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: TMEM5

Gene summary for TMEM5

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

TMEM5

Gene ID

10329

Gene nameribitol xylosyltransferase 1
Gene AliasHP10481
Cytomap12q14.2
Gene Typeprotein-coding
GO ID

GO:0006464

UniProtAcc

G3V1K2


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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
10329TMEM5C06HumanOral cavityOSCC9.32e-046.98e-010.2699
10329TMEM5C07HumanOral cavityOSCC2.53e-091.20e+000.2491
10329TMEM5C08HumanOral cavityOSCC2.36e-378.03e-010.1919
10329TMEM5C09HumanOral cavityOSCC2.69e-073.13e-010.1431
10329TMEM5LN46HumanOral cavityOSCC2.16e-074.28e-010.1666
10329TMEM5LP15HumanOral cavityLP3.76e-058.78e-010.2174
10329TMEM5SYSMH2HumanOral cavityOSCC5.05e-164.63e-010.2326
10329TMEM5SYSMH3HumanOral cavityOSCC7.16e-235.59e-010.2442
10329TMEM5SYSMH6HumanOral cavityOSCC1.46e-052.59e-010.1275
10329TMEM5P1_cSCCHumanSkincSCC3.78e-145.63e-010.0292
10329TMEM5P2_cSCCHumanSkincSCC4.52e-113.54e-01-0.024
10329TMEM5P4_cSCCHumanSkincSCC1.51e-163.90e-01-0.00290000000000005
10329TMEM5P10_cSCCHumanSkincSCC3.35e-175.24e-010.1017
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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
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:00458619BreastPrecancernegative regulation of proteolysis50/1080351/187232.99e-092.39e-0750
GO:00098969BreastPrecancerpositive regulation of catabolic process48/1080492/187232.62e-043.84e-0348
GO:00313319BreastPrecancerpositive regulation of cellular catabolic process43/1080427/187232.75e-044.00e-0343
GO:19043757BreastPrecancerregulation of protein localization to cell periphery15/1080125/187235.58e-034.07e-0215
GO:19054757BreastPrecancerregulation of protein localization to membrane19/1080175/187235.98e-034.22e-0219
GO:00516047BreastPrecancerprotein maturation28/1080294/187236.45e-034.50e-0228
GO:19030767BreastPrecancerregulation of protein localization to plasma membrane13/1080104/187236.79e-034.65e-0213
GO:004586114BreastIDCnegative regulation of proteolysis70/1434351/187238.21e-142.22e-1170
GO:000989614BreastIDCpositive regulation of catabolic process62/1434492/187237.06e-051.42e-0362
GO:190547513BreastIDCregulation of protein localization to membrane28/1434175/187231.56e-042.71e-0328
GO:003133114BreastIDCpositive regulation of cellular catabolic process54/1434427/187231.85e-043.07e-0354
GO:190307613BreastIDCregulation of protein localization to plasma membrane17/1434104/187232.28e-032.09e-0217
GO:190437513BreastIDCregulation of protein localization to cell periphery19/1434125/187233.06e-032.60e-0219
GO:005160413BreastIDCprotein maturation35/1434294/187236.18e-034.40e-0235
GO:00726599BreastIDCprotein localization to plasma membrane34/1434284/187236.33e-034.47e-0234
GO:004586123BreastDCISnegative regulation of proteolysis63/1390351/187234.39e-116.06e-0963
GO:000989624BreastDCISpositive regulation of catabolic process61/1390492/187235.32e-051.09e-0361
GO:003133124BreastDCISpositive regulation of cellular catabolic process54/1390427/187238.34e-051.58e-0354
GO:190547522BreastDCISregulation of protein localization to membrane26/1390175/187235.31e-046.88e-0326
GO:190307623BreastDCISregulation of protein localization to plasma membrane16/1390104/187234.13e-033.27e-0216
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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
TMEM5SNVMissense_Mutationnovelc.1220N>Cp.Lys407Thrp.K407TQ9Y2B1protein_codingdeleterious(0.01)probably_damaging(0.961)TCGA-AN-A046-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
TMEM5SNVMissense_Mutationc.287N>Tp.Thr96Ilep.T96IQ9Y2B1protein_codingtolerated(0.11)benign(0.003)TCGA-BH-A0HF-01Breastbreast invasive carcinomaFemale>=65I/IIHormone TherapyarimidexSD
TMEM5SNVMissense_Mutationnovelc.739G>Ap.Ala247Thrp.A247TQ9Y2B1protein_codingdeleterious(0)probably_damaging(0.998)TCGA-OL-A6VQ-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownSD
TMEM5SNVMissense_Mutationnovelc.239G>Ap.Arg80Lysp.R80KQ9Y2B1protein_codingtolerated(0.38)benign(0.009)TCGA-JW-A5VL-01Cervixcervical & endocervical cancerFemale<65I/IIUnknownUnknownSD
TMEM5SNVMissense_Mutationrs570064856c.154G>Cp.Glu52Glnp.E52QQ9Y2B1protein_codingtolerated(0.39)benign(0.221)TCGA-VS-A9UU-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
TMEM5SNVMissense_Mutationc.559N>Gp.Leu187Valp.L187VQ9Y2B1protein_codingdeleterious(0)possibly_damaging(0.861)TCGA-AA-3977-01Colorectumcolon adenocarcinomaMale>=65I/IIUnknownUnknownSD
TMEM5SNVMissense_Mutationc.559N>Gp.Leu187Valp.L187VQ9Y2B1protein_codingdeleterious(0)possibly_damaging(0.861)TCGA-CA-6717-01Colorectumcolon adenocarcinomaMale<65I/IIChemotherapyoxaliplatinCR
TMEM5SNVMissense_Mutationnovelc.724N>Cp.Trp242Argp.W242RQ9Y2B1protein_codingdeleterious(0)probably_damaging(0.999)TCGA-AG-A002-01Colorectumrectum adenocarcinomaMale<65I/IIUnknownUnknownSD
TMEM5SNVMissense_Mutationnovelc.1133N>Tp.Ser378Phep.S378FQ9Y2B1protein_codingdeleterious(0.02)possibly_damaging(0.568)TCGA-A5-A2K5-01Endometriumuterine corpus endometrioid carcinomaFemale>=65I/IIUnknownUnknownSD
TMEM5SNVMissense_Mutationnovelc.316G>Ap.Ala106Thrp.A106TQ9Y2B1protein_codingdeleterious(0.03)probably_damaging(0.998)TCGA-AJ-A2QO-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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