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: NUP42

Gene summary for NUP42

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

NUP42

Gene ID

11097

Gene namenucleoporin 42
Gene AliasCG1
Cytomap7p15.3
Gene Typeprotein-coding
GO ID

GO:0006403

UniProtAcc

O15504


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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
11097NUP42HTA11_3410_2000001011HumanColorectumAD2.54e-081.93e-010.0155
11097NUP42HTA11_2487_2000001011HumanColorectumSER3.70e-093.00e-01-0.1808
11097NUP42HTA11_1938_2000001011HumanColorectumAD1.66e-154.12e-01-0.0811
11097NUP42HTA11_78_2000001011HumanColorectumAD7.82e-224.42e-01-0.1088
11097NUP42HTA11_347_2000001011HumanColorectumAD7.85e-245.01e-01-0.1954
11097NUP42HTA11_411_2000001011HumanColorectumSER5.61e-033.68e-01-0.2602
11097NUP42HTA11_3361_2000001011HumanColorectumAD1.91e-052.13e-01-0.1207
11097NUP42HTA11_83_2000001011HumanColorectumSER3.64e-052.04e-01-0.1526
11097NUP42HTA11_696_2000001011HumanColorectumAD2.46e-163.01e-01-0.1464
11097NUP42HTA11_866_2000001011HumanColorectumAD7.63e-193.45e-01-0.1001
11097NUP42HTA11_1391_2000001011HumanColorectumAD2.01e-205.04e-01-0.059
11097NUP42HTA11_2992_2000001011HumanColorectumSER1.51e-042.87e-01-0.1706
11097NUP42HTA11_546_2000001011HumanColorectumAD8.36e-093.04e-01-0.0842
11097NUP42HTA11_7862_2000001011HumanColorectumAD1.96e-032.16e-01-0.0179
11097NUP42HTA11_866_3004761011HumanColorectumAD1.36e-072.00e-010.096
11097NUP42HTA11_4255_2000001011HumanColorectumSER3.22e-053.36e-010.0446
11097NUP42HTA11_9408_2000001011HumanColorectumAD9.81e-032.34e-010.0451
11097NUP42HTA11_8622_2000001021HumanColorectumSER6.14e-042.26e-010.0528
11097NUP42HTA11_7663_2000001011HumanColorectumSER7.58e-094.07e-010.0131
11097NUP42HTA11_10623_2000001011HumanColorectumAD3.27e-114.04e-01-0.0177
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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
∗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:0006913ColorectumADnucleocytoplasmic transport102/3918301/187231.00e-074.85e-06102
GO:0051169ColorectumADnuclear transport102/3918301/187231.00e-074.85e-06102
GO:0006403ColorectumADRNA localization71/3918201/187231.54e-064.76e-0571
GO:0051236ColorectumADestablishment of RNA localization58/3918166/187231.95e-054.01e-0458
GO:0015931ColorectumADnucleobase-containing compound transport73/3918222/187232.02e-054.10e-0473
GO:0050657ColorectumADnucleic acid transport57/3918163/187232.22e-054.39e-0457
GO:0050658ColorectumADRNA transport57/3918163/187232.22e-054.39e-0457
GO:0051168ColorectumADnuclear export53/3918154/187236.89e-051.11e-0353
GO:0006611ColorectumADprotein export from nucleus23/391857/187236.62e-046.80e-0323
GO:0051028ColorectumADmRNA transport42/3918130/187231.57e-031.32e-0242
GO:00069131ColorectumSERnucleocytoplasmic transport77/2897301/187233.39e-061.32e-0477
GO:00511691ColorectumSERnuclear transport77/2897301/187233.39e-061.32e-0477
GO:00066111ColorectumSERprotein export from nucleus22/289757/187231.91e-055.58e-0422
GO:00064031ColorectumSERRNA localization53/2897201/187234.51e-051.13e-0353
GO:00511681ColorectumSERnuclear export42/2897154/187231.19e-042.46e-0342
GO:00159311ColorectumSERnucleobase-containing compound transport54/2897222/187233.65e-045.67e-0354
GO:00512361ColorectumSERestablishment of RNA localization42/2897166/187236.70e-048.96e-0342
GO:00506571ColorectumSERnucleic acid transport41/2897163/187238.74e-041.06e-0241
GO:00506581ColorectumSERRNA transport41/2897163/187238.74e-041.06e-0241
GO:000640320EsophagusHGINRNA localization66/2587201/187234.06e-125.41e-1066
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa030137EsophagusHGINNucleocytoplasmic transport31/1383108/84658.29e-047.95e-036.31e-0331
hsa0301312EsophagusHGINNucleocytoplasmic transport31/1383108/84658.29e-047.95e-036.31e-0331
hsa0301321EsophagusESCCNucleocytoplasmic transport89/4205108/84651.20e-122.37e-111.21e-1189
hsa0301331EsophagusESCCNucleocytoplasmic transport89/4205108/84651.20e-122.37e-111.21e-1189
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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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