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: FBXL4

Gene summary for FBXL4

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

FBXL4

Gene ID

26235

Gene nameF-box and leucine rich repeat protein 4
Gene AliasFBL4
Cytomap6q16.1-q16.2
Gene Typeprotein-coding
GO ID

GO:0006508

UniProtAcc

Q9UKA2


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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
26235FBXL4HTA11_3410_2000001011HumanColorectumAD3.64e-04-4.09e-010.0155
26235FBXL4HTA11_696_2000001011HumanColorectumAD4.52e-09-3.46e-01-0.1464
26235FBXL4HTA11_7696_3000711011HumanColorectumAD6.10e-05-2.74e-010.0674
26235FBXL4HTA11_99999970781_79442HumanColorectumMSS8.88e-03-2.56e-010.294
26235FBXL4HTA11_99999965104_69814HumanColorectumMSS3.05e-024.43e-010.281
26235FBXL4HTA11_99999974143_84620HumanColorectumMSS2.28e-13-4.17e-010.3005
26235FBXL4A015-C-203HumanColorectumFAP2.60e-20-2.65e-01-0.1294
26235FBXL4A002-C-201HumanColorectumFAP2.57e-06-2.12e-010.0324
26235FBXL4A001-C-108HumanColorectumFAP1.13e-13-3.15e-01-0.0272
26235FBXL4A002-C-205HumanColorectumFAP1.54e-13-4.24e-01-0.1236
26235FBXL4A001-C-104HumanColorectumFAP2.57e-05-2.23e-010.0184
26235FBXL4A015-C-006HumanColorectumFAP3.77e-07-3.35e-01-0.0994
26235FBXL4A015-C-106HumanColorectumFAP5.91e-09-2.13e-01-0.0511
26235FBXL4A002-C-114HumanColorectumFAP1.78e-09-3.12e-01-0.1561
26235FBXL4A015-C-104HumanColorectumFAP1.84e-23-3.83e-01-0.1899
26235FBXL4A001-C-014HumanColorectumFAP8.21e-11-2.31e-010.0135
26235FBXL4A002-C-016HumanColorectumFAP1.66e-16-2.41e-010.0521
26235FBXL4A015-C-002HumanColorectumFAP8.75e-06-2.50e-01-0.0763
26235FBXL4A001-C-203HumanColorectumFAP2.00e-05-1.68e-01-0.0481
26235FBXL4A002-C-116HumanColorectumFAP3.58e-25-2.56e-01-0.0452
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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
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
∗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:0010498ColorectumADproteasomal protein catabolic process174/3918490/187233.18e-147.66e-12174
GO:0043161ColorectumADproteasome-mediated ubiquitin-dependent protein catabolic process141/3918412/187231.77e-101.68e-08141
GO:00104982ColorectumMSSproteasomal protein catabolic process157/3467490/187232.39e-135.25e-11157
GO:00431612ColorectumMSSproteasome-mediated ubiquitin-dependent protein catabolic process127/3467412/187237.70e-106.32e-08127
GO:00431614ColorectumFAPproteasome-mediated ubiquitin-dependent protein catabolic process98/2622412/187235.41e-084.20e-0698
GO:00104984ColorectumFAPproteasomal protein catabolic process110/2622490/187232.12e-071.26e-05110
GO:00431615ColorectumCRCproteasome-mediated ubiquitin-dependent protein catabolic process69/2078412/187233.16e-044.90e-0369
GO:00104985ColorectumCRCproteasomal protein catabolic process77/2078490/187231.03e-031.21e-0277
GO:0010498111EsophagusESCCproteasomal protein catabolic process369/8552490/187231.13e-411.80e-38369
GO:0043161111EsophagusESCCproteasome-mediated ubiquitin-dependent protein catabolic process312/8552412/187233.53e-364.48e-33312
GO:00311461EsophagusESCCSCF-dependent proteasomal ubiquitin-dependent protein catabolic process33/855249/187231.80e-038.26e-0333
GO:001049812LiverCirrhoticproteasomal protein catabolic process216/4634490/187232.52e-219.29e-19216
GO:004316112LiverCirrhoticproteasome-mediated ubiquitin-dependent protein catabolic process184/4634412/187234.52e-198.85e-17184
GO:001049822LiverHCCproteasomal protein catabolic process351/7958490/187236.92e-401.46e-36351
GO:004316122LiverHCCproteasome-mediated ubiquitin-dependent protein catabolic process299/7958412/187237.82e-368.27e-33299
GO:0031146LiverHCCSCF-dependent proteasomal ubiquitin-dependent protein catabolic process30/795849/187236.31e-032.57e-0230
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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
FBXL4SNVMissense_Mutationc.1352C>Tp.Ser451Leup.S451LQ9UKA2protein_codingtolerated(0.08)benign(0.001)TCGA-AC-A23H-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownPD
FBXL4SNVMissense_Mutationc.1775N>Cp.Val592Alap.V592AQ9UKA2protein_codingdeleterious(0)benign(0.251)TCGA-AN-A0FJ-01Breastbreast invasive carcinomaFemale<65III/IVUnknownUnknownSD
FBXL4SNVMissense_Mutationrs770564931c.416C>Gp.Ala139Glyp.A139GQ9UKA2protein_codingtolerated(0.17)benign(0.011)TCGA-D8-A147-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapydoxorubicineSD
FBXL4SNVMissense_Mutationc.1763N>Gp.Ser588Cysp.S588CQ9UKA2protein_codingtolerated(0.18)benign(0.001)TCGA-E2-A1LH-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapyadriamycinSD
FBXL4insertionFrame_Shift_Insnovelc.1410_1411insAAAATTGTAGTGTTTCCACTTTTCTTCTp.Ala471LysfsTer11p.A471Kfs*11Q9UKA2protein_codingTCGA-A2-A0EO-01Breastbreast invasive carcinomaFemale<65I/IIHormone TherapytamoxiphenSD
FBXL4deletionFrame_Shift_Delnovelc.1055delNp.Leu352TyrfsTer19p.L352Yfs*19Q9UKA2protein_codingTCGA-D8-A27V-01Breastbreast invasive carcinomaFemale<65I/IIHormone TherapytamoxiphenSD
FBXL4SNVMissense_Mutationnovelc.1470G>Tp.Lys490Asnp.K490NQ9UKA2protein_codingdeleterious(0.03)benign(0.045)TCGA-C5-A902-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinSD
FBXL4SNVMissense_Mutationc.532N>Cp.Glu178Glnp.E178QQ9UKA2protein_codingtolerated(0.05)benign(0.176)TCGA-EK-A3GK-01Cervixcervical & endocervical cancerFemale<65I/IIUnknownUnknownSD
FBXL4SNVMissense_Mutationc.1226N>Tp.Ser409Phep.S409FQ9UKA2protein_codingdeleterious(0.01)possibly_damaging(0.556)TCGA-IR-A3LH-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
FBXL4SNVMissense_Mutationc.1585N>Ap.Ala529Thrp.A529TQ9UKA2protein_codingtolerated(0.05)probably_damaging(0.996)TCGA-A6-6780-01Colorectumcolon adenocarcinomaMale>=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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