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: PVRL4

Gene summary for PVRL4

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

PVRL4

Gene ID

81607

Gene namenectin cell adhesion molecule 4
Gene AliasEDSS1
Cytomap1q23.3
Gene Typeprotein-coding
GO ID

GO:0007155

UniProtAcc

K4PZ75


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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
81607PVRL4P1T-EHumanEsophagusESCC1.97e-231.31e+000.0875
81607PVRL4P2T-EHumanEsophagusESCC1.30e-153.92e-010.1177
81607PVRL4P4T-EHumanEsophagusESCC1.08e-401.08e+000.1323
81607PVRL4P5T-EHumanEsophagusESCC1.51e-347.07e-010.1327
81607PVRL4P8T-EHumanEsophagusESCC3.87e-346.83e-010.0889
81607PVRL4P9T-EHumanEsophagusESCC9.99e-451.12e+000.1131
81607PVRL4P11T-EHumanEsophagusESCC3.25e-052.94e-010.1426
81607PVRL4P12T-EHumanEsophagusESCC4.16e-225.11e-010.1122
81607PVRL4P15T-EHumanEsophagusESCC1.57e-287.94e-010.1149
81607PVRL4P17T-EHumanEsophagusESCC7.64e-084.01e-010.1278
81607PVRL4P20T-EHumanEsophagusESCC2.73e-216.22e-010.1124
81607PVRL4P21T-EHumanEsophagusESCC1.97e-102.56e-010.1617
81607PVRL4P22T-EHumanEsophagusESCC1.76e-122.45e-010.1236
81607PVRL4P23T-EHumanEsophagusESCC2.66e-571.48e+000.108
81607PVRL4P24T-EHumanEsophagusESCC2.56e-163.75e-010.1287
81607PVRL4P26T-EHumanEsophagusESCC2.03e-571.11e+000.1276
81607PVRL4P27T-EHumanEsophagusESCC1.23e-205.68e-010.1055
81607PVRL4P28T-EHumanEsophagusESCC5.87e-841.61e+000.1149
81607PVRL4P30T-EHumanEsophagusESCC1.16e-219.37e-010.137
81607PVRL4P31T-EHumanEsophagusESCC2.86e-204.66e-010.1251
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check button Transcriptomic changes along malignancy continuum.
TissueExpression DynamicsAbbreviation
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
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
∗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
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa0452018BreastPrecancerAdherens junction17/68493/84651.11e-037.57e-035.80e-0317
hsa0452019BreastPrecancerAdherens junction17/68493/84651.11e-037.57e-035.80e-0317
hsa0452020CervixCCAdherens junction33/126793/84656.99e-077.31e-064.32e-0633
hsa04520110CervixCCAdherens junction33/126793/84656.99e-077.31e-064.32e-0633
hsa0452030EsophagusESCCAdherens junction69/420593/84651.08e-066.83e-063.50e-0669
hsa04520114EsophagusESCCAdherens junction69/420593/84651.08e-066.83e-063.50e-0669
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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
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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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