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: SCAF11

Gene summary for SCAF11

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

SCAF11

Gene ID

9169

Gene nameSR-related CTD associated factor 11
Gene AliasCASP11
Cytomap12q12
Gene Typeprotein-coding
GO ID

GO:0000245

UniProtAcc

Q99590


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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
9169SCAF11HTA11_3410_2000001011HumanColorectumAD2.53e-09-4.08e-010.0155
9169SCAF11HTA11_347_2000001011HumanColorectumAD1.97e-196.80e-01-0.1954
9169SCAF11HTA11_99999965062_69753HumanColorectumMSI-H2.05e-071.10e+000.3487
9169SCAF11HTA11_99999965104_69814HumanColorectumMSS1.97e-076.41e-010.281
9169SCAF11HTA11_99999974143_84620HumanColorectumMSS2.26e-08-3.92e-010.3005
9169SCAF11A015-C-203HumanColorectumFAP4.10e-32-1.74e-01-0.1294
9169SCAF11A015-C-204HumanColorectumFAP3.12e-04-1.56e-02-0.0228
9169SCAF11A014-C-040HumanColorectumFAP3.58e-04-7.83e-02-0.1184
9169SCAF11A002-C-201HumanColorectumFAP7.88e-11-2.01e-010.0324
9169SCAF11A001-C-119HumanColorectumFAP4.60e-061.16e-01-0.1557
9169SCAF11A001-C-108HumanColorectumFAP2.20e-127.20e-02-0.0272
9169SCAF11A002-C-205HumanColorectumFAP2.66e-21-8.51e-02-0.1236
9169SCAF11A001-C-104HumanColorectumFAP1.36e-031.95e-020.0184
9169SCAF11A015-C-006HumanColorectumFAP7.63e-158.63e-03-0.0994
9169SCAF11A015-C-106HumanColorectumFAP4.37e-07-2.55e-02-0.0511
9169SCAF11A002-C-114HumanColorectumFAP4.16e-17-7.34e-02-0.1561
9169SCAF11A015-C-104HumanColorectumFAP7.11e-33-7.00e-02-0.1899
9169SCAF11A001-C-014HumanColorectumFAP2.30e-13-9.82e-030.0135
9169SCAF11A002-C-016HumanColorectumFAP1.07e-22-8.09e-020.0521
9169SCAF11A015-C-002HumanColorectumFAP1.33e-112.80e-02-0.0763
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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
ProstateThe 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.BPH: Benign Prostatic Hyperplasia
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
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:000037515EndometriumAEHRNA splicing, via transesterification reactions88/2100324/187231.11e-153.91e-1388
GO:000037715EndometriumAEHRNA splicing, via transesterification reactions with bulged adenosine as nucleophile87/2100320/187231.51e-154.78e-1387
GO:000039815EndometriumAEHmRNA splicing, via spliceosome87/2100320/187231.51e-154.78e-1387
GO:002261316EndometriumAEHribonucleoprotein complex biogenesis107/2100463/187231.43e-134.08e-11107
GO:007182616EndometriumAEHribonucleoprotein complex subunit organization65/2100227/187234.47e-131.07e-1065
GO:002261816EndometriumAEHribonucleoprotein complex assembly63/2100220/187231.02e-122.24e-1063
GO:000838017EndometriumEECRNA splicing111/2168434/187232.45e-161.13e-13111
GO:000037516EndometriumEECRNA splicing, via transesterification reactions88/2168324/187237.46e-152.63e-1288
GO:000037716EndometriumEECRNA splicing, via transesterification reactions with bulged adenosine as nucleophile87/2168320/187239.97e-153.15e-1287
GO:000039816EndometriumEECmRNA splicing, via spliceosome87/2168320/187239.97e-153.15e-1287
GO:002261317EndometriumEECribonucleoprotein complex biogenesis108/2168463/187234.60e-139.86e-11108
GO:007182617EndometriumEECribonucleoprotein complex subunit organization65/2168227/187231.91e-123.58e-1065
GO:002261817EndometriumEECribonucleoprotein complex assembly63/2168220/187234.16e-127.56e-1063
GO:0022613111EsophagusESCCribonucleoprotein complex biogenesis365/8552463/187231.74e-491.11e-45365
GO:0008380111EsophagusESCCRNA splicing336/8552434/187231.74e-423.67e-39336
GO:0000375111EsophagusESCCRNA splicing, via transesterification reactions248/8552324/187233.05e-301.49e-27248
GO:0000377111EsophagusESCCRNA splicing, via transesterification reactions with bulged adenosine as nucleophile244/8552320/187232.52e-291.07e-26244
GO:0000398111EsophagusESCCmRNA splicing, via spliceosome244/8552320/187232.52e-291.07e-26244
GO:0071826111EsophagusESCCribonucleoprotein complex subunit organization166/8552227/187232.94e-172.42e-15166
GO:0022618111EsophagusESCCribonucleoprotein complex assembly159/8552220/187238.19e-165.71e-14159
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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
SCAF11SNVMissense_Mutationc.3194N>Tp.Ser1065Phep.S1065FQ99590protein_codingdeleterious(0)possibly_damaging(0.786)TCGA-A8-A0A7-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownSD
SCAF11SNVMissense_Mutationnovelc.646N>Cp.Glu216Glnp.E216QQ99590protein_codingdeleterious(0)possibly_damaging(0.805)TCGA-AC-A23H-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownPD
SCAF11SNVMissense_Mutationc.2243C>Tp.Ser748Phep.S748FQ99590protein_codingtolerated(0.08)benign(0.007)TCGA-BH-A18P-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownPD
SCAF11SNVMissense_Mutationrs372602350c.4102N>Ap.Ala1368Thrp.A1368TQ99590protein_codingdeleterious(0.01)probably_damaging(0.999)TCGA-BH-A42T-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
SCAF11SNVMissense_Mutationc.2708N>Tp.Pro903Leup.P903LQ99590protein_codingdeleterious(0)possibly_damaging(0.726)TCGA-C8-A1HM-01Breastbreast invasive carcinomaFemale>=65I/IIChemotherapydoxorubicinCR
SCAF11SNVMissense_Mutationc.2720N>Tp.Ser907Phep.S907FQ99590protein_codingdeleterious(0)probably_damaging(0.972)TCGA-E9-A243-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapy5-fluorouracilPD
SCAF11SNVMissense_Mutationrs533218274c.3923N>Gp.Ser1308Cysp.S1308CQ99590protein_codingdeleterious(0.03)benign(0.014)TCGA-EW-A6SA-01Breastbreast invasive carcinomaMale<65I/IIUnknownUnknownSD
SCAF11SNVMissense_Mutationnovelc.493N>Gp.Lys165Glup.K165EQ99590protein_codingtolerated(0.06)possibly_damaging(0.473)TCGA-EW-A6SB-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownSD
SCAF11insertionFrame_Shift_Insnovelc.2_3insTAATCATGTCCp.Met1?p.M1?Q99590protein_codingTCGA-A2-A0CP-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapycytoxanSD
SCAF11insertionFrame_Shift_Insnovelc.2967dupAp.Glu990ArgfsTer5p.E990Rfs*5Q99590protein_codingTCGA-EW-A1IZ-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapytaxotereSD
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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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