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: HES4

Gene summary for HES4

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

HES4

Gene ID

57801

Gene namehes family bHLH transcription factor 4
Gene AliasbHLHb42
Cytomap1p36.33
Gene Typeprotein-coding
GO ID

GO:0003002

UniProtAcc

E9PB28


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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
57801HES4AEH-subject1HumanEndometriumAEH4.87e-034.39e-01-0.3059
57801HES4AEH-subject2HumanEndometriumAEH1.85e-053.74e-01-0.2525
57801HES4AEH-subject3HumanEndometriumAEH1.77e-104.75e-01-0.2576
57801HES4EEC-subject2HumanEndometriumEEC6.56e-226.78e-01-0.2607
57801HES4EEC-subject3HumanEndometriumEEC3.54e-09-1.08e-01-0.2525
57801HES4EEC-subject5HumanEndometriumEEC4.18e-033.25e-01-0.249
57801HES4GSM5276935HumanEndometriumEEC1.44e-114.53e-01-0.123
57801HES4GSM6177620_NYU_UCEC1_lib1_lib1HumanEndometriumEEC8.70e-10-1.32e-01-0.1869
57801HES4GSM6177620_NYU_UCEC1_lib2_lib2HumanEndometriumEEC7.23e-07-2.64e-01-0.1875
57801HES4GSM6177620_NYU_UCEC1_lib3_lib3HumanEndometriumEEC3.47e-09-2.55e-01-0.1883
57801HES4GSM6177621_NYU_UCEC2_lib1_lib1HumanEndometriumEEC1.49e-11-2.19e-01-0.1934
57801HES4GSM6177622_NYU_UCEC3_lib1_lib1HumanEndometriumEEC4.39e-14-2.58e-01-0.1917
57801HES4GSM6177622_NYU_UCEC3_lib2_lib2HumanEndometriumEEC2.01e-13-2.98e-01-0.1916
57801HES4GSM6177623_NYU_UCEC3_VisHumanEndometriumEEC2.46e-18-3.14e-01-0.1269
57801HES4LZE5THumanEsophagusESCC1.01e-086.35e-010.0514
57801HES4LZE20THumanEsophagusESCC1.09e-105.43e-010.0662
57801HES4LZE22THumanEsophagusESCC5.28e-095.45e-010.068
57801HES4LZE24THumanEsophagusESCC1.71e-311.14e+000.0596
57801HES4LZE21THumanEsophagusESCC2.04e-055.86e-010.0655
57801HES4P1T-EHumanEsophagusESCC4.74e-161.30e+000.0875
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check button Transcriptomic changes along malignancy continuum.
TissueExpression DynamicsAbbreviation
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
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa0516510EsophagusESCCHuman papillomavirus infection215/4205331/84657.86e-097.12e-083.65e-08215
hsa0516515EsophagusESCCHuman papillomavirus infection215/4205331/84657.86e-097.12e-083.65e-08215
hsa05165LiverCirrhoticHuman papillomavirus infection124/2530331/84651.55e-037.83e-034.83e-03124
hsa051651LiverCirrhoticHuman papillomavirus infection124/2530331/84651.55e-037.83e-034.83e-03124
hsa051652LiverHCCHuman papillomavirus infection188/4020331/84653.34e-041.49e-038.29e-04188
hsa051653LiverHCCHuman papillomavirus infection188/4020331/84653.34e-041.49e-038.29e-04188
hsa051659Oral cavityOSCCHuman papillomavirus infection200/3704331/84653.83e-104.93e-092.51e-09200
hsa0516514Oral cavityOSCCHuman papillomavirus infection200/3704331/84653.83e-104.93e-092.51e-09200
hsa0516541Oral cavityEOLPHuman papillomavirus infection79/1218331/84651.96e-061.63e-059.60e-0679
hsa0516551Oral cavityEOLPHuman papillomavirus infection79/1218331/84651.96e-061.63e-059.60e-0679
hsa0516561Oral cavityNEOLPHuman papillomavirus infection90/1112331/84652.75e-121.75e-101.10e-1090
hsa0516571Oral cavityNEOLPHuman papillomavirus infection90/1112331/84652.75e-121.75e-101.10e-1090
hsa051658ProstateBPHHuman papillomavirus infection111/1718331/84656.15e-097.81e-084.83e-08111
hsa0516513ProstateBPHHuman papillomavirus infection111/1718331/84656.15e-097.81e-084.83e-08111
hsa0516522ProstateTumorHuman papillomavirus infection110/1791331/84651.31e-071.51e-069.36e-07110
hsa0516532ProstateTumorHuman papillomavirus infection110/1791331/84651.31e-071.51e-069.36e-07110
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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
HES4PERICervixHSIL_HPVNOTCH3,MCAM,ADIRF, etc.4.61e-02The 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.
HES4NEUTEndometriumADJISG15,IFIH1,NOC2L, etc.3.20e-02The 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.
HES4MASTEndometriumEECISG15,IFIH1,NOC2L, etc.5.16e-02The 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.
HES4INMONEndometriumHealthyISG15,IFIH1,NOC2L, etc.6.43e-02The 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.
HES4MALTBEndometriumHealthyISG15,IFIH1,NOC2L, etc.3.33e-02The 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.
HES4MASTEndometriumHealthyISG15,IFIH1,NOC2L, etc.3.71e-02The 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.
HES4MSCLiverNAFLDMLTK,UQCR11.1,RP11-332H18.4, etc.5.73e-02The 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.
HES4CLUBLungAAHSCGB1A1,KLK11,TMEM45A, etc.2.23e-01The 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.
HES4CLUBLungADJSCGB1A1,KLK11,TMEM45A, etc.2.52e-01The 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.
HES4CILIALungMIACSCGB1A1,KLK11,TMEM45A, etc.8.57e-02The 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.
∗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
HES4SNVMissense_Mutationc.197N>Gp.Pro66Argp.P66Rprotein_codingdeleterious(0)probably_damaging(1)TCGA-EX-A1H6-01Cervixcervical & endocervical cancerFemale<65I/IIUnknownUnknownSD
HES4SNVMissense_Mutationc.211C>Tp.Arg71Trpp.R71Wprotein_codingdeleterious(0)probably_damaging(1)TCGA-A6-5665-01Colorectumcolon adenocarcinomaFemale>=65I/IIUnknownUnknownPD
HES4SNVMissense_Mutationnovelc.146G>Tp.Gly49Valp.G49Vprotein_codingtolerated_low_confidence(0.16)benign(0)TCGA-EY-A1GK-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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