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: FOXQ1

Gene summary for FOXQ1

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

FOXQ1

Gene ID

94234

Gene nameforkhead box Q1
Gene AliasHFH1
Cytomap6p25.3
Gene Typeprotein-coding
GO ID

GO:0000122

UniProtAcc

Q9C009


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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
94234FOXQ1HTA11_3410_2000001011HumanColorectumAD1.83e-021.03e-010.0155
94234FOXQ1HTA11_1938_2000001011HumanColorectumAD5.27e-053.19e-01-0.0811
94234FOXQ1HTA11_78_2000001011HumanColorectumAD7.65e-073.05e-01-0.1088
94234FOXQ1HTA11_1391_2000001011HumanColorectumAD4.63e-072.38e-01-0.059
94234FOXQ1HTA11_866_3004761011HumanColorectumAD1.85e-215.18e-010.096
94234FOXQ1HTA11_10711_2000001011HumanColorectumAD3.52e-052.67e-010.0338
94234FOXQ1HTA11_7696_3000711011HumanColorectumAD3.80e-255.74e-010.0674
94234FOXQ1HTA11_6818_2000001021HumanColorectumAD2.17e-237.43e-010.0588
94234FOXQ1HTA11_99999970781_79442HumanColorectumMSS1.38e-306.68e-010.294
94234FOXQ1HTA11_99999971662_82457HumanColorectumMSS1.59e-377.65e-010.3859
94234FOXQ1HTA11_99999973899_84307HumanColorectumMSS6.27e-196.07e-010.2585
94234FOXQ1HTA11_99999974143_84620HumanColorectumMSS9.10e-256.41e-010.3005
94234FOXQ1A002-C-203HumanColorectumFAP1.82e-031.81e-010.2786
94234FOXQ1CRC-1-8810HumanColorectumCRC7.63e-194.97e-010.6257
94234FOXQ1CRC-3-11773HumanColorectumCRC2.00e-052.59e-010.2564
94234FOXQ1HCC1HumanLiverHCC9.01e-256.22e+000.5336
94234FOXQ1HCC2HumanLiverHCC2.50e-061.84e+000.5341
94234FOXQ1S014HumanLiverHCC9.97e-441.52e+000.2254
94234FOXQ1S015HumanLiverHCC4.77e-331.61e+000.2375
94234FOXQ1S016HumanLiverHCC2.10e-331.18e+000.2243
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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
GCThe 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.CAG: Chronic atrophic gastritis
CAG with IM: Chronic atrophic gastritis with intestinal metaplasia
CSG: Chronic superficial gastritis
GC: Gastric cancer
SIM: Severe intestinal metaplasia
WIM: Wild intestinal metaplasia
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
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:0070997ColorectumADneuron death114/3918361/187231.13e-063.72e-05114
GO:1901214ColorectumADregulation of neuron death99/3918319/187231.26e-052.76e-0499
GO:0051402ColorectumADneuron apoptotic process77/3918246/187238.07e-051.28e-0377
GO:1901215ColorectumADnegative regulation of neuron death67/3918208/187238.81e-051.35e-0367
GO:0043523ColorectumADregulation of neuron apoptotic process64/3918212/187238.95e-048.63e-0364
GO:0008544ColorectumADepidermis development87/3918324/187235.99e-033.76e-0287
GO:0043524ColorectumADnegative regulation of neuron apoptotic process43/3918145/187238.04e-034.73e-0243
GO:00709972ColorectumMSSneuron death97/3467361/187235.21e-059.31e-0497
GO:19012142ColorectumMSSregulation of neuron death83/3467319/187235.28e-045.99e-0383
GO:00514022ColorectumMSSneuron apoptotic process66/3467246/187237.94e-048.36e-0366
GO:19012152ColorectumMSSnegative regulation of neuron death53/3467208/187237.60e-034.77e-0253
GO:00709974ColorectumFAPneuron death81/2622361/187238.35e-062.46e-0481
GO:00514024ColorectumFAPneuron apoptotic process55/2622246/187232.42e-043.37e-0355
GO:0043588ColorectumFAPskin development58/2622263/187232.44e-043.39e-0358
GO:19012144ColorectumFAPregulation of neuron death67/2622319/187233.73e-044.63e-0367
GO:19012153ColorectumFAPnegative regulation of neuron death46/2622208/187239.52e-049.42e-0346
GO:00085441ColorectumFAPepidermis development66/2622324/187239.63e-049.51e-0366
GO:0022404ColorectumFAPmolting cycle process21/262284/187235.10e-033.37e-0221
GO:0022405ColorectumFAPhair cycle process21/262284/187235.10e-033.37e-0221
GO:00435233ColorectumFAPregulation of neuron apoptotic process43/2622212/187237.28e-034.38e-0243
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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
FOXQ1STMColorectumADTMEM132C,ADAM19,SOD3, etc.1.21e-01The 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.
FOXQ1ICAFEndometriumAEHADM,PLCG2,STC2, etc.1.70e-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.
FOXQ1ICAFEndometriumEECADM,PLCG2,STC2, etc.3.36e-01The 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.
FOXQ1STMEsophagusHealthyODC1,CCNG2,NDEL1, etc.4.65e-01The 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.
FOXQ1MDSCsEsophagusADJATG101,ZFP37,SLC19A2, etc.4.45e-01The 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.
FOXQ1MDSCsEsophagusESCCATG101,ZFP37,SLC19A2, etc.5.79e-01The 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.
FOXQ1MASTEsophagusHealthyATG101,ZFP37,SLC19A2, etc.6.86e-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.
FOXQ1PMCStomachADJCLDN18,CA2,S100P, etc.3.19e-01The 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.
FOXQ1PMCStomachCAGCLDN18,CA2,S100P, etc.7.26e-01The 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.
FOXQ1PMCStomachCAG with IMCLDN18,CA2,S100P, etc.2.37e-01The 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
FOXQ1SNVMissense_Mutationrs566840319c.439G>Ap.Glu147Lysp.E147KQ9C009protein_codingdeleterious(0.02)possibly_damaging(0.495)TCGA-DQ-5625-01Oral cavityhead & neck squamous cell carcinomaFemale<65I/IIUnknownUnknownPD
FOXQ1SNVMissense_Mutationrs770819384c.463N>Cp.Phe155Leup.F155LQ9C009protein_codingdeleterious(0)probably_damaging(0.934)TCGA-BR-8078-01Stomachstomach adenocarcinomaFemale>=65I/IIUnknownUnknownSD
FOXQ1deletionFrame_Shift_Delnovelc.358delNp.Tyr122ThrfsTer19p.Y122Tfs*19Q9C009protein_codingTCGA-BR-8078-01Stomachstomach 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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