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: CLSTN1

Gene summary for CLSTN1

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

CLSTN1

Gene ID

22883

Gene namecalsyntenin 1
Gene AliasALC-ALPHA
Cytomap1p36.22
Gene Typeprotein-coding
GO ID

GO:0001558

UniProtAcc

O94985


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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
22883CLSTN1CA_HPV_1HumanCervixCC8.98e-07-2.49e-010.0264
22883CLSTN1CA_HPV_3HumanCervixCC2.72e-093.82e-010.0414
22883CLSTN1CCI_2HumanCervixCC6.13e-089.78e-010.5249
22883CLSTN1CCI_3HumanCervixCC2.85e-025.52e-010.516
22883CLSTN1HTA11_3410_2000001011HumanColorectumAD1.16e-04-2.21e-010.0155
22883CLSTN1HTA11_2487_2000001011HumanColorectumSER2.27e-045.16e-01-0.1808
22883CLSTN1HTA11_1938_2000001011HumanColorectumAD2.39e-054.48e-01-0.0811
22883CLSTN1HTA11_347_2000001011HumanColorectumAD1.15e-278.98e-01-0.1954
22883CLSTN1HTA11_411_2000001011HumanColorectumSER1.35e-041.15e+00-0.2602
22883CLSTN1HTA11_2112_2000001011HumanColorectumSER2.81e-071.05e+00-0.2196
22883CLSTN1HTA11_83_2000001011HumanColorectumSER3.29e-024.21e-01-0.1526
22883CLSTN1HTA11_696_2000001011HumanColorectumAD9.68e-187.44e-01-0.1464
22883CLSTN1HTA11_866_2000001011HumanColorectumAD2.74e-054.82e-01-0.1001
22883CLSTN1HTA11_99999965104_69814HumanColorectumMSS2.73e-033.90e-010.281
22883CLSTN1A015-C-203HumanColorectumFAP6.68e-20-2.87e-01-0.1294
22883CLSTN1A014-C-040HumanColorectumFAP1.83e-02-4.81e-01-0.1184
22883CLSTN1A002-C-201HumanColorectumFAP6.33e-06-2.52e-010.0324
22883CLSTN1A001-C-108HumanColorectumFAP1.50e-08-2.02e-01-0.0272
22883CLSTN1A002-C-205HumanColorectumFAP3.82e-11-3.52e-01-0.1236
22883CLSTN1A015-C-006HumanColorectumFAP1.57e-08-4.30e-01-0.0994
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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
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:000155825ThyroidHTregulation of cell growth47/1272414/187233.77e-044.76e-0347
GO:199077825ThyroidHTprotein localization to cell periphery39/1272333/187236.29e-047.21e-0339
GO:00519627ThyroidHTpositive regulation of nervous system development31/1272272/187233.27e-032.58e-0231
GO:0090150112ThyroidPTCestablishment of protein localization to membrane149/5968260/187231.64e-171.59e-15149
GO:1990778111ThyroidPTCprotein localization to cell periphery172/5968333/187233.71e-142.30e-12172
GO:0016049112ThyroidPTCcell growth225/5968482/187234.75e-122.07e-10225
GO:0001558111ThyroidPTCregulation of cell growth188/5968414/187234.13e-091.09e-07188
GO:009887618ThyroidPTCvesicle-mediated transport to the plasma membrane74/5968136/187234.20e-089.08e-0774
GO:00315037ThyroidPTCprotein-containing complex localization107/5968220/187231.47e-072.82e-06107
GO:0034329111ThyroidPTCcell junction assembly180/5968420/187231.17e-061.69e-05180
GO:005196214ThyroidPTCpositive regulation of nervous system development117/5968272/187236.72e-055.89e-04117
GO:00519608ThyroidPTCregulation of nervous system development177/5968443/187231.72e-041.32e-03177
GO:190188817ThyroidPTCregulation of cell junction assembly88/5968204/187234.50e-042.97e-0388
GO:19024145ThyroidPTCprotein localization to cell junction43/596894/187233.32e-031.62e-0243
GO:00508089ThyroidPTCsynapse organization161/5968426/187235.11e-032.36e-02161
GO:00508074ThyroidPTCregulation of synapse organization84/5968211/187238.72e-033.64e-0284
GO:00508032ThyroidPTCregulation of synapse structure or activity86/5968218/187231.05e-024.23e-0286
GO:009015031ThyroidATCestablishment of protein localization to membrane150/6293260/187231.05e-157.96e-14150
GO:199077826ThyroidATCprotein localization to cell periphery181/6293333/187233.72e-152.56e-13181
GO:001604927ThyroidATCcell growth241/6293482/187234.27e-142.35e-12241
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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
CLSTN1SNVMissense_Mutationrs751480577c.1498N>Ap.Val500Metp.V500MO94985protein_codingtolerated(0.35)probably_damaging(0.942)TCGA-A2-A3XV-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapycarboplatinCR
CLSTN1SNVMissense_Mutationrs201194236c.2146N>Ap.Asp716Asnp.D716NO94985protein_codingtolerated(1)benign(0.003)TCGA-BH-A0HP-01Breastbreast invasive carcinomaFemale>=65III/IVChemotherapydoxorubicinSD
CLSTN1SNVMissense_Mutationrs749257979c.2896N>Ap.Ala966Thrp.A966TO94985protein_codingtolerated(0.32)benign(0.001)TCGA-D8-A1JA-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapyadriamycinPD
CLSTN1SNVMissense_Mutationc.1270N>Tp.Gly424Trpp.G424WO94985protein_codingdeleterious(0)probably_damaging(0.994)TCGA-EW-A6S9-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownSD
CLSTN1insertionFrame_Shift_Insnovelc.1656dupGp.Lys553GlufsTer48p.K553Efs*48O94985protein_codingTCGA-BH-A0DP-01Breastbreast invasive carcinomaFemale<65I/IIHormone TherapyarimidexSD
CLSTN1insertionIn_Frame_Insnovelc.1654_1655insCGCCAGTGCTTCCCAAACGACCCATGGGGAp.Asp551_Lys552insThrProValLeuProLysArgProMetGlyp.D551_K552insTPVLPKRPMGO94985protein_codingTCGA-BH-A0DP-01Breastbreast invasive carcinomaFemale<65I/IIHormone TherapyarimidexSD
CLSTN1insertionFrame_Shift_Insnovelc.774_775insGp.Pro259AlafsTer15p.P259Afs*15O94985protein_codingTCGA-BH-A0H7-01Breastbreast invasive carcinomaFemale>=65III/IVChemotherapydoxorubicinSD
CLSTN1insertionFrame_Shift_Insnovelc.772_773insGACAGAGTCTCACTCTGTCACCCp.Lys258ArgfsTer56p.K258Rfs*56O94985protein_codingTCGA-BH-A0H7-01Breastbreast invasive carcinomaFemale>=65III/IVChemotherapydoxorubicinSD
CLSTN1deletionFrame_Shift_Delnovelc.755delTp.Leu252TrpfsTer2p.L252Wfs*2O94985protein_codingTCGA-D8-A27V-01Breastbreast invasive carcinomaFemale<65I/IIHormone TherapytamoxiphenSD
CLSTN1SNVMissense_Mutationrs778535987c.709G>Ap.Val237Ilep.V237IO94985protein_codingtolerated(0.07)probably_damaging(0.997)TCGA-2W-A8YY-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
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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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