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: ZMYM4

Gene summary for ZMYM4

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

ZMYM4

Gene ID

9202

Gene namezinc finger MYM-type containing 4
Gene AliasCDIR
Cytomap1p34.3
Gene Typeprotein-coding
GO ID

GO:0000902

UniProtAcc

Q5VZL5


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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
9202ZMYM4CCI_3HumanCervixCC9.19e-046.33e-010.516
9202ZMYM4HTA11_3410_2000001011HumanColorectumAD9.47e-14-5.60e-010.0155
9202ZMYM4HTA11_2487_2000001011HumanColorectumSER4.38e-06-5.22e-01-0.1808
9202ZMYM4HTA11_83_2000001011HumanColorectumSER4.66e-04-5.03e-01-0.1526
9202ZMYM4HTA11_696_2000001011HumanColorectumAD2.32e-04-4.01e-01-0.1464
9202ZMYM4HTA11_866_2000001011HumanColorectumAD5.43e-07-3.66e-01-0.1001
9202ZMYM4HTA11_5212_2000001011HumanColorectumAD2.17e-02-6.69e-01-0.2061
9202ZMYM4HTA11_7862_2000001011HumanColorectumAD3.89e-04-5.92e-01-0.0179
9202ZMYM4HTA11_866_3004761011HumanColorectumAD2.22e-06-4.23e-010.096
9202ZMYM4HTA11_7696_3000711011HumanColorectumAD2.05e-09-4.11e-010.0674
9202ZMYM4HTA11_6818_2000001021HumanColorectumAD1.25e-03-3.14e-010.0588
9202ZMYM4HTA11_99999971662_82457HumanColorectumMSS4.48e-02-2.89e-010.3859
9202ZMYM4HTA11_99999974143_84620HumanColorectumMSS2.63e-18-5.62e-010.3005
9202ZMYM4A015-C-203HumanColorectumFAP7.85e-24-2.58e-01-0.1294
9202ZMYM4A015-C-204HumanColorectumFAP2.00e-04-1.99e-01-0.0228
9202ZMYM4A014-C-040HumanColorectumFAP2.66e-02-2.64e-01-0.1184
9202ZMYM4A002-C-201HumanColorectumFAP3.44e-11-2.63e-010.0324
9202ZMYM4A002-C-203HumanColorectumFAP2.75e-02-5.18e-020.2786
9202ZMYM4A001-C-119HumanColorectumFAP9.36e-05-4.06e-01-0.1557
9202ZMYM4A001-C-108HumanColorectumFAP2.16e-13-9.41e-02-0.0272
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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
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
LungThe 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.AAH: Atypical adenomatous hyperplasia
AIS: Adenocarcinoma in situ
IAC: Invasive lung adenocarcinoma
MIA: Minimally invasive adenocarcinoma
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:002260410CervixCCregulation of cell morphogenesis84/2311309/187231.00e-124.29e-1084
GO:0022604ColorectumADregulation of cell morphogenesis109/3918309/187233.08e-092.07e-07109
GO:00226041ColorectumSERregulation of cell morphogenesis89/2897309/187231.51e-091.52e-0789
GO:00226042ColorectumMSSregulation of cell morphogenesis103/3467309/187232.70e-102.56e-08103
GO:00226044ColorectumFAPregulation of cell morphogenesis87/2622309/187234.89e-111.87e-0887
GO:00226045ColorectumCRCregulation of cell morphogenesis74/2078309/187239.25e-115.04e-0874
GO:002260415EndometriumAEHregulation of cell morphogenesis79/2100309/187231.04e-122.24e-1079
GO:002260416EndometriumEECregulation of cell morphogenesis78/2168309/187231.45e-112.28e-0978
GO:002260420EsophagusESCCregulation of cell morphogenesis180/8552309/187235.19e-065.45e-05180
GO:00226047LiverNAFLDregulation of cell morphogenesis62/1882309/187238.35e-087.09e-0662
GO:002260412LiverCirrhoticregulation of cell morphogenesis127/4634309/187231.45e-107.44e-09127
GO:002260422LiverHCCregulation of cell morphogenesis188/7958309/187234.84e-111.82e-09188
GO:00226048LungIACregulation of cell morphogenesis74/2061309/187236.31e-111.70e-0874
GO:002260413LungAISregulation of cell morphogenesis65/1849309/187232.97e-095.09e-0765
GO:002260423LungAAHregulation of cell morphogenesis30/613309/187231.18e-076.77e-0530
GO:002260432LungMIACregulation of cell morphogenesis38/967309/187236.47e-079.76e-0538
GO:002260417ProstateBPHregulation of cell morphogenesis99/3107309/187231.30e-119.72e-1099
GO:002260418ProstateTumorregulation of cell morphogenesis102/3246309/187231.25e-119.49e-10102
GO:002260426SkinAKregulation of cell morphogenesis66/1910309/187234.34e-093.30e-0766
GO:0022604111SkinSCCISregulation of cell morphogenesis36/919309/187231.41e-068.79e-0536
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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
ZMYM4SNVMissense_Mutationc.883N>Gp.Leu295Valp.L295VQ5VZL5protein_codingdeleterious(0.01)benign(0.217)TCGA-AN-A0XN-01Breastbreast invasive carcinomaFemale>=65III/IVUnknownUnknownSD
ZMYM4SNVMissense_Mutationc.1813N>Gp.Tyr605Aspp.Y605DQ5VZL5protein_codingdeleterious(0.02)possibly_damaging(0.84)TCGA-AO-A0J4-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapydoxorubicinSD
ZMYM4SNVMissense_Mutationrs765573029c.1595N>Tp.Ala532Valp.A532VQ5VZL5protein_codingtolerated(0.08)benign(0.017)TCGA-AO-A128-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapydoxorubicinSD
ZMYM4SNVMissense_Mutationc.949C>Gp.Gln317Glup.Q317EQ5VZL5protein_codingtolerated(1)benign(0.119)TCGA-AR-A0TX-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownSD
ZMYM4SNVMissense_Mutationc.3596C>Tp.Ser1199Leup.S1199LQ5VZL5protein_codingdeleterious(0.01)benign(0.092)TCGA-B6-A0IK-01Breastbreast invasive carcinomaFemale<65III/IVUnknownUnknownPD
ZMYM4SNVMissense_Mutationnovelc.3703N>Tp.Val1235Phep.V1235FQ5VZL5protein_codingtolerated_low_confidence(0.36)benign(0.027)TCGA-BH-A0C7-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapyadriamycinCR
ZMYM4SNVMissense_Mutationc.3849N>Cp.Leu1283Phep.L1283FQ5VZL5protein_codingdeleterious(0)probably_damaging(0.95)TCGA-E2-A159-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapycyclophosphamideSD
ZMYM4SNVMissense_Mutationc.2001N>Cp.Gln667Hisp.Q667HQ5VZL5protein_codingdeleterious(0.01)benign(0.062)TCGA-E9-A22E-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapycyclophosphaneSD
ZMYM4SNVMissense_Mutationnovelc.1916C>Ap.Thr639Lysp.T639KQ5VZL5protein_codingtolerated(0.94)benign(0.003)TCGA-E9-A54Y-01Breastbreast invasive carcinomaFemale<65III/IVUnknownUnknownSD
ZMYM4insertionNonsense_Mutationnovelc.4629_4630insAGAATCCTTGAACCTGGGTGGAGGCTGCAGTGAGCp.Val1544ArgfsTer11p.V1544Rfs*11Q5VZL5protein_codingTCGA-A2-A0CP-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapycytoxanSD
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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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