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: SCX

Gene summary for SCX

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

SCX

Gene ID

642658

Gene namescleraxis bHLH transcription factor
Gene AliasSCXA
Cytomap8q24.3
Gene Typeprotein-coding
GO ID

GO:0000003

UniProtAcc

Q7RTU7


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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
642658SCXmale-WTAHumanThyroidPTC1.84e-476.68e-010.1037
642658SCXfemale-WTAHumanThyroidPTC2.41e-034.05e-010.0726
642658SCXPTC01HumanThyroidPTC4.81e-094.84e-010.1899
642658SCXPTC03HumanThyroidPTC1.38e-078.39e-010.1784
642658SCXPTC04HumanThyroidPTC1.08e-178.71e-010.1927
642658SCXPTC05HumanThyroidPTC7.86e-231.20e+000.2065
642658SCXPTC06HumanThyroidPTC4.51e-632.03e+000.2057
642658SCXPTC07HumanThyroidPTC1.71e-641.51e+000.2044
642658SCXATC13HumanThyroidATC1.44e-228.69e-010.34
642658SCXATC5HumanThyroidATC6.53e-289.02e-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:0071496113ThyroidPTCcellular response to external stimulus158/5968320/187234.12e-111.47e-09158
GO:007155919ThyroidPTCresponse to transforming growth factor beta131/5968256/187239.20e-113.17e-09131
GO:007156019ThyroidPTCcellular response to transforming growth factor beta stimulus126/5968250/187237.34e-102.19e-08126
GO:0071214111ThyroidPTCcellular response to abiotic stimulus158/5968331/187239.90e-102.89e-08158
GO:0104004111ThyroidPTCcellular response to environmental stimulus158/5968331/187239.90e-102.89e-08158
GO:0001503110ThyroidPTCossification176/5968408/187239.26e-071.40e-05176
GO:000717819ThyroidPTCtransmembrane receptor protein serine/threonine kinase signaling pathway156/5968355/187231.02e-061.51e-05156
GO:0009612110ThyroidPTCresponse to mechanical stimulus98/5968216/187232.09e-052.09e-0498
GO:007126016ThyroidPTCcellular response to mechanical stimulus44/596881/187232.34e-052.33e-0444
GO:000736910ThyroidPTCgastrulation84/5968185/187237.58e-056.52e-0484
GO:0061458112ThyroidPTCreproductive system development173/5968427/187238.70e-057.23e-04173
GO:0048608111ThyroidPTCreproductive structure development170/5968424/187231.86e-041.41e-03170
GO:00603486ThyroidPTCbone development90/5968205/187231.89e-041.42e-0390
GO:00017046ThyroidPTCformation of primary germ layer57/5968121/187233.23e-042.23e-0357
GO:00301986ThyroidPTCextracellular matrix organization124/5968301/187233.75e-042.53e-03124
GO:00430626ThyroidPTCextracellular structure organization124/5968302/187234.38e-042.92e-03124
GO:00452296ThyroidPTCexternal encapsulating structure organization124/5968304/187235.96e-043.79e-03124
GO:00603244ThyroidPTCface development24/596844/187231.52e-038.49e-0324
GO:00603255ThyroidPTCface morphogenesis17/596828/187231.55e-038.63e-0317
GO:006053719ThyroidPTCmuscle tissue development156/5968403/187231.98e-031.06e-02156
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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
SCXNKEndometriumAEHKRT81,KRT86,CD7, etc.9.78e-02The 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.
SCXCD8TEXINTThyroidADJKRT86,KLRB1,KRT81, etc.8.79e-02The 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.
SCXTH2ThyroidADJKRT86,KLRB1,KRT81, etc.1.44e-02The 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.
SCXCD8TEXPThyroidADJKRT86,KLRB1,KRT81, etc.4.05e-02The 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.
SCXGCThyroidADJKRT86,KLRB1,KRT81, etc.5.55e-03The 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.
SCXNKTThyroidADJKRT86,KLRB1,KRT81, etc.3.74e-03The 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.
SCXBMEMThyroidATCKRT86,KLRB1,KRT81, etc.0.00e+00The 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.
SCXPLAThyroidATCKRT86,KLRB1,KRT81, etc.1.64e-03The 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.
SCXGDTThyroidATCKRT86,KLRB1,KRT81, etc.5.82e-02The 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.
SCXGCThyroidATCKRT86,KLRB1,KRT81, etc.2.09e-03The 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.
∗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
SCXSNVMissense_Mutationnovelc.283N>Cp.Phe95Leup.F95LQ7RTU7protein_codingdeleterious(0)probably_damaging(0.994)TCGA-DD-AACD-01Liverliver hepatocellular carcinomaMale<65I/IIUnknownUnknownPD
SCXSNVMissense_Mutationnovelc.442G>Ap.Ala148Thrp.A148TQ7RTU7protein_codingtolerated(0.37)benign(0.006)TCGA-63-A5MM-01Lunglung squamous cell carcinomaFemale>=65I/IIChemotherapycisplatinPD
SCXSNVMissense_Mutationnovelc.434C>Tp.Ser145Phep.S145FQ7RTU7protein_codingdeleterious(0.02)benign(0.284)TCGA-85-8071-01Lunglung squamous cell carcinomaMale<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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