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: CUL3

Gene summary for CUL3

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

CUL3

Gene ID

8452

Gene namecullin 3
Gene AliasCUL-3
Cytomap2q36.2
Gene Typeprotein-coding
GO ID

GO:0000070

UniProtAcc

B7Z600


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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
8452CUL3CA_HPV_1HumanCervixCC2.93e-02-9.15e-020.0264
8452CUL3CCI_2HumanCervixCC1.18e-091.46e+000.5249
8452CUL3CCI_3HumanCervixCC3.21e-119.71e-010.516
8452CUL3HTA11_3410_2000001011HumanColorectumAD2.39e-18-6.25e-010.0155
8452CUL3HTA11_2487_2000001011HumanColorectumSER5.29e-05-5.01e-01-0.1808
8452CUL3HTA11_78_2000001011HumanColorectumAD4.72e-03-4.09e-01-0.1088
8452CUL3HTA11_3361_2000001011HumanColorectumAD6.88e-03-4.44e-01-0.1207
8452CUL3HTA11_696_2000001011HumanColorectumAD2.27e-10-3.59e-01-0.1464
8452CUL3HTA11_866_2000001011HumanColorectumAD1.64e-08-3.54e-01-0.1001
8452CUL3HTA11_866_3004761011HumanColorectumAD1.03e-11-5.67e-010.096
8452CUL3HTA11_8622_2000001021HumanColorectumSER3.87e-02-5.66e-010.0528
8452CUL3HTA11_10711_2000001011HumanColorectumAD4.42e-03-4.45e-010.0338
8452CUL3HTA11_7696_3000711011HumanColorectumAD5.29e-12-4.69e-010.0674
8452CUL3HTA11_99999970781_79442HumanColorectumMSS4.85e-17-5.01e-010.294
8452CUL3HTA11_99999971662_82457HumanColorectumMSS6.46e-09-4.00e-010.3859
8452CUL3HTA11_99999974143_84620HumanColorectumMSS7.25e-10-3.80e-010.3005
8452CUL3A015-C-203HumanColorectumFAP9.45e-30-3.93e-01-0.1294
8452CUL3A015-C-204HumanColorectumFAP4.39e-07-2.72e-01-0.0228
8452CUL3A014-C-040HumanColorectumFAP1.34e-09-6.78e-01-0.1184
8452CUL3A002-C-201HumanColorectumFAP3.34e-19-3.61e-010.0324
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check button Transcriptomic changes along malignancy continuum.
TissueExpression DynamicsAbbreviation
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
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:00482077ThyroidPTCvesicle targeting, rough ER to cis-Golgi9/596813/187236.33e-032.79e-029
GO:00482087ThyroidPTCCOPII vesicle coating9/596813/187236.33e-032.79e-029
GO:19020994ThyroidPTCregulation of metaphase/anaphase transition of cell cycle30/596863/187236.48e-032.83e-0230
GO:00350246ThyroidPTCnegative regulation of Rho protein signal transduction13/596822/187237.65e-033.25e-0213
GO:00443465ThyroidPTCfibroblast apoptotic process13/596822/187237.65e-033.25e-0213
GO:00330454ThyroidPTCregulation of sister chromatid segregation33/596872/187239.04e-033.75e-0233
GO:00447844ThyroidPTCmetaphase/anaphase transition of cell cycle30/596865/187231.11e-024.42e-0230
GO:00171452ThyroidPTCstem cell division16/596830/187231.19e-024.69e-0216
GO:00324655ThyroidPTCregulation of cytokinesis40/596892/187231.26e-024.92e-0240
GO:001049832ThyroidATCproteasomal protein catabolic process309/6293490/187231.78e-411.13e-37309
GO:0043161210ThyroidATCproteasome-mediated ubiquitin-dependent protein catabolic process265/6293412/187237.09e-381.49e-34265
GO:0048193111ThyroidATCGolgi vesicle transport189/6293296/187239.58e-275.05e-24189
GO:190332034ThyroidATCregulation of protein modification by small protein conjugation or removal152/6293242/187239.76e-211.71e-18152
GO:003164734ThyroidATCregulation of protein stability177/6293298/187234.08e-206.46e-18177
GO:014001416ThyroidATCmitotic nuclear division171/6293287/187231.13e-191.66e-17171
GO:009719335ThyroidATCintrinsic apoptotic signaling pathway171/6293288/187231.86e-192.67e-17171
GO:003139634ThyroidATCregulation of protein ubiquitination132/6293210/187233.13e-183.98e-16132
GO:003304423ThyroidATCregulation of chromosome organization119/6293187/187233.55e-173.40e-15119
GO:001605525ThyroidATCWnt signaling pathway234/6293444/187234.64e-174.31e-15234
GO:019873825ThyroidATCcell-cell signaling by wnt234/6293446/187239.26e-178.25e-15234
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa0412014CervixCCUbiquitin mediated proteolysis49/1267142/84654.26e-097.68e-084.54e-0849
hsa0412015CervixCCUbiquitin mediated proteolysis49/1267142/84654.26e-097.68e-084.54e-0849
hsa04120ColorectumADUbiquitin mediated proteolysis58/2092142/84651.46e-051.53e-049.76e-0558
hsa041201ColorectumADUbiquitin mediated proteolysis58/2092142/84651.46e-051.53e-049.76e-0558
hsa041202ColorectumSERUbiquitin mediated proteolysis39/1580142/84656.18e-033.66e-022.66e-0239
hsa041203ColorectumSERUbiquitin mediated proteolysis39/1580142/84656.18e-033.66e-022.66e-0239
hsa041204ColorectumMSSUbiquitin mediated proteolysis55/1875142/84655.02e-066.00e-053.68e-0555
hsa041205ColorectumMSSUbiquitin mediated proteolysis55/1875142/84655.02e-066.00e-053.68e-0555
hsa041206ColorectumFAPUbiquitin mediated proteolysis51/1404142/84651.55e-085.84e-073.55e-0751
hsa041207ColorectumFAPUbiquitin mediated proteolysis51/1404142/84651.55e-085.84e-073.55e-0751
hsa041208ColorectumCRCUbiquitin mediated proteolysis42/1091142/84659.98e-086.67e-064.52e-0642
hsa041209ColorectumCRCUbiquitin mediated proteolysis42/1091142/84659.98e-086.67e-064.52e-0642
hsa0412016EndometriumAEHUbiquitin mediated proteolysis41/1197142/84653.42e-064.27e-053.13e-0541
hsa0412017EndometriumAEHUbiquitin mediated proteolysis41/1197142/84653.42e-064.27e-053.13e-0541
hsa0412023EndometriumEECUbiquitin mediated proteolysis41/1237142/84657.86e-069.58e-057.14e-0541
hsa0412033EndometriumEECUbiquitin mediated proteolysis41/1237142/84657.86e-069.58e-057.14e-0541
hsa0412027EsophagusESCCUbiquitin mediated proteolysis122/4205142/84656.53e-207.29e-183.74e-18122
hsa0412036EsophagusESCCUbiquitin mediated proteolysis122/4205142/84656.53e-207.29e-183.74e-18122
hsa0412010LiverNAFLDUbiquitin mediated proteolysis44/1043142/84652.59e-091.70e-071.37e-0744
hsa0412011LiverNAFLDUbiquitin mediated proteolysis44/1043142/84652.59e-091.70e-071.37e-0744
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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
CUL3SNVMissense_Mutationc.274G>Ap.Asp92Asnp.D92NQ13618protein_codingtolerated(0.13)possibly_damaging(0.816)TCGA-5L-AAT1-01Breastbreast invasive carcinomaFemale<65III/IVHormone TherapyletrozolSD
CUL3SNVMissense_Mutationc.2059N>Ap.Glu687Lysp.E687KQ13618protein_codingdeleterious(0)possibly_damaging(0.785)TCGA-A2-A0YK-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapycytoxanSD
CUL3SNVMissense_Mutationc.464N>Ap.Gly155Glup.G155EQ13618protein_codingtolerated(1)benign(0.438)TCGA-A8-A09Z-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
CUL3SNVMissense_Mutationnovelc.1855N>Cp.Glu619Glnp.E619QQ13618protein_codingtolerated(0.18)possibly_damaging(0.541)TCGA-BH-A0B6-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownSD
CUL3SNVMissense_Mutationc.1285N>Ap.Glu429Lysp.E429KQ13618protein_codingdeleterious(0)probably_damaging(1)TCGA-BH-A0EE-01Breastbreast invasive carcinomaFemale>=65I/IIChemotherapydocetaxelSD
CUL3insertionFrame_Shift_Insnovelc.700_701insCACCTTTTATCTTCTGGATTAAATGTAAAATGAGACTp.Ile234ThrfsTer19p.I234Tfs*19Q13618protein_codingTCGA-AR-A0TU-01Breastbreast invasive carcinomaFemale<65I/IIUnspecificDoxorubicinSD
CUL3insertionFrame_Shift_Insnovelc.1358dupAp.Asn453LysfsTer5p.N453Kfs*5Q13618protein_codingTCGA-AR-A0U0-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
CUL3SNVMissense_Mutationc.124N>Gp.Gln42Glup.Q42EQ13618protein_codingtolerated(0.13)possibly_damaging(0.803)TCGA-C5-A7X5-01Cervixcervical & endocervical cancerFemale>=65I/IIChemotherapycarboplatinPD
CUL3SNVMissense_Mutationnovelc.1880T>Gp.Leu627Argp.L627RQ13618protein_codingdeleterious(0)probably_damaging(0.997)TCGA-ZJ-AAXT-01Cervixcervical & endocervical cancerFemale<65III/IVUnknownUnknownSD
CUL3insertionFrame_Shift_Insnovelc.892_893insACACAp.Cys298TyrfsTer15p.C298Yfs*15Q13618protein_codingTCGA-DS-A1OB-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycarboplatinPD
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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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