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: SEMA6B

Gene summary for SEMA6B

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

SEMA6B

Gene ID

10501

Gene namesemaphorin 6B
Gene AliasEPM11
Cytomap19p13.3
Gene Typeprotein-coding
GO ID

GO:0000902

UniProtAcc

Q9H3T3


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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
10501SEMA6BATC12HumanThyroidATC1.21e-041.21e-010.34
10501SEMA6BATC13HumanThyroidATC3.90e-234.05e-010.34
10501SEMA6BATC2HumanThyroidATC5.90e-109.53e-010.34
10501SEMA6BATC4HumanThyroidATC2.34e-041.25e-010.34
10501SEMA6BATC5HumanThyroidATC1.65e-234.48e-010.34
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check button Transcriptomic changes along malignancy continuum.
TissueExpression DynamicsAbbreviation
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:001604927ThyroidATCcell growth241/6293482/187234.27e-142.35e-12241
GO:003253526ThyroidATCregulation of cellular component size191/6293383/187232.51e-118.69e-10191
GO:000166731ThyroidATCameboidal-type cell migration228/6293475/187233.72e-111.22e-09228
GO:000155826ThyroidATCregulation of cell growth201/6293414/187231.57e-104.76e-09201
GO:001097523ThyroidATCregulation of neuron projection development212/6293445/187234.16e-101.14e-08212
GO:006156423ThyroidATCaxon development220/6293467/187236.85e-101.80e-08220
GO:000740919ThyroidATCaxonogenesis197/6293418/187235.09e-091.13e-07197
GO:004867522ThyroidATCaxon extension68/6293120/187231.73e-072.75e-0668
GO:005076723ThyroidATCregulation of neurogenesis168/6293364/187233.73e-075.48e-06168
GO:004876221ThyroidATCmesenchymal cell differentiation116/6293236/187235.08e-077.30e-06116
GO:199013824ThyroidATCneuron projection extension89/6293172/187236.63e-079.13e-0689
GO:004858823ThyroidATCdevelopmental cell growth114/6293234/187231.11e-061.44e-05114
GO:006056019ThyroidATCdevelopmental growth involved in morphogenesis114/6293234/187231.11e-061.44e-05114
GO:005077011ThyroidATCregulation of axonogenesis80/6293154/187231.95e-062.34e-0580
GO:006048521ThyroidATCmesenchyme development136/6293291/187232.04e-062.43e-05136
GO:005196014ThyroidATCregulation of nervous system development195/6293443/187232.62e-063.06e-05195
GO:000836122ThyroidATCregulation of cell size89/6293181/187231.01e-051.00e-0489
GO:004592622ThyroidATCnegative regulation of growth115/6293249/187232.34e-052.06e-04115
GO:003030813ThyroidATCnegative regulation of cell growth90/6293188/187233.35e-052.78e-0490
GO:004886321ThyroidATCstem cell differentiation97/6293206/187233.88e-053.15e-0497
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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
SEMA6BPLXNA2SEMA6B_PLXNA2SEMA6BreastHealthy
SEMA6BPLXNA2SEMA6B_PLXNA2SEMA6CervixCC
SEMA6BPLXNA2SEMA6B_PLXNA2SEMA6EndometriumADJ
SEMA6BPLXNA4SEMA6B_PLXNA4SEMA6EndometriumADJ
SEMA6BPLXNA2SEMA6B_PLXNA2SEMA6EndometriumAEH
SEMA6BPLXNA4SEMA6B_PLXNA4SEMA6EndometriumAEH
SEMA6BPLXNA2SEMA6B_PLXNA2SEMA6EndometriumEEC
SEMA6BPLXNA2SEMA6B_PLXNA2SEMA6EsophagusESCC
SEMA6BPLXNA2SEMA6B_PLXNA2SEMA6HNSCCOSCC
SEMA6BPLXNA2SEMA6B_PLXNA2SEMA6HNSCCPrecancer
SEMA6BPLXNA2SEMA6B_PLXNA2SEMA6LiverHCC
SEMA6BPLXNA2SEMA6B_PLXNA2SEMA6LungAAH
SEMA6BPLXNA4SEMA6B_PLXNA4SEMA6LungAAH
SEMA6BPLXNA2SEMA6B_PLXNA2SEMA6ProstateBPH
SEMA6BPLXNA2SEMA6B_PLXNA2SEMA6SkincSCC
SEMA6BPLXNA4SEMA6B_PLXNA4SEMA6THCACancer
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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
SEMA6BSNVMissense_Mutationnovelc.1100A>Cp.Glu367Alap.E367AQ9H3T3protein_codingdeleterious(0)possibly_damaging(0.656)TCGA-AR-A0TY-01Breastbreast invasive carcinomaFemale<65I/IIUnspecificPaclitaxelPD
SEMA6BinsertionIn_Frame_Insnovelc.753_754insCCACCACGCCCGGCCAAGAGTTTCTTCp.Glu251_Phe252insProProArgProAlaLysSerPhePhep.E251_F252insPPRPAKSFFQ9H3T3protein_codingTCGA-AQ-A04J-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapycytoxanSD
SEMA6BdeletionFrame_Shift_Delc.826delNp.Arg276AlafsTer11p.R276Afs*11Q9H3T3protein_codingTCGA-BH-A0HA-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownSD
SEMA6BdeletionFrame_Shift_Delnovelc.1308delNp.Gly437AlafsTer63p.G437Afs*63Q9H3T3protein_codingTCGA-EW-A2FV-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapydocetaxelSD
SEMA6BSNVMissense_Mutationrs186951396c.1358C>Tp.Thr453Metp.T453MQ9H3T3protein_codingtolerated(0.09)probably_damaging(0.971)TCGA-EA-A3HU-01Cervixcervical & endocervical cancerFemale<65I/IIUnknownUnknownSD
SEMA6BSNVMissense_Mutationnovelc.1450G>Ap.Asp484Asnp.D484NQ9H3T3protein_codingtolerated(0.32)possibly_damaging(0.449)TCGA-ZJ-AB0H-01Cervixcervical & endocervical cancerFemale<65III/IVUnknownUnknownSD
SEMA6BdeletionFrame_Shift_Delc.826delCp.Arg276AlafsTer11p.R276Afs*11Q9H3T3protein_codingTCGA-EA-A410-01Cervixcervical & endocervical cancerFemale<65I/IIUnknownUnknownSD
SEMA6BSNVMissense_Mutationc.1832N>Tp.Ala611Valp.A611VQ9H3T3protein_codingdeleterious(0.01)probably_damaging(0.986)TCGA-A6-5661-01Colorectumcolon adenocarcinomaFemale>=65I/IIUnknownUnknownSD
SEMA6BSNVMissense_Mutationrs769299847c.1126N>Ap.Gly376Argp.G376RQ9H3T3protein_codingdeleterious(0)probably_damaging(1)TCGA-A6-6781-01Colorectumcolon adenocarcinomaMale<65III/IVChemotherapyoxaliplatinSD
SEMA6BSNVMissense_Mutationc.1852N>Ap.Val618Metp.V618MQ9H3T3protein_codingdeleterious(0.03)possibly_damaging(0.461)TCGA-AA-3492-01Colorectumcolon adenocarcinomaFemale>=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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