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: PABPN1

Gene summary for PABPN1

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

PABPN1

Gene ID

8106

Gene namepoly(A) binding protein nuclear 1
Gene AliasOPMD
Cytomap14q11.2
Gene Typeprotein-coding
GO ID

GO:0000165

UniProtAcc

Q86U42


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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
8106PABPN1HTA11_3410_2000001011HumanColorectumAD1.81e-306.98e-010.0155
8106PABPN1HTA11_2487_2000001011HumanColorectumSER1.20e-291.04e+00-0.1808
8106PABPN1HTA11_2951_2000001011HumanColorectumAD1.84e-067.26e-010.0216
8106PABPN1HTA11_1938_2000001011HumanColorectumAD1.40e-391.43e+00-0.0811
8106PABPN1HTA11_78_2000001011HumanColorectumAD1.93e-218.98e-01-0.1088
8106PABPN1HTA11_347_2000001011HumanColorectumAD1.18e-711.41e+00-0.1954
8106PABPN1HTA11_411_2000001011HumanColorectumSER9.96e-121.24e+00-0.2602
8106PABPN1HTA11_2112_2000001011HumanColorectumSER3.60e-201.29e+00-0.2196
8106PABPN1HTA11_3361_2000001011HumanColorectumAD1.37e-201.01e+00-0.1207
8106PABPN1HTA11_83_2000001011HumanColorectumSER7.01e-249.50e-01-0.1526
8106PABPN1HTA11_696_2000001011HumanColorectumAD2.86e-561.23e+00-0.1464
8106PABPN1HTA11_866_2000001011HumanColorectumAD9.57e-378.77e-01-0.1001
8106PABPN1HTA11_1391_2000001011HumanColorectumAD1.99e-481.45e+00-0.059
8106PABPN1HTA11_2992_2000001011HumanColorectumSER3.35e-188.80e-01-0.1706
8106PABPN1HTA11_5212_2000001011HumanColorectumAD2.53e-087.31e-01-0.2061
8106PABPN1HTA11_5216_2000001011HumanColorectumSER6.52e-108.86e-01-0.1462
8106PABPN1HTA11_546_2000001011HumanColorectumAD7.61e-181.01e+00-0.0842
8106PABPN1HTA11_9341_2000001011HumanColorectumSER2.42e-088.97e-01-0.00410000000000005
8106PABPN1HTA11_7862_2000001011HumanColorectumAD4.49e-251.17e+00-0.0179
8106PABPN1HTA11_866_3004761011HumanColorectumAD9.33e-481.21e+000.096
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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
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
GO:000223719EsophagusESCCresponse to molecule of bacterial origin194/8552363/187231.64e-037.61e-03194
GO:007122215EsophagusESCCcellular response to lipopolysaccharide113/8552209/187238.79e-033.10e-02113
GO:007121617EsophagusESCCcellular response to biotic stimulus131/8552246/187239.85e-033.39e-02131
GO:000640312LiverCirrhoticRNA localization94/4634201/187238.57e-125.66e-1094
GO:000691312LiverCirrhoticnucleocytoplasmic transport118/4634301/187231.71e-086.27e-07118
GO:005116912LiverCirrhoticnuclear transport118/4634301/187231.71e-086.27e-07118
GO:005123611LiverCirrhoticestablishment of RNA localization71/4634166/187232.56e-076.41e-0671
GO:005116812LiverCirrhoticnuclear export67/4634154/187232.57e-076.41e-0667
GO:00506576LiverCirrhoticnucleic acid transport69/4634163/187235.97e-071.30e-0569
GO:00506586LiverCirrhoticRNA transport69/4634163/187235.97e-071.30e-0569
GO:00159316LiverCirrhoticnucleobase-containing compound transport87/4634222/187231.25e-062.52e-0587
GO:00510282LiverCirrhoticmRNA transport56/4634130/187233.47e-065.97e-0556
GO:00324966LiverCirrhoticresponse to lipopolysaccharide111/4634343/187238.15e-045.95e-03111
GO:0071166LiverCirrhoticribonucleoprotein complex localization32/463477/187238.65e-046.23e-0332
GO:00064052LiverCirrhoticRNA export from nucleus34/463484/187231.06e-037.40e-0334
GO:0031503LiverCirrhoticprotein-containing complex localization75/4634220/187231.13e-037.73e-0375
GO:0071426LiverCirrhoticribonucleoprotein complex export from nucleus31/463476/187231.49e-039.87e-0331
GO:00022376LiverCirrhoticresponse to molecule of bacterial origin113/4634363/187233.23e-031.81e-02113
GO:00064062LiverCirrhoticmRNA export from nucleus23/463459/187231.08e-024.77e-0223
GO:00714272LiverCirrhoticmRNA-containing ribonucleoprotein complex export from nucleus23/463459/187231.08e-024.77e-0223
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa03015ColorectumADmRNA surveillance pathway35/209297/84657.95e-033.13e-022.00e-0235
hsa030151ColorectumADmRNA surveillance pathway35/209297/84657.95e-033.13e-022.00e-0235
hsa030159EsophagusHGINmRNA surveillance pathway30/138397/84652.48e-042.69e-032.14e-0330
hsa0516420EsophagusHGINInfluenza A42/1383171/84653.41e-032.54e-022.02e-0242
hsa0301514EsophagusHGINmRNA surveillance pathway30/138397/84652.48e-042.69e-032.14e-0330
hsa05164110EsophagusHGINInfluenza A42/1383171/84653.41e-032.54e-022.02e-0242
hsa0516425EsophagusESCCInfluenza A122/4205171/84655.01e-094.79e-082.45e-08122
hsa0301524EsophagusESCCmRNA surveillance pathway72/420597/84656.12e-074.10e-062.10e-0672
hsa0516435EsophagusESCCInfluenza A122/4205171/84655.01e-094.79e-082.45e-08122
hsa0301534EsophagusESCCmRNA surveillance pathway72/420597/84656.12e-074.10e-062.10e-0672
hsa030154LiverCirrhoticmRNA surveillance pathway46/253097/84651.92e-041.30e-038.03e-0446
hsa0516410LiverCirrhoticInfluenza A66/2530171/84658.56e-032.91e-021.79e-0266
hsa0301511LiverCirrhoticmRNA surveillance pathway46/253097/84651.92e-041.30e-038.03e-0446
hsa0516411LiverCirrhoticInfluenza A66/2530171/84658.56e-032.91e-021.79e-0266
hsa0301521LiverHCCmRNA surveillance pathway66/402097/84653.16e-051.88e-041.04e-0466
hsa0516421LiverHCCInfluenza A101/4020171/84651.41e-035.07e-032.82e-03101
hsa0301531LiverHCCmRNA surveillance pathway66/402097/84653.16e-051.88e-041.04e-0466
hsa0516431LiverHCCInfluenza A101/4020171/84651.41e-035.07e-032.82e-03101
hsa030158Oral cavityOSCCmRNA surveillance pathway75/370497/84651.30e-112.01e-101.02e-1075
hsa0516418Oral cavityOSCCInfluenza A116/3704171/84651.23e-101.78e-099.08e-10116
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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
PABPN1SNVMissense_Mutationc.424G>Ap.Glu142Lysp.E142KQ86U42protein_codingtolerated(0.18)benign(0.125)TCGA-BH-A18P-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownPD
PABPN1SNVMissense_Mutationrs201713476c.533N>Gp.Asn178Serp.N178SQ86U42protein_codingdeleterious(0.01)probably_damaging(0.966)TCGA-D8-A27K-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapyadriamycin+cyclophosphamidSD
PABPN1SNVMissense_Mutationnovelc.729N>Tp.Lys243Asnp.K243NQ86U42protein_codingdeleterious(0)possibly_damaging(0.823)TCGA-C5-A7CJ-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinSD
PABPN1SNVMissense_Mutationc.833C>Gp.Ser278Cysp.S278CQ86U42protein_codingtolerated(0.05)benign(0.017)TCGA-IR-A3LK-01Cervixcervical & endocervical cancerFemale>=65I/IIChemotherapycisplatinPD
PABPN1SNVMissense_Mutationc.802N>Tp.Ala268Serp.A268SQ86U42protein_codingtolerated(0.12)benign(0.031)TCGA-DY-A1DG-01Colorectumrectum adenocarcinomaMale>=65I/IIUnknownUnknownPD
PABPN1deletionFrame_Shift_Delc.862delNp.Arg289GlyfsTer24p.R289Gfs*24Q86U42protein_codingTCGA-AA-3966-01Colorectumcolon adenocarcinomaFemale>=65I/IIUnknownUnknownSD
PABPN1SNVMissense_Mutationrs758290474c.805N>Tp.Arg269Trpp.R269WQ86U42protein_codingdeleterious(0.01)probably_damaging(0.988)TCGA-AJ-A3OK-01Endometriumuterine corpus endometrioid carcinomaFemale>=65I/IIChemotherapycarboplatinCR
PABPN1SNVMissense_Mutationc.411N>Tp.Lys137Asnp.K137NQ86U42protein_codingdeleterious(0.02)possibly_damaging(0.885)TCGA-D1-A103-01Endometriumuterine corpus endometrioid carcinomaFemale>=65I/IIUnknownUnknownSD
PABPN1SNVMissense_Mutationc.872N>Ap.Arg291Hisp.R291HQ86U42protein_codingtolerated(0.08)probably_damaging(0.987)TCGA-D1-A103-01Endometriumuterine corpus endometrioid carcinomaFemale>=65I/IIUnknownUnknownSD
PABPN1SNVMissense_Mutationnovelc.559N>Ap.Glu187Lysp.E187KQ86U42protein_codingdeleterious(0)probably_damaging(0.954)TCGA-DF-A2KU-01Endometriumuterine corpus endometrioid carcinomaFemaleUnknownI/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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