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: TMEM129

Gene summary for TMEM129

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

TMEM129

Gene ID

92305

Gene nametransmembrane protein 129, E3 ubiquitin ligase
Gene AliasD4S2561E
Cytomap4p16.3
Gene Typeprotein-coding
GO ID

GO:0000209

UniProtAcc

A0AVI4


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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
92305TMEM129HTA11_347_2000001011HumanColorectumAD4.84e-072.10e-01-0.1954
92305TMEM129HTA11_696_2000001011HumanColorectumAD1.20e-032.33e-01-0.1464
92305TMEM129HTA11_1391_2000001011HumanColorectumAD6.39e-083.67e-01-0.059
92305TMEM129HTA11_866_3004761011HumanColorectumAD1.31e-042.02e-010.096
92305TMEM129HTA11_8622_2000001021HumanColorectumSER1.00e-022.84e-010.0528
92305TMEM129HTA11_10623_2000001011HumanColorectumAD2.85e-065.20e-01-0.0177
92305TMEM129HTA11_6801_2000001011HumanColorectumSER1.93e-065.54e-010.0171
92305TMEM129HTA11_7696_3000711011HumanColorectumAD3.31e-083.24e-010.0674
92305TMEM129HTA11_99999971662_82457HumanColorectumMSS2.13e-123.79e-010.3859
92305TMEM129HTA11_99999974143_84620HumanColorectumMSS3.35e-083.25e-010.3005
92305TMEM129C21HumanOral cavityOSCC3.13e-083.95e-010.2678
92305TMEM129C30HumanOral cavityOSCC7.85e-251.05e+000.3055
92305TMEM129C38HumanOral cavityOSCC5.85e-107.38e-010.172
92305TMEM129C43HumanOral cavityOSCC2.98e-234.80e-010.1704
92305TMEM129C46HumanOral cavityOSCC2.71e-174.72e-010.1673
92305TMEM129C51HumanOral cavityOSCC1.61e-167.25e-010.2674
92305TMEM129C57HumanOral cavityOSCC2.96e-022.28e-010.1679
92305TMEM129C06HumanOral cavityOSCC4.12e-038.85e-010.2699
92305TMEM129C08HumanOral cavityOSCC3.31e-082.37e-010.1919
92305TMEM129C09HumanOral cavityOSCC1.52e-032.33e-010.1431
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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
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
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:0010498ColorectumADproteasomal protein catabolic process174/3918490/187233.18e-147.66e-12174
GO:0043161ColorectumADproteasome-mediated ubiquitin-dependent protein catabolic process141/3918412/187231.77e-101.68e-08141
GO:0034976ColorectumADresponse to endoplasmic reticulum stress90/3918256/187238.48e-084.28e-0690
GO:0000209ColorectumADprotein polyubiquitination78/3918236/187238.71e-062.06e-0478
GO:0035966ColorectumADresponse to topologically incorrect protein54/3918159/187238.85e-051.36e-0354
GO:0006986ColorectumADresponse to unfolded protein45/3918137/187237.43e-047.48e-0345
GO:0036503ColorectumADERAD pathway34/3918107/187235.57e-033.63e-0234
GO:00104981ColorectumSERproteasomal protein catabolic process132/2897490/187233.08e-115.55e-09132
GO:00349761ColorectumSERresponse to endoplasmic reticulum stress74/2897256/187233.01e-082.05e-0674
GO:00431611ColorectumSERproteasome-mediated ubiquitin-dependent protein catabolic process105/2897412/187237.48e-084.70e-06105
GO:00359661ColorectumSERresponse to topologically incorrect protein46/2897159/187231.14e-053.63e-0446
GO:00069861ColorectumSERresponse to unfolded protein38/2897137/187231.68e-043.16e-0338
GO:00002091ColorectumSERprotein polyubiquitination58/2897236/187231.69e-043.18e-0358
GO:0030970ColorectumSERretrograde protein transport, ER to cytosol12/289729/187237.22e-049.44e-0312
GO:1903513ColorectumSERendoplasmic reticulum to cytosol transport12/289729/187237.22e-049.44e-0312
GO:00365031ColorectumSERERAD pathway28/2897107/187232.92e-032.59e-0228
GO:0032527ColorectumSERprotein exit from endoplasmic reticulum15/289748/187234.60e-033.64e-0215
GO:00104982ColorectumMSSproteasomal protein catabolic process157/3467490/187232.39e-135.25e-11157
GO:00431612ColorectumMSSproteasome-mediated ubiquitin-dependent protein catabolic process127/3467412/187237.70e-106.32e-08127
GO:00349762ColorectumMSSresponse to endoplasmic reticulum stress81/3467256/187232.65e-071.10e-0581
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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
TMEM129SNVMissense_Mutationc.584N>Ap.Arg195Glnp.R195QA0AVI4protein_codingtolerated(0.54)benign(0.001)TCGA-EA-A5O9-01Cervixcervical & endocervical cancerFemale<65I/IIUnknownUnknownSD
TMEM129SNVMissense_Mutationrs11945830c.301N>Ap.Val101Metp.V101MA0AVI4protein_codingdeleterious(0.03)benign(0.354)TCGA-AD-6895-01Colorectumcolon adenocarcinomaMale>=65III/IVUnknownUnknownSD
TMEM129SNVMissense_Mutationc.944N>Ap.Arg315Hisp.R315HA0AVI4protein_codingtolerated(0.05)possibly_damaging(0.511)TCGA-CM-6674-01Colorectumcolon adenocarcinomaMale<65I/IIUnknownUnknownSD
TMEM129deletionFrame_Shift_Delc.368delNp.Pro123HisfsTer42p.P123Hfs*42A0AVI4protein_codingTCGA-G4-6302-01Colorectumcolon adenocarcinomaFemale>=65I/IIUnknownUnknownSD
TMEM129SNVMissense_Mutationnovelc.266C>Ap.Ala89Aspp.A89DA0AVI4protein_codingtolerated(0.21)benign(0.327)TCGA-A5-A2K3-01Endometriumuterine corpus endometrioid carcinomaFemale>=65I/IIChemotherapycarboplatinSD
TMEM129SNVMissense_Mutationrs781162476c.541G>Ap.Val181Metp.V181MA0AVI4protein_codingtolerated(0.17)benign(0.172)TCGA-AX-A1C4-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIUnknownUnknownSD
TMEM129SNVMissense_Mutationnovelc.1055G>Ap.Arg352Hisp.R352HA0AVI4protein_codingdeleterious(0.04)possibly_damaging(0.616)TCGA-B5-A3FC-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIUnknownUnknownSD
TMEM129SNVMissense_Mutationnovelc.544N>Ap.Ala182Thrp.A182TA0AVI4protein_codingdeleterious(0.03)probably_damaging(0.989)TCGA-DI-A1BU-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIChemotherapypaclitaxelSD
TMEM129SNVMissense_Mutationnovelc.544N>Ap.Ala182Thrp.A182TA0AVI4protein_codingdeleterious(0.03)probably_damaging(0.989)TCGA-EO-A22S-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIUnknownUnknownSD
TMEM129SNVMissense_Mutationc.944G>Ap.Arg315Hisp.R315HA0AVI4protein_codingtolerated(0.05)possibly_damaging(0.511)TCGA-EO-A22U-01Endometriumuterine corpus endometrioid carcinomaFemale>=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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