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: PPP3CA

Gene summary for PPP3CA

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

PPP3CA

Gene ID

5530

Gene nameprotein phosphatase 3 catalytic subunit alpha
Gene AliasACCIID
Cytomap4q24
Gene Typeprotein-coding
GO ID

GO:0000082

UniProtAcc

A0A0S2Z4C6


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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
5530PPP3CACA_HPV_1HumanCervixCC3.60e-031.50e-020.0264
5530PPP3CACCI_1HumanCervixCC4.48e-101.54e+000.528
5530PPP3CACCI_2HumanCervixCC7.67e-051.14e+000.5249
5530PPP3CACCI_3HumanCervixCC9.48e-111.07e+000.516
5530PPP3CAHTA11_3410_2000001011HumanColorectumAD2.30e-24-7.13e-010.0155
5530PPP3CAHTA11_2487_2000001011HumanColorectumSER3.90e-03-4.53e-01-0.1808
5530PPP3CAHTA11_2951_2000001011HumanColorectumAD1.00e-05-9.70e-010.0216
5530PPP3CAHTA11_3361_2000001011HumanColorectumAD4.27e-12-7.73e-01-0.1207
5530PPP3CAHTA11_696_2000001011HumanColorectumAD3.09e-04-3.90e-01-0.1464
5530PPP3CAHTA11_546_2000001011HumanColorectumAD1.09e-02-3.85e-01-0.0842
5530PPP3CAHTA11_9341_2000001011HumanColorectumSER2.98e-03-8.77e-01-0.00410000000000005
5530PPP3CAHTA11_7862_2000001011HumanColorectumAD3.70e-02-4.13e-01-0.0179
5530PPP3CAHTA11_866_3004761011HumanColorectumAD4.72e-09-5.69e-010.096
5530PPP3CAHTA11_8622_2000001021HumanColorectumSER3.27e-05-7.11e-010.0528
5530PPP3CAHTA11_10623_2000001011HumanColorectumAD2.73e-03-4.83e-01-0.0177
5530PPP3CAHTA11_10711_2000001011HumanColorectumAD4.28e-12-7.04e-010.0338
5530PPP3CAHTA11_7696_3000711011HumanColorectumAD2.96e-13-6.29e-010.0674
5530PPP3CAHTA11_99999970781_79442HumanColorectumMSS2.04e-04-3.58e-010.294
5530PPP3CAHTA11_99999973899_84307HumanColorectumMSS3.22e-08-7.34e-010.2585
5530PPP3CAHTA11_99999974143_84620HumanColorectumMSS1.67e-34-8.66e-010.3005
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check button Transcriptomic changes along malignancy continuum.
TissueExpression DynamicsAbbreviation
CervixThe 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.CC: Cervix cancer
HSIL_HPV: HPV-infected high-grade squamous intraepithelial lesions
N_HPV: HPV-infected normal cervix
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
LungThe 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.AAH: Atypical adenomatous hyperplasia
AIS: Adenocarcinoma in situ
IAC: Invasive lung adenocarcinoma
MIA: Minimally invasive adenocarcinoma
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
ProstateThe 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.BPH: Benign Prostatic Hyperplasia
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:004206010CervixCCwound healing109/2311422/187231.84e-141.57e-11109
GO:00725949CervixCCestablishment of protein localization to organelle99/2311422/187231.23e-102.11e-0899
GO:004578510CervixCCpositive regulation of cell adhesion101/2311437/187231.96e-103.08e-08101
GO:00421108CervixCCT cell activation107/2311487/187231.24e-091.46e-07107
GO:00069139CervixCCnucleocytoplasmic transport71/2311301/187234.04e-082.54e-0671
GO:00511699CervixCCnuclear transport71/2311301/187234.04e-082.54e-0671
GO:00345048CervixCCprotein localization to nucleus68/2311290/187239.91e-085.25e-0668
GO:005109810CervixCCregulation of binding80/2311363/187231.32e-076.42e-0680
GO:00447725CervixCCmitotic cell cycle phase transition89/2311424/187232.70e-071.12e-0589
GO:00075689CervixCCaging75/2311339/187232.75e-071.13e-0575
GO:00163587CervixCCdendrite development58/2311243/187234.52e-071.76e-0558
GO:00109757CervixCCregulation of neuron projection development88/2311445/187234.26e-061.09e-0488
GO:00510904CervixCCregulation of DNA-binding transcription factor activity87/2311440/187234.85e-061.22e-0487
GO:00170388CervixCCprotein import48/2311206/187238.62e-061.98e-0448
GO:00000824CervixCCG1/S transition of mitotic cell cycle49/2311214/187231.16e-052.48e-0449
GO:00064708CervixCCprotein dephosphorylation60/2311281/187231.33e-052.68e-0460
GO:00310996CervixCCregeneration46/2311198/187231.43e-052.84e-0446
GO:00448434CervixCCcell cycle G1/S phase transition53/2311241/187231.76e-053.32e-0453
GO:00301008CervixCCregulation of endocytosis47/2311211/187233.65e-055.82e-0447
GO:00511707CervixCCimport into nucleus38/2311159/187233.98e-056.18e-0438
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa0502018CervixCCPrion disease98/1267273/84652.64e-181.42e-168.42e-1798
hsa0501018CervixCCAlzheimer disease113/1267384/84659.67e-143.92e-122.32e-12113
hsa0502218CervixCCPathways of neurodegeneration - multiple diseases128/1267476/84652.87e-129.29e-115.50e-11128
hsa0501418CervixCCAmyotrophic lateral sclerosis103/1267364/84651.79e-114.47e-102.64e-10103
hsa0541720CervixCCLipid and atherosclerosis65/1267215/84656.47e-091.10e-076.52e-0865
hsa0516720CervixCCKaposi sarcoma-associated herpesvirus infection60/1267194/84659.74e-091.58e-079.33e-0860
hsa0516318CervixCCHuman cytomegalovirus infection65/1267225/84654.59e-086.47e-073.83e-0765
hsa0421810CervixCCCellular senescence49/1267156/84651.30e-071.63e-069.61e-0749
hsa0516620CervixCCHuman T-cell leukemia virus 1 infection61/1267222/84658.13e-077.98e-064.72e-0661
hsa0517016CervixCCHuman immunodeficiency virus 1 infection55/1267212/84651.80e-051.42e-048.40e-0555
hsa043609CervixCCAxon guidance47/1267182/84658.13e-055.38e-043.18e-0447
hsa043109CervixCCWnt signaling pathway43/1267171/84653.03e-041.64e-039.68e-0443
hsa05152CervixCCTuberculosis42/1267180/84651.78e-037.21e-034.26e-0342
hsa046596CervixCCTh17 cell differentiation28/1267108/84651.99e-037.98e-034.72e-0328
hsa04658CervixCCTh1 and Th2 cell differentiation24/126792/84653.71e-031.34e-027.91e-0324
hsa040109CervixCCMAPK signaling pathway62/1267302/84654.89e-031.67e-029.86e-0362
hsa046254CervixCCC-type lectin receptor signaling pathway25/1267104/84659.52e-032.94e-021.74e-0225
hsa046604CervixCCT cell receptor signaling pathway25/1267104/84659.52e-032.94e-021.74e-0225
hsa049218CervixCCOxytocin signaling pathway34/1267154/84651.12e-023.42e-022.02e-0234
hsa0502019CervixCCPrion disease98/1267273/84652.64e-181.42e-168.42e-1798
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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
PPP3CASNVMissense_Mutationc.1087G>Cp.Glu363Glnp.E363QQ08209protein_codingdeleterious(0.02)benign(0.383)TCGA-A2-A0EQ-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapyadriamycinSD
PPP3CASNVMissense_Mutationrs745416220c.1265N>Tp.Thr422Metp.T422MQ08209protein_codingtolerated(0.26)benign(0.075)TCGA-AO-A128-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapydoxorubicinSD
PPP3CASNVMissense_Mutationc.1349N>Gp.Glu450Glyp.E450GQ08209protein_codingdeleterious(0.02)benign(0.284)TCGA-BH-A0BO-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownSD
PPP3CASNVMissense_Mutationrs755119794c.101N>Cp.Val34Alap.V34AQ08209protein_codingdeleterious(0.03)possibly_damaging(0.497)TCGA-BH-A1EU-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
PPP3CASNVMissense_Mutationc.846N>Cp.Glu282Aspp.E282DQ08209protein_codingdeleterious(0.01)probably_damaging(0.958)TCGA-EW-A1IZ-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapytaxotereSD
PPP3CAinsertionNonsense_Mutationnovelc.837_838insAAAAGAGAGGACTCACAGTGTTTTTAAAATTATAAATp.Ala280LysfsTer9p.A280Kfs*9Q08209protein_codingTCGA-A8-A06X-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
PPP3CASNVMissense_Mutationnovelc.273T>Gp.Ile91Metp.I91MQ08209protein_codingdeleterious(0)probably_damaging(0.988)TCGA-2W-A8YY-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
PPP3CASNVMissense_Mutationnovelc.176N>Ap.Ser59Asnp.S59NQ08209protein_codingdeleterious(0.04)benign(0.003)TCGA-4J-AA1J-01Cervixcervical & endocervical cancerFemale<65I/IIUnknownUnknownSD
PPP3CASNVMissense_Mutationc.844N>Ap.Glu282Lysp.E282KQ08209protein_codingdeleterious(0.02)probably_damaging(0.981)TCGA-FU-A3HZ-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
PPP3CASNVMissense_Mutationnovelc.442C>Tp.Arg148Cysp.R148CQ08209protein_codingdeleterious(0)probably_damaging(0.999)TCGA-AA-3510-01Colorectumcolon adenocarcinomaMale>=65I/IIUnknownUnknownSD
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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
5530PPP3CADRUGGABLE GENOME, TRANSCRIPTION FACTOR, ENZYMECyclosporineCYCLOSPORINE
5530PPP3CADRUGGABLE GENOME, TRANSCRIPTION FACTOR, ENZYMEVoclosporinVOCLOSPORIN
5530PPP3CADRUGGABLE GENOME, TRANSCRIPTION FACTOR, ENZYMETacrolimusTACROLIMUS
5530PPP3CADRUGGABLE GENOME, TRANSCRIPTION FACTOR, ENZYMEVOCLOSPORINVOCLOSPORIN
5530PPP3CADRUGGABLE GENOME, TRANSCRIPTION FACTOR, ENZYMEPimecrolimusPIMECROLIMUS
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