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: TBCA

Gene summary for TBCA

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

TBCA

Gene ID

6902

Gene nametubulin folding cofactor A
Gene AliasTBCA
Cytomap5q14.1
Gene Typeprotein-coding
GO ID

GO:0006457

UniProtAcc

O75347


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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
6902TBCAGSM5353236_PA_PR5251_T1_S7_L001HumanProstateTumor3.89e-05-7.45e-010.1608
6902TBCAGSM5353240_PA_PR5254_T1_S15_L001HumanProstateTumor1.58e-21-7.22e-010.1575
6902TBCAGSM5353243_PA_PR5261_T1_S23_L002HumanProstateTumor1.79e-31-8.05e-010.1545
6902TBCAGSM5353244_PA_PR5261_T2_S24_L002HumanProstateTumor2.35e-27-8.09e-010.1569
6902TBCAGSM5353248_PA_PR5269_4_S28_L002HumanProstateTumor1.30e-03-7.69e-010.1541
6902TBCAP4_S8_cSCCHumanSkincSCC1.94e-091.64e-01-0.3095
6902TBCAP5_S10_cSCCHumanSkincSCC9.77e-112.46e-01-0.299
6902TBCAP1_cSCCHumanSkincSCC1.58e-552.12e+000.0292
6902TBCAP2_cSCCHumanSkincSCC1.17e-441.42e+00-0.024
6902TBCAP4_cSCCHumanSkincSCC1.04e-511.40e+00-0.00290000000000005
6902TBCAP10_cSCCHumanSkincSCC8.12e-541.65e+000.1017
6902TBCAcSCC_p10HumanSkincSCC4.53e-063.84e-01-0.2095
6902TBCAcSCC_p4HumanSkincSCC1.02e-041.81e-01-0.2022
6902TBCAcSCC_p7HumanSkincSCC8.39e-061.78e-01-0.2332
6902TBCAcSCC_p8HumanSkincSCC2.28e-082.11e-01-0.1971
6902TBCAcSCC_p9HumanSkincSCC2.02e-112.25e-01-0.1991
6902TBCAAdj_PTCwithHT_6HumanThyroidHT1.32e-06-5.05e-010.02
6902TBCAAdj_PTCwithHT_8HumanThyroidHT2.23e-02-4.08e-010.0267
6902TBCAPTCwithHT_6HumanThyroidHT4.41e-10-5.50e-010.02
6902TBCAmale-WTAHumanThyroidPTC1.51e-619.39e-020.1037
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check button Transcriptomic changes along malignancy continuum.
TissueExpression DynamicsAbbreviation
BreastThe 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.IDC: Invasive ductal carcinoma
DCIS: Ductal carcinoma in situ
Precancer(BRCA1-mut): Precancerous lesion from BRCA1 mutation carriers
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
EndometriumThe 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.AEH: Atypical endometrial hyperplasia
EEC: Endometrioid 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
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:00064578BreastPrecancerprotein folding43/1080212/187233.48e-137.45e-1143
GO:000645713BreastIDCprotein folding47/1434212/187232.31e-113.86e-0947
GO:000645723BreastDCISprotein folding47/1390212/187237.84e-121.53e-0947
GO:0006457ColorectumADprotein folding73/3918212/187233.24e-069.10e-0573
GO:00064572ColorectumMSSprotein folding71/3467212/187231.25e-075.91e-0671
GO:00064573ColorectumMSI-Hprotein folding33/1319212/187231.40e-056.29e-0433
GO:00064574ColorectumFAPprotein folding44/2622212/187234.36e-032.98e-0244
GO:000645710EndometriumAEHprotein folding61/2100212/187231.86e-123.48e-1061
GO:000645715EndometriumEECprotein folding63/2168212/187236.82e-131.40e-1063
GO:0006457110EsophagusESCCprotein folding163/8552212/187231.13e-201.74e-18163
GO:00064577LiverCirrhoticprotein folding114/4634212/187239.23e-202.31e-17114
GO:000645712LiverHCCprotein folding160/7958212/187231.07e-221.88e-20160
GO:000645722LiverCystprotein folding18/496212/187231.48e-059.59e-0418
GO:000645718Oral cavityOSCCprotein folding154/7305212/187231.89e-234.60e-21154
GO:000645719Oral cavityLPprotein folding125/4623212/187231.62e-268.45e-24125
GO:000645716ProstateBPHprotein folding85/3107212/187232.37e-164.74e-1485
GO:000645717ProstateTumorprotein folding85/3246212/187233.37e-155.37e-1385
GO:0006457111SkincSCCprotein folding131/4864212/187232.96e-281.32e-25131
GO:000645727ThyroidHTprotein folding45/1272212/187235.29e-121.01e-0945
GO:0006457112ThyroidPTCprotein folding137/5968212/187238.29e-232.01e-20137
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
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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
TBCASNVMissense_Mutationnovelc.108N>Cp.Lys36Asnp.K36NO75347protein_codingdeleterious(0.02)possibly_damaging(0.739)TCGA-E2-A1LG-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapydoxorubicinSD
TBCASNVMissense_Mutationrs770921213c.276A>Tp.Lys92Asnp.K92NO75347protein_codingdeleterious(0.01)benign(0.001)TCGA-AA-A022-01Colorectumcolon adenocarcinomaFemale>=65I/IIUnknownUnknownSD
TBCASNVMissense_Mutationnovelc.322T>Gp.Leu108Valp.L108VO75347protein_codingdeleterious_low_confidence(0.02)benign(0.018)TCGA-AG-A002-01Colorectumrectum adenocarcinomaMale<65I/IIUnknownUnknownSD
TBCASNVMissense_Mutationc.30G>Cp.Lys10Asnp.K10NO75347protein_codingdeleterious(0.01)probably_damaging(0.984)TCGA-F5-6864-01Colorectumrectum adenocarcinomaFemale>=65III/IVChemotherapy5-fluorouracilCR
TBCAdeletionFrame_Shift_Delnovelc.69delAp.Val24Terp.V24*O75347protein_codingTCGA-AA-3845-01Colorectumcolon adenocarcinomaFemale>=65I/IIUnknownUnknownPD
TBCAdeletionFrame_Shift_Delnovelc.118delNp.Met40Terp.M40*O75347protein_codingTCGA-AA-3947-01Colorectumcolon adenocarcinomaFemale<65I/IIUnknownUnknownSD
TBCASNVMissense_Mutationnovelc.332N>Tp.Arg111Ilep.R111IO75347protein_codingdeleterious_low_confidence(0)benign(0.011)TCGA-A5-A2K5-01Endometriumuterine corpus endometrioid carcinomaFemale>=65I/IIUnknownUnknownSD
TBCASNVMissense_Mutationnovelc.358A>Gp.Thr120Alap.T120AO75347protein_codingdeleterious_low_confidence(0)benign(0)TCGA-AJ-A3EK-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIChemotherapycarboplatinCR
TBCASNVMissense_Mutationnovelc.374N>Ap.Arg125Hisp.R125HO75347protein_codingtolerated_low_confidence(0.15)benign(0)TCGA-AP-A1DV-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIUnknownUnknownSD
TBCASNVMissense_Mutationnovelc.108N>Tp.Lys36Asnp.K36NO75347protein_codingdeleterious(0.02)possibly_damaging(0.739)TCGA-AX-A05Z-01Endometriumuterine corpus endometrioid carcinomaFemale<65III/IVChemotherapyadriamycinSD
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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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