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: NUP62

Gene summary for NUP62

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

NUP62

Gene ID

23636

Gene namenucleoporin 62
Gene AliasIBSN
Cytomap19q13.33
Gene Typeprotein-coding
GO ID

GO:0000003

UniProtAcc

A0A024QZF1


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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
23636NUP62HTA11_3410_2000001011HumanColorectumAD1.75e-122.46e-010.0155
23636NUP62HTA11_2487_2000001011HumanColorectumSER1.65e-072.24e-01-0.1808
23636NUP62HTA11_2951_2000001011HumanColorectumAD3.34e-043.63e-010.0216
23636NUP62HTA11_1938_2000001011HumanColorectumAD3.84e-103.09e-01-0.0811
23636NUP62HTA11_78_2000001011HumanColorectumAD2.48e-072.13e-01-0.1088
23636NUP62HTA11_347_2000001011HumanColorectumAD2.37e-142.95e-01-0.1954
23636NUP62HTA11_411_2000001011HumanColorectumSER5.61e-032.94e-01-0.2602
23636NUP62HTA11_2112_2000001011HumanColorectumSER1.90e-022.12e-01-0.2196
23636NUP62HTA11_3361_2000001011HumanColorectumAD1.91e-052.02e-01-0.1207
23636NUP62HTA11_83_2000001011HumanColorectumSER1.46e-114.07e-01-0.1526
23636NUP62HTA11_696_2000001011HumanColorectumAD9.19e-183.23e-01-0.1464
23636NUP62HTA11_866_2000001011HumanColorectumAD1.86e-112.63e-01-0.1001
23636NUP62HTA11_1391_2000001011HumanColorectumAD6.55e-214.78e-01-0.059
23636NUP62HTA11_546_2000001011HumanColorectumAD4.83e-083.18e-01-0.0842
23636NUP62HTA11_7862_2000001011HumanColorectumAD3.08e-042.52e-01-0.0179
23636NUP62HTA11_866_3004761011HumanColorectumAD3.43e-194.00e-010.096
23636NUP62HTA11_8622_2000001021HumanColorectumSER8.37e-052.67e-010.0528
23636NUP62HTA11_10623_2000001011HumanColorectumAD1.36e-032.44e-01-0.0177
23636NUP62HTA11_6801_2000001011HumanColorectumSER2.21e-022.69e-010.0171
23636NUP62HTA11_10711_2000001011HumanColorectumAD1.10e-123.71e-010.0338
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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
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
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:000705122ThyroidATCspindle organization109/6293184/187237.99e-133.46e-11109
GO:005134834ThyroidATCnegative regulation of transferase activity144/6293268/187237.63e-122.91e-10144
GO:0051495111ThyroidATCpositive regulation of cytoskeleton organization125/6293226/187231.39e-115.08e-10125
GO:000726524ThyroidATCRas protein signal transduction172/6293337/187232.25e-117.96e-10172
GO:001593122ThyroidATCnucleobase-containing compound transport122/6293222/187234.30e-111.41e-09122
GO:005102822ThyroidATCmRNA transport80/6293130/187236.13e-111.99e-0980
GO:000028117ThyroidATCmitotic cytokinesis50/629371/187232.46e-107.10e-0950
GO:009881312ThyroidATCnuclear chromosome segregation145/6293281/187233.06e-108.61e-09145
GO:004578719ThyroidATCpositive regulation of cell cycle158/6293313/187234.18e-101.14e-08158
GO:004828512ThyroidATCorganelle fission229/6293488/187234.79e-101.29e-08229
GO:007190025ThyroidATCregulation of protein serine/threonine kinase activity176/6293359/187238.35e-102.17e-08176
GO:000646925ThyroidATCnegative regulation of protein kinase activity114/6293212/187231.06e-092.69e-08114
GO:000028011ThyroidATCnuclear division207/6293439/187231.98e-094.80e-08207
GO:007050723ThyroidATCregulation of microtubule cytoskeleton organization85/6293148/187232.17e-095.21e-0885
GO:000756829ThyroidATCaging166/6293339/187232.79e-096.60e-08166
GO:001703822ThyroidATCprotein import110/6293206/187233.49e-098.09e-08110
GO:000708811ThyroidATCregulation of mitotic nuclear division67/6293110/187233.98e-099.08e-0867
GO:003367325ThyroidATCnegative regulation of kinase activity122/6293237/187239.19e-091.94e-07122
GO:0038127111ThyroidATCERBB signaling pathway71/6293121/187231.31e-082.69e-0771
GO:0000910110ThyroidATCcytokinesis93/6293173/187233.59e-086.67e-0793
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa05014ColorectumADAmyotrophic lateral sclerosis164/2092364/84654.28e-181.27e-168.09e-17164
hsa050141ColorectumADAmyotrophic lateral sclerosis164/2092364/84654.28e-181.27e-168.09e-17164
hsa050142ColorectumSERAmyotrophic lateral sclerosis138/1580364/84659.89e-192.99e-172.17e-17138
hsa050143ColorectumSERAmyotrophic lateral sclerosis138/1580364/84659.89e-192.99e-172.17e-17138
hsa050144ColorectumMSSAmyotrophic lateral sclerosis156/1875364/84651.43e-194.62e-182.83e-18156
hsa050145ColorectumMSSAmyotrophic lateral sclerosis156/1875364/84651.43e-194.62e-182.83e-18156
hsa050146ColorectumMSI-HAmyotrophic lateral sclerosis95/797364/84652.31e-211.50e-191.26e-1995
hsa050147ColorectumMSI-HAmyotrophic lateral sclerosis95/797364/84652.31e-211.50e-191.26e-1995
hsa05014210EsophagusESCCAmyotrophic lateral sclerosis266/4205364/84651.31e-202.20e-181.13e-18266
hsa0301321EsophagusESCCNucleocytoplasmic transport89/4205108/84651.20e-122.37e-111.21e-1189
hsa0501438EsophagusESCCAmyotrophic lateral sclerosis266/4205364/84651.31e-202.20e-181.13e-18266
hsa0301331EsophagusESCCNucleocytoplasmic transport89/4205108/84651.20e-122.37e-111.21e-1189
hsa0501422LiverHCCAmyotrophic lateral sclerosis252/4020364/84658.85e-187.41e-164.12e-16252
hsa03013LiverHCCNucleocytoplasmic transport81/4020108/84654.28e-096.83e-083.80e-0881
hsa0501432LiverHCCAmyotrophic lateral sclerosis252/4020364/84658.85e-187.41e-164.12e-16252
hsa030131LiverHCCNucleocytoplasmic transport81/4020108/84654.28e-096.83e-083.80e-0881
hsa0501428Oral cavityOSCCAmyotrophic lateral sclerosis246/3704364/84656.65e-211.11e-185.67e-19246
hsa030136Oral cavityOSCCNucleocytoplasmic transport82/3704108/84657.93e-121.33e-106.77e-1182
hsa05014112Oral cavityOSCCAmyotrophic lateral sclerosis246/3704364/84656.65e-211.11e-185.67e-19246
hsa0301311Oral cavityOSCCNucleocytoplasmic transport82/3704108/84657.93e-121.33e-106.77e-1182
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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
NUP62SNVMissense_Mutationc.280N>Tp.Ala94Serp.A94SP37198protein_codingtolerated(0.12)benign(0.001)TCGA-A1-A0SJ-01Breastbreast invasive carcinomaFemale<65III/IVUnknownUnknownSD
NUP62SNVMissense_Mutationc.1564G>Cp.Asp522Hisp.D522HP37198protein_codingdeleterious(0)possibly_damaging(0.824)TCGA-A2-A0YM-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
NUP62SNVMissense_Mutationnovelc.731N>Tp.Thr244Ilep.T244IP37198protein_codingdeleterious(0)possibly_damaging(0.708)TCGA-AC-A3W5-01Breastbreast invasive carcinomaFemale>=65I/IIChemotherapydocetaxelCR
NUP62insertionFrame_Shift_Insnovelc.254_255insGp.Thr86AsnfsTer38p.T86Nfs*38P37198protein_codingTCGA-BH-A18G-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
NUP62SNVMissense_Mutationnovelc.137N>Ap.Ala46Aspp.A46DP37198protein_codingdeleterious(0)benign(0.027)TCGA-2W-A8YY-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
NUP62SNVMissense_Mutationc.1312N>Ap.Glu438Lysp.E438KP37198protein_codingdeleterious(0)benign(0.168)TCGA-C5-A1MK-01Cervixcervical & endocervical cancerFemale>=65III/IVChemotherapycarboplatinPD
NUP62SNVMissense_Mutationnovelc.1543C>Tp.Arg515Cysp.R515CP37198protein_codingtolerated(0.05)probably_damaging(0.948)TCGA-EA-A3HS-01Cervixcervical & endocervical cancerFemale<65I/IIUnknownUnknownSD
NUP62SNVMissense_Mutationc.98N>Ap.Ser33Tyrp.S33YP37198protein_codingdeleterious(0)probably_damaging(0.99)TCGA-FU-A3HZ-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
NUP62SNVMissense_Mutationc.1042G>Ap.Glu348Lysp.E348KP37198protein_codingdeleterious(0)possibly_damaging(0.85)TCGA-Q1-A73O-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
NUP62SNVMissense_Mutationrs769926725c.104N>Tp.Ser35Phep.S35FP37198protein_codingdeleterious(0.01)probably_damaging(0.99)TCGA-A6-6653-01Colorectumcolon adenocarcinomaMale>=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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