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: BIN1

Gene summary for BIN1

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

BIN1

Gene ID

274

Gene namebridging integrator 1
Gene AliasAMPH2
Cytomap2q14.3
Gene Typeprotein-coding
GO ID

GO:0001508

UniProtAcc

A0A024RAG9


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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
274BIN1HTA11_3410_2000001011HumanColorectumAD4.76e-061.52e-010.0155
274BIN1HTA11_1938_2000001011HumanColorectumAD1.74e-074.14e-01-0.0811
274BIN1HTA11_347_2000001011HumanColorectumAD1.21e-032.08e-01-0.1954
274BIN1HTA11_696_2000001011HumanColorectumAD1.11e-042.54e-01-0.1464
274BIN1HTA11_866_2000001011HumanColorectumAD1.81e-032.09e-01-0.1001
274BIN1HTA11_1391_2000001011HumanColorectumAD2.55e-125.49e-01-0.059
274BIN1HTA11_866_3004761011HumanColorectumAD1.58e-175.03e-010.096
274BIN1HTA11_4255_2000001011HumanColorectumSER2.54e-035.27e-010.0446
274BIN1HTA11_9408_2000001011HumanColorectumAD1.70e-067.87e-010.0451
274BIN1HTA11_8622_2000001021HumanColorectumSER1.96e-096.72e-010.0528
274BIN1HTA11_7663_2000001011HumanColorectumSER6.54e-044.61e-010.0131
274BIN1HTA11_6801_2000001011HumanColorectumSER6.63e-045.42e-010.0171
274BIN1HTA11_10711_2000001011HumanColorectumAD1.10e-053.01e-010.0338
274BIN1HTA11_7696_3000711011HumanColorectumAD6.10e-226.00e-010.0674
274BIN1HTA11_6818_2000001011HumanColorectumAD2.41e-044.16e-010.0112
274BIN1HTA11_6818_2000001021HumanColorectumAD4.44e-022.84e-010.0588
274BIN1HTA11_99999970781_79442HumanColorectumMSS1.94e-185.82e-010.294
274BIN1HTA11_99999971662_82457HumanColorectumMSS1.18e-381.11e+000.3859
274BIN1HTA11_99999974143_84620HumanColorectumMSS1.54e-327.35e-010.3005
274BIN1LZE4THumanEsophagusESCC2.82e-041.42e-010.0811
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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
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:0007015ColorectumADactin filament organization167/3918442/187231.65e-167.94e-14167
GO:0032535ColorectumADregulation of cellular component size142/3918383/187231.74e-133.41e-11142
GO:1902903ColorectumADregulation of supramolecular fiber organization139/3918383/187232.01e-123.19e-10139
GO:0032970ColorectumADregulation of actin filament-based process142/3918397/187234.05e-125.90e-10142
GO:0110053ColorectumADregulation of actin filament organization108/3918278/187235.02e-126.98e-10108
GO:0008154ColorectumADactin polymerization or depolymerization90/3918218/187236.14e-128.23e-1090
GO:0032271ColorectumADregulation of protein polymerization94/3918233/187231.01e-111.29e-0994
GO:0030041ColorectumADactin filament polymerization81/3918191/187231.35e-111.69e-0981
GO:0051258ColorectumADprotein polymerization112/3918297/187231.85e-112.27e-09112
GO:0043254ColorectumADregulation of protein-containing complex assembly148/3918428/187232.64e-113.18e-09148
GO:0008064ColorectumADregulation of actin polymerization or depolymerization79/3918188/187234.17e-114.74e-0979
GO:0030833ColorectumADregulation of actin filament polymerization74/3918172/187234.50e-115.03e-0974
GO:0030832ColorectumADregulation of actin filament length79/3918189/187235.71e-116.27e-0979
GO:1902905ColorectumADpositive regulation of supramolecular fiber organization85/3918209/187235.95e-116.33e-0985
GO:0032956ColorectumADregulation of actin cytoskeleton organization127/3918358/187231.03e-101.04e-08127
GO:0051495ColorectumADpositive regulation of cytoskeleton organization89/3918226/187231.61e-101.56e-0889
GO:0032273ColorectumADpositive regulation of protein polymerization62/3918138/187231.94e-101.76e-0862
GO:0031334ColorectumADpositive regulation of protein-containing complex assembly91/3918237/187234.78e-103.99e-0891
GO:0030838ColorectumADpositive regulation of actin filament polymerization48/391899/187239.21e-107.03e-0848
GO:0007034ColorectumADvacuolar transport60/3918157/187234.97e-071.85e-0560
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa04144ColorectumADEndocytosis111/2092251/84655.95e-121.42e-109.08e-11111
hsa04666ColorectumADFc gamma R-mediated phagocytosis46/209297/84659.10e-071.22e-057.77e-0646
hsa041441ColorectumADEndocytosis111/2092251/84655.95e-121.42e-109.08e-11111
hsa046661ColorectumADFc gamma R-mediated phagocytosis46/209297/84659.10e-071.22e-057.77e-0646
hsa041442ColorectumSEREndocytosis81/1580251/84651.14e-072.36e-061.71e-0681
hsa046662ColorectumSERFc gamma R-mediated phagocytosis39/158097/84655.84e-079.70e-067.04e-0639
hsa041443ColorectumSEREndocytosis81/1580251/84651.14e-072.36e-061.71e-0681
hsa046663ColorectumSERFc gamma R-mediated phagocytosis39/158097/84655.84e-079.70e-067.04e-0639
hsa041444ColorectumMSSEndocytosis102/1875251/84651.85e-114.43e-102.71e-10102
hsa046664ColorectumMSSFc gamma R-mediated phagocytosis45/187597/84659.30e-081.56e-069.55e-0745
hsa041445ColorectumMSSEndocytosis102/1875251/84651.85e-114.43e-102.71e-10102
hsa046665ColorectumMSSFc gamma R-mediated phagocytosis45/187597/84659.30e-081.56e-069.55e-0745
hsa04144210EsophagusESCCEndocytosis186/4205251/84659.74e-164.66e-142.39e-14186
hsa0466620EsophagusESCCFc gamma R-mediated phagocytosis63/420597/84651.63e-034.89e-032.50e-0363
hsa0414437EsophagusESCCEndocytosis186/4205251/84659.74e-164.66e-142.39e-14186
hsa04666110EsophagusESCCFc gamma R-mediated phagocytosis63/420597/84651.63e-034.89e-032.50e-0363
hsa0414412LiverCirrhoticEndocytosis119/2530251/84652.33e-094.56e-082.81e-08119
hsa0414413LiverCirrhoticEndocytosis119/2530251/84652.33e-094.56e-082.81e-08119
hsa0414422LiverHCCEndocytosis178/4020251/84652.03e-145.22e-132.91e-13178
hsa0466610LiverHCCFc gamma R-mediated phagocytosis58/402097/84659.65e-032.52e-021.40e-0258
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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
BIN1SNVMissense_Mutationc.908N>Gp.Ser303Cysp.S303CO00499protein_codingdeleterious(0.04)probably_damaging(0.957)TCGA-AC-A23H-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownPD
BIN1SNVMissense_Mutationrs779552563c.865G>Ap.Ala289Thrp.A289TO00499protein_codingtolerated(0.48)benign(0.021)TCGA-BH-A0HA-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownSD
BIN1insertionNonsense_Mutationnovelc.1061_1062insCTAGGACTAGAACTAAGGAACTGAGGCTGCAGGTGTCTGGGTGGp.Lys354AsnfsTer2p.K354Nfs*2O00499protein_codingTCGA-A2-A04Y-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapycytoxanSD
BIN1SNVMissense_Mutationrs759691190c.1747N>Ap.Val583Ilep.V583IO00499protein_codingdeleterious(0.02)benign(0.136)TCGA-5M-AAT6-01Colorectumcolon adenocarcinomaFemale<65III/IVUnknownUnknownPD
BIN1SNVMissense_Mutationc.1618C>Ap.Gln540Lysp.Q540KO00499protein_codingdeleterious(0.05)probably_damaging(0.979)TCGA-AA-3947-01Colorectumcolon adenocarcinomaFemale<65I/IIUnknownUnknownSD
BIN1SNVMissense_Mutationnovelc.446A>Gp.Asp149Glyp.D149GO00499protein_codingdeleterious(0)probably_damaging(0.96)TCGA-AA-3949-01Colorectumcolon adenocarcinomaFemale>=65III/IVUnknownUnknownSD
BIN1SNVMissense_Mutationc.1309N>Ap.Ala437Thrp.A437TO00499protein_codingtolerated(0.11)benign(0)TCGA-AA-A010-01Colorectumcolon adenocarcinomaFemale<65I/IIChemotherapyfolinicCR
BIN1SNVMissense_Mutationc.1745N>Tp.Gly582Valp.G582VO00499protein_codingdeleterious(0)probably_damaging(1)TCGA-AG-A02G-01Colorectumrectum adenocarcinomaMale>=65III/IVChemotherapyfolinicPD
BIN1deletionFrame_Shift_Delc.550delNp.Gln184SerfsTer12p.Q184Sfs*12O00499protein_codingTCGA-AY-6197-01Colorectumcolon adenocarcinomaMale<65I/IIUnknownUnknownSD
BIN1SNVMissense_Mutationrs794727107c.1142N>Tp.Pro381Leup.P381LO00499protein_codingtolerated(0.08)possibly_damaging(0.46)TCGA-4E-A92E-01Endometriumuterine corpus endometrioid carcinomaFemale<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
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