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: IRF9

Gene summary for IRF9

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

IRF9

Gene ID

10379

Gene nameinterferon regulatory factor 9
Gene AliasIRF-9
Cytomap14q12
Gene Typeprotein-coding
GO ID

GO:0002376

UniProtAcc

Q00978


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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
10379IRF9LZE4THumanEsophagusESCC1.37e-281.03e+000.0811
10379IRF9LZE5THumanEsophagusESCC4.06e-211.14e+000.0514
10379IRF9LZE7THumanEsophagusESCC1.88e-064.08e-010.0667
10379IRF9LZE8THumanEsophagusESCC1.37e-196.91e-010.067
10379IRF9LZE20THumanEsophagusESCC5.43e-279.42e-010.0662
10379IRF9LZE22D1HumanEsophagusHGIN3.51e-053.70e-010.0595
10379IRF9LZE22THumanEsophagusESCC2.20e-158.49e-010.068
10379IRF9LZE24THumanEsophagusESCC1.29e-651.82e+000.0596
10379IRF9LZE21THumanEsophagusESCC8.03e-131.06e+000.0655
10379IRF9LZE6THumanEsophagusESCC6.96e-136.66e-010.0845
10379IRF9P1T-EHumanEsophagusESCC1.31e-052.15e-010.0875
10379IRF9P2T-EHumanEsophagusESCC1.18e-142.37e-010.1177
10379IRF9P4T-EHumanEsophagusESCC4.73e-048.04e-020.1323
10379IRF9P5T-EHumanEsophagusESCC7.36e-081.10e-010.1327
10379IRF9P8T-EHumanEsophagusESCC2.17e-153.02e-010.0889
10379IRF9P9T-EHumanEsophagusESCC3.50e-162.65e-010.1131
10379IRF9P10T-EHumanEsophagusESCC7.24e-048.07e-020.116
10379IRF9P11T-EHumanEsophagusESCC1.57e-145.31e-010.1426
10379IRF9P12T-EHumanEsophagusESCC6.08e-173.38e-010.1122
10379IRF9P15T-EHumanEsophagusESCC7.30e-254.97e-010.1149
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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
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
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:000961517EsophagusHGINresponse to virus69/2587367/187234.39e-033.86e-0269
GO:000961518EsophagusESCCresponse to virus238/8552367/187236.65e-143.32e-12238
GO:00516075EsophagusESCCdefense response to virus171/8552265/187233.91e-101.05e-08171
GO:01405465EsophagusESCCdefense response to symbiont171/8552265/187233.91e-101.05e-08171
GO:00096156LungIACresponse to virus61/2061367/187236.75e-049.12e-0361
GO:000961515Oral cavityOSCCresponse to virus215/7305367/187231.63e-149.41e-13215
GO:00516074Oral cavityOSCCdefense response to virus154/7305265/187231.96e-105.63e-09154
GO:01405464Oral cavityOSCCdefense response to symbiont154/7305265/187231.96e-105.63e-09154
GO:000961521Oral cavityEOLPresponse to virus81/2218367/187231.71e-087.66e-0781
GO:005160721Oral cavityEOLPdefense response to virus55/2218265/187232.16e-053.35e-0455
GO:014054621Oral cavityEOLPdefense response to symbiont55/2218265/187232.16e-053.35e-0455
GO:000961531Oral cavityNEOLPresponse to virus80/2005367/187233.70e-103.14e-0880
GO:005160731Oral cavityNEOLPdefense response to virus57/2005265/187231.97e-076.55e-0657
GO:014054631Oral cavityNEOLPdefense response to symbiont57/2005265/187231.97e-076.55e-0657
GO:000961519SkinAKresponse to virus63/1910367/187232.53e-054.54e-0463
GO:000961522SkincSCCresponse to virus152/4864367/187235.88e-112.75e-09152
GO:00516076SkincSCCdefense response to virus107/4864265/187231.84e-074.02e-06107
GO:01405466SkincSCCdefense response to symbiont107/4864265/187231.84e-074.02e-06107
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa0517139EsophagusHGINCoronavirus disease - COVID-19105/1383232/84657.84e-265.11e-244.06e-24105
hsa0516930EsophagusHGINEpstein-Barr virus infection55/1383202/84655.13e-056.19e-044.92e-0455
hsa0516730EsophagusHGINKaposi sarcoma-associated herpesvirus infection51/1383194/84652.46e-042.69e-032.14e-0351
hsa052039EsophagusHGINViral carcinogenesis53/1383204/84652.58e-042.71e-032.15e-0353
hsa046219EsophagusHGINNOD-like receptor signaling pathway45/1383186/84653.40e-032.54e-022.02e-0245
hsa0516420EsophagusHGINInfluenza A42/1383171/84653.41e-032.54e-022.02e-0242
hsa05171115EsophagusHGINCoronavirus disease - COVID-19105/1383232/84657.84e-265.11e-244.06e-24105
hsa05169114EsophagusHGINEpstein-Barr virus infection55/1383202/84655.13e-056.19e-044.92e-0455
hsa05167114EsophagusHGINKaposi sarcoma-associated herpesvirus infection51/1383194/84652.46e-042.69e-032.14e-0351
hsa0520315EsophagusHGINViral carcinogenesis53/1383204/84652.58e-042.71e-032.15e-0353
hsa0462114EsophagusHGINNOD-like receptor signaling pathway45/1383186/84653.40e-032.54e-022.02e-0245
hsa05164110EsophagusHGINInfluenza A42/1383171/84653.41e-032.54e-022.02e-0242
hsa05169210EsophagusESCCEpstein-Barr virus infection151/4205202/84651.55e-133.45e-121.77e-12151
hsa05167211EsophagusESCCKaposi sarcoma-associated herpesvirus infection136/4205194/84654.28e-094.22e-082.16e-08136
hsa0516425EsophagusESCCInfluenza A122/4205171/84655.01e-094.79e-082.45e-08122
hsa0516510EsophagusESCCHuman papillomavirus infection215/4205331/84657.86e-097.12e-083.65e-08215
hsa05171211EsophagusESCCCoronavirus disease - COVID-19156/4205232/84653.18e-082.68e-071.37e-07156
hsa0520325EsophagusESCCViral carcinogenesis137/4205204/84652.47e-071.88e-069.62e-07137
hsa051609EsophagusESCCHepatitis C107/4205157/84651.75e-061.08e-055.55e-06107
hsa046259EsophagusESCCC-type lectin receptor signaling pathway73/4205104/84651.57e-057.98e-054.09e-0573
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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
IRF9CD8TEXPPancreasPanINIRF1,GZMA,EIF2AK2, etc.2.51e-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.
IRF9INMONProstateADJCLTB,MTRNR2L1,HELZ2, 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.
IRF9MVAProstateADJIFIT1,MX1,GIMAP7, etc.5.84e-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.
IRF9PVAProstateBPHIFIT1,MX1,GIMAP7, etc.3.54e-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.
IRF9CD8TEREXThyroidADJAL136295.5,IFI44L,IRF1, etc.1.43e-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.
IRF9CD8TEREXThyroidATCAL136295.5,IFI44L,IRF1, etc.2.26e-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.
∗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
IRF9SNVMissense_Mutationc.94N>Ap.Asp32Asnp.D32NQ00978protein_codingtolerated(0.41)probably_damaging(0.936)TCGA-A2-A0YK-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapycytoxanSD
IRF9SNVMissense_Mutationc.157G>Tp.Asp53Tyrp.D53YQ00978protein_codingdeleterious(0)probably_damaging(0.995)TCGA-B6-A0RO-01Breastbreast invasive carcinomaFemale>=65III/IVUnknownUnknownSD
IRF9SNVMissense_Mutationc.121N>Ap.Pro41Thrp.P41TQ00978protein_codingdeleterious(0)probably_damaging(1)TCGA-BH-A0EE-01Breastbreast invasive carcinomaFemale>=65I/IIChemotherapydocetaxelSD
IRF9SNVMissense_Mutationc.94N>Cp.Asp32Hisp.D32HQ00978protein_codingdeleterious(0.02)probably_damaging(0.999)TCGA-D8-A1JA-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapyadriamycinPD
IRF9insertionIn_Frame_Insnovelc.800_801insAGGGTTTCAGATAAGGGACAGATTGGAAAGGAAAACTAGCTGCATp.Pro267_Thr268insGlyPheGlnIleArgAspArgLeuGluArgLysThrSerCysIlep.P267_T268insGFQIRDRLERKTSCIQ00978protein_codingTCGA-A8-A08H-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
IRF9SNVMissense_Mutationc.277N>Cp.Glu93Glnp.E93QQ00978protein_codingdeleterious(0.01)probably_damaging(1)TCGA-UC-A7PF-01Cervixcervical & endocervical cancerFemale<65I/IIUnknownUnknownSD
IRF9SNVMissense_Mutationrs370001528c.305N>Ap.Arg102Hisp.R102HQ00978protein_codingtolerated(0.61)benign(0.007)TCGA-AA-A00N-01Colorectumcolon adenocarcinomaMale>=65I/IIUnknownUnknownPD
IRF9SNVMissense_Mutationc.1162G>Ap.Ala388Thrp.A388TQ00978protein_codingdeleterious(0)possibly_damaging(0.867)TCGA-AA-A022-01Colorectumcolon adenocarcinomaFemale>=65I/IIUnknownUnknownSD
IRF9SNVMissense_Mutationc.187N>Ap.Ala63Thrp.A63TQ00978protein_codingdeleterious(0)probably_damaging(1)TCGA-AD-6964-01Colorectumcolon adenocarcinomaMale<65III/IVChemotherapyfolfoxPD
IRF9SNVMissense_Mutationnovelc.557G>Ap.Ser186Asnp.S186NQ00978protein_codingtolerated(0.57)benign(0)TCGA-AJ-A23O-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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