ColorectumADPrion disease133/2092273/84652.47e-188.29e-175.29e-17133
hsa05022ColorectumADPathways of neurodegeneration - multiple diseases201/2092476/84654.54e-181.27e-168.09e-17201
hsa05017ColorectumADSpinocerebellar ataxia60/2092143/84653.78e-064.35e-052.78e-0560
hsa050121ColorectumADParkinson disease147/2092266/84652.53e-278.48e-255.41e-25147
hsa052081ColorectumADChemical carcinogenesis - reactive oxygen species126/2092223/84651.01e-241.68e-221.07e-22126
hsa054151ColorectumADDiabetic cardiomyopathy114/2092203/84653.65e-223.06e-201.95e-20114
hsa050101ColorectumADAlzheimer disease174/2092384/84651.82e-199.26e-185.91e-18174
hsa050161ColorectumADHuntington disease147/2092306/84651.93e-199.26e-185.91e-18147
hsa050201ColorectumADPrion disease133/2092273/84652.47e-188.29e-175.29e-17133
hsa050221ColorectumADPathways of neurodegeneration - multiple diseases201/2092476/84654.54e-181.27e-168.09e-17201
hsa050171ColorectumADSpinocerebellar ataxia60/2092143/84653.78e-064.35e-052.78e-0560
hsa050122ColorectumSERParkinson disease132/1580266/84652.72e-319.03e-296.55e-29132
hsa054152ColorectumSERDiabetic cardiomyopathy103/1580203/84651.45e-251.61e-231.17e-23103
hsa050202ColorectumSERPrion disease119/1580273/84654.61e-223.06e-202.22e-20119
hsa052082ColorectumSERChemical carcinogenesis - reactive oxygen species103/1580223/84651.60e-217.57e-205.50e-20103
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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
∗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
PPIFSNVMissense_Mutationnovelc.620N>Ap.Ser207Asnp.S207NP30405protein_codingdeleterious_low_confidence(0)benign(0)TCGA-A8-A08H-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
PPIFinsertionIn_Frame_Insnovelc.618_619insCTTGTTCCTTTGACTCTTGACTCATCATTCATGACCGTTp.Leu206_Ser207insLeuValProLeuThrLeuAspSerSerPheMetThrValp.L206_S207insLVPLTLDSSFMTVP30405protein_codingTCGA-A8-A08H-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
PPIFdeletionIn_Frame_Delnovelc.551_553delNNNp.Ile184_Glu185delinsLysp.I184_E185delinsKP30405protein_codingTCGA-E9-A5FK-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapycyclophosphamideCR
PPIFSNVMissense_Mutationnovelc.228N>Tp.Glu76Aspp.E76DP30405protein_codingdeleterious_low_confidence(0.01)benign(0)TCGA-A5-A0G1-01Endometriumuterine corpus endometrioid carcinomaFemale>=65I/IIUnknownUnknownSD
PPIFSNVMissense_Mutationnovelc.365N>Tp.Gly122Valp.G122VP30405protein_codingdeleterious_low_confidence(0)probably_damaging(0.995)TCGA-A5-A1OF-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIUnknownUnknownSD
PPIFSNVMissense_Mutationrs145899672c.265N>Ap.Gly89Serp.G89SP30405protein_codingdeleterious_low_confidence(0.02)probably_damaging(1)TCGA-AP-A059-01Endometriumuterine corpus endometrioid carcinomaFemale>=65I/IIUnknownUnknownSD
PPIFSNVMissense_Mutationrs371203826c.211G>Ap.Val71Ilep.V71IP30405protein_codingdeleterious_low_confidence(0.02)benign(0.404)TCGA-AP-A1E0-01Endometriumuterine corpus endometrioid carcinomaFemale<65III/IVChemotherapypaclitaxelSD
PPIFSNVMissense_Mutationc.569N>Gp.Lys190Argp.K190RP30405protein_codingtolerated_low_confidence(0.69)benign(0.006)TCGA-BS-A0TA-01Endometriumuterine corpus endometrioid carcinomaFemale<65III/IVChemotherapytaxolPD
PPIFSNVMissense_Mutationrs771871615c.364G>Ap.Gly122Argp.G122RP30405protein_codingdeleterious_low_confidence(0.04)possibly_damaging(0.654)TCGA-BS-A0UV-01Endometriumuterine corpus endometrioid carcinomaFemale<65III/IVUnknownUnknownSD
PPIFSNVMissense_Mutationnovelc.280A>Cp.Thr94Prop.T94PP30405protein_codingtolerated_low_confidence(0.08)possibly_damaging(0.864)TCGA-D1-A0ZP-01Endometriumuterine corpus endometrioid carcinomaFemale<65III/IVChemotherapypaclitaxelPD
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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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