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: BAK1

Gene summary for BAK1

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

BAK1

Gene ID

578

Gene nameBCL2 antagonist/killer 1
Gene AliasBAK
Cytomap6p21.31
Gene Typeprotein-coding
GO ID

GO:0000003

UniProtAcc

A0A0S2Z391


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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
578BAK1HTA11_2487_2000001011HumanColorectumSER7.75e-103.64e-01-0.1808
578BAK1HTA11_347_2000001011HumanColorectumAD3.98e-082.24e-01-0.1954
578BAK1HTA11_2112_2000001011HumanColorectumSER3.40e-097.94e-01-0.2196
578BAK1HTA11_696_2000001011HumanColorectumAD1.13e-072.74e-01-0.1464
578BAK1HTA11_866_2000001011HumanColorectumAD3.56e-021.59e-01-0.1001
578BAK1HTA11_1391_2000001011HumanColorectumAD8.51e-164.63e-01-0.059
578BAK1HTA11_5216_2000001011HumanColorectumSER1.82e-033.95e-01-0.1462
578BAK1HTA11_10623_2000001011HumanColorectumAD4.12e-022.54e-01-0.0177
578BAK1HTA11_99999970781_79442HumanColorectumMSS6.02e-062.34e-010.294
578BAK1LZE4THumanEsophagusESCC1.12e-025.17e-020.0811
578BAK1LZE7THumanEsophagusESCC1.02e-071.83e-010.0667
578BAK1LZE8THumanEsophagusESCC1.74e-051.14e-010.067
578BAK1LZE20THumanEsophagusESCC2.73e-028.91e-020.0662
578BAK1LZE22THumanEsophagusESCC1.81e-031.85e-010.068
578BAK1LZE24THumanEsophagusESCC6.74e-042.22e-010.0596
578BAK1P2T-EHumanEsophagusESCC4.21e-152.42e-010.1177
578BAK1P4T-EHumanEsophagusESCC4.80e-091.59e-010.1323
578BAK1P5T-EHumanEsophagusESCC1.57e-192.36e-010.1327
578BAK1P8T-EHumanEsophagusESCC1.41e-093.89e-020.0889
578BAK1P10T-EHumanEsophagusESCC4.31e-121.09e-010.116
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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:0034620111EsophagusESCCcellular response to unfolded protein74/855296/187233.10e-108.66e-0974
GO:0001933111EsophagusESCCnegative regulation of protein phosphorylation213/8552342/187233.54e-109.76e-09213
GO:0010952111EsophagusESCCpositive regulation of peptidase activity133/8552197/187234.31e-101.14e-08133
GO:003464413EsophagusESCCcellular response to UV70/855290/187234.59e-101.20e-0870
GO:007121419EsophagusESCCcellular response to abiotic stimulus206/8552331/187237.52e-101.88e-08206
GO:010400419EsophagusESCCcellular response to environmental stimulus206/8552331/187237.52e-101.88e-08206
GO:0052547111EsophagusESCCregulation of peptidase activity275/8552461/187237.54e-101.88e-08275
GO:003096818EsophagusESCCendoplasmic reticulum unfolded protein response59/855274/187231.90e-094.36e-0859
GO:0042542111EsophagusESCCresponse to hydrogen peroxide102/8552146/187232.64e-095.81e-08102
GO:1905897111EsophagusESCCregulation of response to endoplasmic reticulum stress63/855282/187238.16e-091.66e-0763
GO:001082215EsophagusESCCpositive regulation of mitochondrion organization58/855274/187238.55e-091.73e-0758
GO:007147816EsophagusESCCcellular response to radiation122/8552186/187233.07e-085.73e-07122
GO:0052548111EsophagusESCCregulation of endopeptidase activity253/8552432/187233.68e-086.78e-07253
GO:0070059111EsophagusESCCintrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress50/855263/187234.37e-087.96e-0750
GO:000183619EsophagusESCCrelease of cytochrome c from mitochondria47/855259/187239.02e-081.51e-0647
GO:0002262111EsophagusESCCmyeloid cell homeostasis104/8552157/187231.49e-072.36e-06104
GO:0010950111EsophagusESCCpositive regulation of endopeptidase activity116/8552179/187231.77e-072.79e-06116
GO:004690217EsophagusESCCregulation of mitochondrial membrane permeability49/855263/187231.91e-072.97e-0649
GO:0061458110EsophagusESCCreproductive system development247/8552427/187232.24e-073.42e-06247
GO:00905599EsophagusESCCregulation of membrane permeability58/855278/187232.38e-073.61e-0658
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa05022ColorectumADPathways of neurodegeneration - multiple diseases201/2092476/84654.54e-181.27e-168.09e-17201
hsa04141ColorectumADProtein processing in endoplasmic reticulum80/2092174/84655.96e-101.25e-087.96e-0980
hsa05132ColorectumADSalmonella infection102/2092249/84657.65e-091.28e-078.17e-08102
hsa05130ColorectumADPathogenic Escherichia coli infection79/2092197/84651.05e-061.36e-058.65e-0679
hsa05213ColorectumADEndometrial cancer29/209258/84652.69e-052.57e-041.64e-0429
hsa05216ColorectumADThyroid cancer21/209237/84653.05e-052.76e-041.76e-0421
hsa05210ColorectumADColorectal cancer35/209286/84657.54e-045.49e-033.50e-0335
hsa05170ColorectumADHuman immunodeficiency virus 1 infection72/2092212/84651.40e-038.46e-035.39e-0372
hsa05220ColorectumADChronic myeloid leukemia31/209276/84651.41e-038.46e-035.39e-0331
hsa05225ColorectumADHepatocellular carcinoma59/2092168/84651.50e-038.69e-035.54e-0359
hsa05163ColorectumADHuman cytomegalovirus infection75/2092225/84652.00e-031.10e-027.01e-0375
hsa05160ColorectumADHepatitis C54/2092157/84653.87e-031.96e-021.25e-0254
hsa05212ColorectumADPancreatic cancer29/209276/84656.25e-032.68e-021.71e-0229
hsa050221ColorectumADPathways of neurodegeneration - multiple diseases201/2092476/84654.54e-181.27e-168.09e-17201
hsa041411ColorectumADProtein processing in endoplasmic reticulum80/2092174/84655.96e-101.25e-087.96e-0980
hsa051321ColorectumADSalmonella infection102/2092249/84657.65e-091.28e-078.17e-08102
hsa051301ColorectumADPathogenic Escherichia coli infection79/2092197/84651.05e-061.36e-058.65e-0679
hsa052131ColorectumADEndometrial cancer29/209258/84652.69e-052.57e-041.64e-0429
hsa052161ColorectumADThyroid cancer21/209237/84653.05e-052.76e-041.76e-0421
hsa052101ColorectumADColorectal cancer35/209286/84657.54e-045.49e-033.50e-0335
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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
BAK1SNVMissense_Mutationc.617N>Ap.Arg206Glnp.R206QQ16611protein_codingtolerated(0.17)benign(0.435)TCGA-A8-A09G-01Breastbreast invasive carcinomaFemale>=65III/IVUnknownUnknownSD
BAK1SNVMissense_Mutationnovelc.87G>Tp.Gln29Hisp.Q29HQ16611protein_codingdeleterious(0.02)benign(0.031)TCGA-AN-A046-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
BAK1SNVMissense_Mutationnovelc.268G>Ap.Asp90Asnp.D90NQ16611protein_codingtolerated(0.08)benign(0.079)TCGA-LQ-A4E4-01Breastbreast invasive carcinomaFemale>=65III/IVHormone TherapyanastrozolePD
BAK1SNVMissense_Mutationnovelc.125N>Ap.Arg42Hisp.R42HQ16611protein_codingdeleterious(0.03)probably_damaging(0.961)TCGA-EK-A3GM-01Cervixcervical & endocervical cancerFemale>=65I/IIUnknownUnknownSD
BAK1SNVMissense_Mutationc.623N>Ap.Phe208Tyrp.F208YQ16611protein_codingtolerated(0.05)benign(0.003)TCGA-AA-3672-01Colorectumcolon adenocarcinomaFemale>=65III/IVUnknownUnknownSD
BAK1SNVMissense_Mutationnovelc.415N>Ap.Ala139Thrp.A139TQ16611protein_codingdeleterious(0.05)probably_damaging(0.992)TCGA-AA-A010-01Colorectumcolon adenocarcinomaFemale<65I/IIChemotherapyfolinicCR
BAK1SNVMissense_Mutationc.624N>Ap.Phe208Leup.F208LQ16611protein_codingtolerated(0.08)benign(0.054)TCGA-CA-6717-01Colorectumcolon adenocarcinomaMale<65I/IIChemotherapyoxaliplatinCR
BAK1SNVMissense_Mutationnovelc.260G>Ap.Arg87Glnp.R87QQ16611protein_codingtolerated(0.47)benign(0.001)TCGA-AJ-A3EL-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIUnknownUnknownSD
BAK1SNVMissense_Mutationc.182N>Cp.Val61Alap.V61AQ16611protein_codingtolerated(0.78)benign(0)TCGA-AP-A051-01Endometriumuterine corpus endometrioid carcinomaFemale>=65I/IIUnknownUnknownSD
BAK1SNVMissense_Mutationrs778171445c.263N>Ap.Arg88Hisp.R88HQ16611protein_codingdeleterious(0)probably_damaging(0.956)TCGA-AP-A0LM-01Endometriumuterine corpus endometrioid carcinomaFemale<65III/IVChemotherapycisplatinSD
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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
578BAK1TUMOR SUPPRESSOR, DRUGGABLE GENOMEKERACYANINKERACYANIN17360708
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