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: RAE1

Gene summary for RAE1

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

RAE1

Gene ID

8480

Gene nameribonucleic acid export 1
Gene AliasGle2
Cytomap20q13.31
Gene Typeprotein-coding
GO ID

GO:0000226

UniProtAcc

P78406


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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
8480RAE1LZE2THumanEsophagusESCC5.77e-056.50e-010.082
8480RAE1LZE4THumanEsophagusESCC5.68e-215.66e-010.0811
8480RAE1LZE7THumanEsophagusESCC1.10e-065.73e-010.0667
8480RAE1LZE8THumanEsophagusESCC5.42e-041.89e-010.067
8480RAE1LZE20THumanEsophagusESCC2.08e-124.13e-010.0662
8480RAE1LZE22THumanEsophagusESCC1.01e-022.76e-010.068
8480RAE1LZE24THumanEsophagusESCC5.60e-153.52e-010.0596
8480RAE1LZE21THumanEsophagusESCC8.80e-042.79e-010.0655
8480RAE1LZE6THumanEsophagusESCC4.17e-022.68e-010.0845
8480RAE1P1T-EHumanEsophagusESCC3.04e-155.42e-010.0875
8480RAE1P2T-EHumanEsophagusESCC2.95e-497.53e-010.1177
8480RAE1P4T-EHumanEsophagusESCC1.48e-225.23e-010.1323
8480RAE1P5T-EHumanEsophagusESCC2.48e-264.51e-010.1327
8480RAE1P8T-EHumanEsophagusESCC4.70e-213.80e-010.0889
8480RAE1P9T-EHumanEsophagusESCC2.40e-132.98e-010.1131
8480RAE1P10T-EHumanEsophagusESCC2.76e-609.80e-010.116
8480RAE1P11T-EHumanEsophagusESCC5.18e-177.60e-010.1426
8480RAE1P12T-EHumanEsophagusESCC2.00e-591.11e+000.1122
8480RAE1P15T-EHumanEsophagusESCC1.69e-449.39e-010.1149
8480RAE1P16T-EHumanEsophagusESCC7.25e-621.09e+000.1153
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check button Transcriptomic changes along malignancy continuum.
TissueExpression DynamicsAbbreviation
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
∗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:0006913110EsophagusESCCnucleocytoplasmic transport230/8552301/187236.04e-282.02e-25230
GO:0051169110EsophagusESCCnuclear transport230/8552301/187236.04e-282.02e-25230
GO:0006403110EsophagusESCCRNA localization166/8552201/187231.95e-276.18e-25166
GO:005123617EsophagusESCCestablishment of RNA localization134/8552166/187231.23e-201.81e-18134
GO:0051168110EsophagusESCCnuclear export126/8552154/187231.88e-202.65e-18126
GO:005102815EsophagusESCCmRNA transport110/8552130/187232.76e-203.80e-18110
GO:005065717EsophagusESCCnucleic acid transport131/8552163/187236.94e-208.46e-18131
GO:005065817EsophagusESCCRNA transport131/8552163/187236.94e-208.46e-18131
GO:001593117EsophagusESCCnucleobase-containing compound transport162/8552222/187239.87e-177.93e-15162
GO:190285015EsophagusESCCmicrotubule cytoskeleton organization involved in mitosis116/8552147/187231.25e-169.91e-15116
GO:000705214EsophagusESCCmitotic spindle organization97/8552120/187232.17e-151.33e-1397
GO:000705114EsophagusESCCspindle organization134/8552184/187235.70e-142.87e-12134
GO:007116612EsophagusESCCribonucleoprotein complex localization66/855277/187232.94e-131.38e-1166
GO:007142612EsophagusESCCribonucleoprotein complex export from nucleus65/855276/187235.56e-132.50e-1165
GO:000640512EsophagusESCCRNA export from nucleus68/855284/187232.99e-111.01e-0968
GO:00064064EsophagusESCCmRNA export from nucleus51/855259/187237.98e-112.47e-0951
GO:00714274EsophagusESCCmRNA-containing ribonucleoprotein complex export from nucleus51/855259/187237.98e-112.47e-0951
GO:003150314EsophagusESCCprotein-containing complex localization139/8552220/187231.14e-071.85e-06139
GO:00705078EsophagusESCCregulation of microtubule cytoskeleton organization99/8552148/187231.43e-072.29e-0699
GO:009022413EsophagusESCCregulation of spindle organization32/855239/187233.27e-063.65e-0532
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa05014210EsophagusESCCAmyotrophic lateral sclerosis266/4205364/84651.31e-202.20e-181.13e-18266
hsa0301321EsophagusESCCNucleocytoplasmic transport89/4205108/84651.20e-122.37e-111.21e-1189
hsa0516425EsophagusESCCInfluenza A122/4205171/84655.01e-094.79e-082.45e-08122
hsa0501438EsophagusESCCAmyotrophic lateral sclerosis266/4205364/84651.31e-202.20e-181.13e-18266
hsa0301331EsophagusESCCNucleocytoplasmic transport89/4205108/84651.20e-122.37e-111.21e-1189
hsa0516435EsophagusESCCInfluenza A122/4205171/84655.01e-094.79e-082.45e-08122
hsa0501422LiverHCCAmyotrophic lateral sclerosis252/4020364/84658.85e-187.41e-164.12e-16252
hsa03013LiverHCCNucleocytoplasmic transport81/4020108/84654.28e-096.83e-083.80e-0881
hsa0516421LiverHCCInfluenza A101/4020171/84651.41e-035.07e-032.82e-03101
hsa0501432LiverHCCAmyotrophic lateral sclerosis252/4020364/84658.85e-187.41e-164.12e-16252
hsa030131LiverHCCNucleocytoplasmic transport81/4020108/84654.28e-096.83e-083.80e-0881
hsa0516431LiverHCCInfluenza A101/4020171/84651.41e-035.07e-032.82e-03101
hsa0501428Oral cavityOSCCAmyotrophic lateral sclerosis246/3704364/84656.65e-211.11e-185.67e-19246
hsa030136Oral cavityOSCCNucleocytoplasmic transport82/3704108/84657.93e-121.33e-106.77e-1182
hsa0516418Oral cavityOSCCInfluenza A116/3704171/84651.23e-101.78e-099.08e-10116
hsa05014112Oral cavityOSCCAmyotrophic lateral sclerosis246/3704364/84656.65e-211.11e-185.67e-19246
hsa0301311Oral cavityOSCCNucleocytoplasmic transport82/3704108/84657.93e-121.33e-106.77e-1182
hsa0516419Oral cavityOSCCInfluenza A116/3704171/84651.23e-101.78e-099.08e-10116
hsa0501429Oral cavityLPAmyotrophic lateral sclerosis197/2418364/84651.25e-251.39e-238.93e-24197
hsa0516424Oral cavityLPInfluenza A80/2418171/84652.56e-073.41e-062.20e-0680
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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
RAE1SNVMissense_Mutationc.961N>Ap.Cys321Serp.C321SP78406protein_codingtolerated(0.45)possibly_damaging(0.72)TCGA-A2-A0YJ-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapycytoxanPD
RAE1SNVMissense_Mutationc.971N>Gp.Asn324Serp.N324SP78406protein_codingtolerated(0.07)benign(0.003)TCGA-A8-A06Z-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
RAE1SNVMissense_Mutationnovelc.782N>Ap.Arg261Glnp.R261QP78406protein_codingdeleterious(0)probably_damaging(0.999)TCGA-AN-A046-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
RAE1SNVMissense_Mutationnovelc.1067N>Ap.Arg356Hisp.R356HP78406protein_codingtolerated(1)benign(0.035)TCGA-AQ-A04H-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapytaxotereSD
RAE1SNVMissense_Mutationrs780225824c.370N>Ap.Ala124Thrp.A124TP78406protein_codingdeleterious(0.01)possibly_damaging(0.901)TCGA-EW-A1IZ-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapytaxotereSD
RAE1SNVMissense_Mutationrs758243618c.199N>Tp.Arg67Cysp.R67CP78406protein_codingdeleterious(0)probably_damaging(0.996)TCGA-EA-A439-01Cervixcervical & endocervical cancerFemale<65I/IIUnknownUnknownPD
RAE1SNVMissense_Mutationc.511N>Ap.Glu171Lysp.E171KP78406protein_codingdeleterious(0)probably_damaging(0.995)TCGA-VS-A8QF-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
RAE1SNVMissense_Mutationc.947N>Gp.Gln316Argp.Q316RP78406protein_codingtolerated(0.43)possibly_damaging(0.698)TCGA-AA-A02R-01Colorectumcolon adenocarcinomaFemale>=65I/IIUnknownUnknownPD
RAE1SNVMissense_Mutationc.854N>Gp.His285Argp.H285RP78406protein_codingdeleterious(0.02)possibly_damaging(0.885)TCGA-D5-6530-01Colorectumcolon adenocarcinomaMale<65I/IIUnknownUnknownSD
RAE1SNVMissense_Mutationc.41N>Ap.Gly14Glup.G14EP78406protein_codingdeleterious(0.02)probably_damaging(0.995)TCGA-DM-A1DA-01Colorectumcolon adenocarcinomaFemale>=65III/IVUnknownUnknownSD
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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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