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: ATE1

Gene summary for ATE1

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

ATE1

Gene ID

11101

Gene namearginyltransferase 1
Gene AliasATE1
Cytomap10q26.13
Gene Typeprotein-coding
GO ID

GO:0006464

UniProtAcc

B3KWA3


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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
11101ATE1SYSMH3HumanOral cavityOSCC2.66e-093.14e-010.2442
11101ATE1HTA12-26-1HumanPancreasPDAC9.00e-148.33e-010.3728
11101ATE1HTA12-29-1HumanPancreasPDAC2.05e-195.72e-010.3722
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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
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
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
∗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:0010498ColorectumADproteasomal protein catabolic process174/3918490/187233.18e-147.66e-12174
GO:00104982ColorectumMSSproteasomal protein catabolic process157/3467490/187232.39e-135.25e-11157
GO:00104984ColorectumFAPproteasomal protein catabolic process110/2622490/187232.12e-071.26e-05110
GO:00104985ColorectumCRCproteasomal protein catabolic process77/2078490/187231.03e-031.21e-0277
GO:001049816EndometriumAEHproteasomal protein catabolic process108/2100490/187232.73e-124.67e-10108
GO:001049817EndometriumEECproteasomal protein catabolic process112/2168490/187236.99e-131.40e-10112
GO:0010498111EsophagusESCCproteasomal protein catabolic process369/8552490/187231.13e-411.80e-38369
GO:00104987LiverNAFLDproteasomal protein catabolic process101/1882490/187231.35e-126.09e-10101
GO:001049822LiverHCCproteasomal protein catabolic process351/7958490/187236.92e-401.46e-36351
GO:00104988LungIACproteasomal protein catabolic process90/2061490/187236.69e-073.89e-0590
GO:001049813LungAISproteasomal protein catabolic process87/1849490/187234.15e-085.03e-0687
GO:001049820Oral cavityOSCCproteasomal protein catabolic process336/7305490/187235.45e-418.63e-38336
GO:001049825Oral cavityEOLPproteasomal protein catabolic process108/2218490/187237.79e-119.51e-09108
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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
ATE1SNVMissense_Mutationnovelc.763N>Ap.Glu255Lysp.E255KO95260protein_codingdeleterious(0)probably_damaging(0.919)TCGA-AN-A046-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
ATE1insertionIn_Frame_Insnovelc.1436_1437insAGTTAATATAAAGATTTTAAAACTGCATTATGACCTAGCCCCp.Ile479_Met480insValAsnIleLysIleLeuLysLeuHisTyrAspLeuAlaProp.I479_M480insVNIKILKLHYDLAPO95260protein_codingTCGA-A7-A0CE-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapyadriamycinSD
ATE1SNVMissense_Mutationc.1276G>Ap.Asp426Asnp.D426NO95260protein_codingtolerated(0.06)probably_damaging(0.993)TCGA-IR-A3LA-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
ATE1SNVMissense_Mutationc.756N>Cp.Lys252Asnp.K252NO95260protein_codingdeleterious(0)probably_damaging(0.959)TCGA-AA-3510-01Colorectumcolon adenocarcinomaMale>=65I/IIUnknownUnknownSD
ATE1SNVMissense_Mutationc.856N>Tp.Ala286Serp.A286SO95260protein_codingtolerated(0.42)benign(0.006)TCGA-AA-A010-01Colorectumcolon adenocarcinomaFemale<65I/IIChemotherapyfolinicCR
ATE1SNVMissense_Mutationrs749513221c.1391G>Ap.Arg464Hisp.R464HO95260protein_codingtolerated(0.58)benign(0.003)TCGA-AZ-4315-01Colorectumcolon adenocarcinomaMale<65I/IIUnknownUnknownSD
ATE1SNVMissense_Mutationrs755232792c.1372N>Ap.Glu458Lysp.E458KO95260protein_codingtolerated(0.77)benign(0)TCGA-AZ-6601-01Colorectumcolon adenocarcinomaMale>=65I/IIUnknownUnknownPD
ATE1SNVMissense_Mutationrs767594848c.1235C>Tp.Ser412Leup.S412LO95260protein_codingdeleterious(0)probably_damaging(0.974)TCGA-WS-AB45-01Colorectumcolon adenocarcinomaFemale<65I/IIUnknownUnknownSD
ATE1SNVMissense_Mutationc.380N>Cp.Asp127Alap.D127AO95260protein_codingtolerated(0.07)benign(0.164)TCGA-AG-3892-01Colorectumrectum adenocarcinomaFemale<65I/IIUnknownUnknownSD
ATE1SNVMissense_Mutationnovelc.1294N>Gp.Thr432Alap.T432AO95260protein_codingdeleterious(0.04)possibly_damaging(0.801)TCGA-EI-6917-01Colorectumrectum adenocarcinomaMale<65III/IVChemotherapy5fluorouracil+oxaciplatina+l-folinianSD
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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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