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: CXCL3

Gene summary for CXCL3

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

CXCL3

Gene ID

2921

Gene nameC-X-C motif chemokine ligand 3
Gene AliasCINC-2b
Cytomap4q13.3
Gene Typeprotein-coding
GO ID

GO:0002237

UniProtAcc

P19876


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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
2921CXCL3GSM4909280HumanBreastPrecancer5.67e-069.14e-010.0305
2921CXCL3GSM4909281HumanBreastIDC2.55e-23-6.04e-010.21
2921CXCL3GSM4909282HumanBreastIDC2.27e-19-5.67e-01-0.0288
2921CXCL3GSM4909285HumanBreastIDC1.81e-11-5.77e-010.21
2921CXCL3GSM4909286HumanBreastIDC1.63e-27-6.22e-010.1081
2921CXCL3GSM4909287HumanBreastIDC1.93e-11-5.24e-010.2057
2921CXCL3GSM4909290HumanBreastIDC5.33e-08-5.13e-010.2096
2921CXCL3GSM4909291HumanBreastIDC2.76e-07-5.55e-010.1753
2921CXCL3GSM4909293HumanBreastIDC1.20e-21-5.96e-010.1581
2921CXCL3GSM4909294HumanBreastIDC8.49e-24-5.98e-010.2022
2921CXCL3GSM4909296HumanBreastIDC1.06e-19-5.89e-010.1524
2921CXCL3GSM4909297HumanBreastIDC5.46e-18-5.93e-010.1517
2921CXCL3GSM4909298HumanBreastIDC1.02e-24-6.14e-010.1551
2921CXCL3GSM4909299HumanBreastIDC4.81e-03-3.42e-010.035
2921CXCL3GSM4909301HumanBreastIDC9.66e-27-6.18e-010.1577
2921CXCL3GSM4909302HumanBreastIDC1.21e-16-5.77e-010.1545
2921CXCL3GSM4909304HumanBreastIDC5.70e-25-6.21e-010.1636
2921CXCL3GSM4909306HumanBreastIDC2.09e-14-5.47e-010.1564
2921CXCL3GSM4909307HumanBreastIDC7.57e-18-5.81e-010.1569
2921CXCL3GSM4909308HumanBreastIDC5.46e-22-6.22e-010.158
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check button Transcriptomic changes along malignancy continuum.
TissueExpression DynamicsAbbreviation
BreastThe 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.IDC: Invasive ductal carcinoma
DCIS: Ductal carcinoma in situ
Precancer(BRCA1-mut): Precancerous lesion from BRCA1 mutation carriers
CervixThe 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.CC: Cervix cancer
HSIL_HPV: HPV-infected high-grade squamous intraepithelial lesions
N_HPV: HPV-infected normal cervix
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
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
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:00975297BreastPrecancermyeloid leukocyte migration34/1080220/187231.42e-077.82e-0634
GO:00509006BreastPrecancerleukocyte migration47/1080369/187232.82e-071.39e-0547
GO:00305956BreastPrecancerleukocyte chemotaxis34/1080230/187234.16e-071.89e-0534
GO:00603266BreastPrecancercell chemotaxis41/1080310/187235.99e-072.55e-0541
GO:00716217BreastPrecancergranulocyte chemotaxis23/1080125/187236.73e-072.77e-0523
GO:00975307BreastPrecancergranulocyte migration24/1080148/187234.04e-061.26e-0424
GO:00305937BreastPrecancerneutrophil chemotaxis19/1080103/187235.94e-061.71e-0419
GO:00022378BreastPrecancerresponse to molecule of bacterial origin43/1080363/187236.05e-061.72e-0443
GO:00324968BreastPrecancerresponse to lipopolysaccharide41/1080343/187237.94e-062.17e-0441
GO:19902665BreastPrecancerneutrophil migration20/1080122/187232.13e-054.99e-0420
GO:00197307BreastPrecancerantimicrobial humoral response19/1080122/187237.02e-051.40e-0319
GO:00618446BreastPrecancerantimicrobial humoral immune response mediated by antimicrobial peptide14/108079/187231.53e-042.61e-0314
GO:00712227BreastPrecancercellular response to lipopolysaccharide25/1080209/187234.41e-045.85e-0325
GO:00712167BreastPrecancercellular response to biotic stimulus28/1080246/187234.67e-046.14e-0328
GO:00712197BreastPrecancercellular response to molecule of bacterial origin25/1080221/187231.00e-031.12e-0225
GO:007162111BreastIDCgranulocyte chemotaxis26/1434125/187232.36e-069.30e-0526
GO:005090011BreastIDCleukocyte migration54/1434369/187233.10e-061.15e-0454
GO:009752911BreastIDCmyeloid leukocyte migration37/1434220/187234.65e-061.62e-0437
GO:003059511BreastIDCleukocyte chemotaxis38/1434230/187235.36e-061.76e-0438
GO:003059311BreastIDCneutrophil chemotaxis22/1434103/187238.82e-062.50e-0422
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa0532318Oral cavityOSCCRheumatoid arthritis56/370493/84659.72e-042.76e-031.40e-0356
hsa051468Oral cavityOSCCAmoebiasis59/3704102/84652.78e-037.17e-033.65e-0359
hsa049365Oral cavityOSCCAlcoholic liver disease78/3704142/84654.53e-031.12e-025.68e-0378
hsa0466816Oral cavityOSCCTNF signaling pathway82/3704114/84658.30e-109.59e-094.88e-0982
hsa05167113Oral cavityOSCCKaposi sarcoma-associated herpesvirus infection125/3704194/84653.67e-093.84e-081.96e-08125
hsa05417113Oral cavityOSCCLipid and atherosclerosis131/3704215/84652.20e-071.45e-067.37e-07131
hsa04657112Oral cavityOSCCIL-17 signaling pathway64/370494/84651.48e-067.87e-064.01e-0664
hsa05134111Oral cavityOSCCLegionellosis42/370457/84654.18e-062.15e-051.10e-0542
hsa0512017Oral cavityOSCCEpithelial cell signaling in Helicobacter pylori infection49/370470/84657.57e-063.59e-051.83e-0549
hsa0406411Oral cavityOSCCNF-kappa B signaling pathway67/3704104/84651.57e-056.75e-053.44e-0567
hsa0462113Oral cavityOSCCNOD-like receptor signaling pathway108/3704186/84655.13e-052.07e-041.05e-04108
hsa0532319Oral cavityOSCCRheumatoid arthritis56/370493/84659.72e-042.76e-031.40e-0356
hsa0514615Oral cavityOSCCAmoebiasis59/3704102/84652.78e-037.17e-033.65e-0359
hsa0493612Oral cavityOSCCAlcoholic liver disease78/3704142/84654.53e-031.12e-025.68e-0378
hsa0513426Oral cavityLPLegionellosis33/241857/84653.29e-063.23e-052.08e-0533
hsa0512024Oral cavityLPEpithelial cell signaling in Helicobacter pylori infection38/241870/84655.17e-064.20e-052.71e-0538
hsa05167210Oral cavityLPKaposi sarcoma-associated herpesvirus infection84/2418194/84656.66e-065.16e-053.33e-0584
hsa0465725Oral cavityLPIL-17 signaling pathway47/241894/84658.45e-066.25e-054.03e-0547
hsa05417210Oral cavityLPLipid and atherosclerosis84/2418215/84655.02e-042.61e-031.68e-0384
hsa0466822Oral cavityLPTNF signaling pathway49/2418114/84656.51e-043.29e-032.12e-0349
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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
CXCL3ACKR1CXCL3_ACKR1CXCLBreastDCIS
CXCL3ACKR1CXCL3_ACKR1CXCLBreastIDC
CXCL3ACKR1CXCL3_ACKR1CXCLCervixADJ
CXCL3CXCR2CXCL3_CXCR2CXCLCervixADJ
CXCL3ACKR1CXCL3_ACKR1CXCLCervixCC
CXCL3CXCR1CXCL3_CXCR1CXCLCervixCC
CXCL3CXCR2CXCL3_CXCR2CXCLCervixCC
CXCL3CXCR1CXCL3_CXCR1CXCLCervixHealthy
CXCL3CXCR2CXCL3_CXCR2CXCLCervixHealthy
CXCL3ACKR1CXCL3_ACKR1CXCLCervixPrecancer
CXCL3CXCR1CXCL3_CXCR1CXCLCervixPrecancer
CXCL3CXCR2CXCL3_CXCR2CXCLCervixPrecancer
CXCL3ACKR1CXCL3_ACKR1CXCLEndometriumADJ
CXCL3ACKR1CXCL3_ACKR1CXCLEndometriumAEH
CXCL3ACKR1CXCL3_ACKR1CXCLEndometriumEEC
CXCL3CXCR2CXCL3_CXCR2CXCLEndometriumEEC
CXCL3ACKR1CXCL3_ACKR1CXCLEndometriumHealthy
CXCL3ACKR1CXCL3_ACKR1CXCLEsophagusESCC
CXCL3ACKR1CXCL3_ACKR1CXCLEsophagusHealthy
CXCL3ACKR1CXCL3_ACKR1CXCLGCADJ
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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
CXCL3SNVMissense_Mutationnovelc.92G>Ap.Arg31Hisp.R31HP19876protein_codingtolerated(0.21)probably_damaging(0.987)TCGA-AJ-A8CW-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIUnknownUnknownSD
CXCL3SNVMissense_Mutationc.141N>Tp.Gln47Hisp.Q47HP19876protein_codingdeleterious(0.01)probably_damaging(0.979)TCGA-AP-A1DV-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIUnknownUnknownSD
CXCL3SNVMissense_Mutationnovelc.314G>Tp.Ser105Ilep.S105IP19876protein_codingtolerated(0.11)benign(0.07)TCGA-AP-A1E0-01Endometriumuterine corpus endometrioid carcinomaFemale<65III/IVChemotherapypaclitaxelSD
CXCL3SNVMissense_Mutationnovelc.283A>Cp.Lys95Glnp.K95QP19876protein_codingdeleterious(0)probably_damaging(0.983)TCGA-B5-A1MR-01Endometriumuterine corpus endometrioid carcinomaFemale>=65III/IVUnknownUnknownSD
CXCL3SNVMissense_Mutationrs759175981c.265N>Ap.Ala89Thrp.A89TP19876protein_codingtolerated(0.18)benign(0.021)TCGA-BG-A0M4-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIChemotherapycarboplatinSD
CXCL3SNVMissense_Mutationnovelc.103G>Ap.Ala35Thrp.A35TP19876protein_codingdeleterious(0.05)probably_damaging(0.996)TCGA-E6-A1LX-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIUnknownUnknownSD
CXCL3SNVMissense_Mutationnovelc.152N>Tp.Gly51Valp.G51VP19876protein_codingdeleterious(0)probably_damaging(0.999)TCGA-EO-A22R-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIUnknownUnknownSD
CXCL3SNVMissense_Mutationnovelc.157N>Tp.His53Tyrp.H53YP19876protein_codingdeleterious(0)probably_damaging(0.968)TCGA-CV-7427-01Oral cavityhead & neck squamous cell carcinomaFemale>=65I/IIUnknownUnknownPD
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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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