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

Home

Download

Statistics

Help

Contact

Center for Computational Systems Medicine
leaf

Gene summary

leaf

Malignant transformation analysis

leaf

Malignant transformation related pathway analysis

leaf

Cell-cell communication analysis

leaf

Single-cell gene regulatory network inference analysis

leaf

Somatic mutation of malignant transformation related genes

leaf

Related drugs of malignant transformation related genes

Gene: LGR4

Gene summary for LGR4

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

LGR4

Gene ID

55366

Gene nameleucine rich repeat containing G protein-coupled receptor 4
Gene AliasBNMD17
Cytomap11p14.1
Gene Typeprotein-coding
GO ID

GO:0000003

UniProtAcc

Q59ER8


Top

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
55366LGR4CA_HPV_3HumanCervixCC4.30e-021.27e-010.0414
55366LGR4CCI_2HumanCervixCC9.15e-081.26e+000.5249
55366LGR4CCI_3HumanCervixCC6.74e-161.03e+000.516
55366LGR4HTA11_3410_2000001011HumanColorectumAD3.44e-16-6.40e-010.0155
55366LGR4HTA11_347_2000001011HumanColorectumAD3.57e-107.01e-01-0.1954
55366LGR4HTA11_411_2000001011HumanColorectumSER3.07e-026.68e-01-0.2602
55366LGR4HTA11_866_3004761011HumanColorectumAD5.70e-12-6.48e-010.096
55366LGR4HTA11_10711_2000001011HumanColorectumAD1.25e-09-5.88e-010.0338
55366LGR4HTA11_7696_3000711011HumanColorectumAD3.48e-04-4.70e-010.0674
55366LGR4HTA11_7469_2000001011HumanColorectumAD8.95e-04-3.38e-01-0.0124
55366LGR4HTA11_6818_2000001021HumanColorectumAD1.14e-06-5.77e-010.0588
55366LGR4HTA11_99999970781_79442HumanColorectumMSS8.93e-20-6.47e-010.294
55366LGR4HTA11_99999971662_82457HumanColorectumMSS3.25e-08-4.64e-010.3859
55366LGR4HTA11_99999973899_84307HumanColorectumMSS5.41e-12-8.76e-010.2585
55366LGR4HTA11_99999974143_84620HumanColorectumMSS1.26e-44-9.85e-010.3005
55366LGR4F007HumanColorectumFAP2.09e-02-3.76e-010.1176
55366LGR4A001-C-207HumanColorectumFAP1.20e-05-4.36e-010.1278
55366LGR4A015-C-203HumanColorectumFAP8.86e-51-9.35e-01-0.1294
55366LGR4A015-C-204HumanColorectumFAP4.38e-14-6.60e-01-0.0228
55366LGR4A014-C-040HumanColorectumFAP2.06e-10-8.47e-01-0.1184
Page: 1 2 3 4 5 6 

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
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
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.

Top

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).
Page: 1 2 3 4 5 6 7 8 9 

check button Enriched GO biological processes.
GO IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustCount
GO:00085446CervixCCepidermis development83/2311324/187233.91e-118.54e-0983
GO:00435884CervixCCskin development71/2311263/187238.04e-111.46e-0871
GO:00506737CervixCCepithelial cell proliferation98/2311437/187232.01e-092.15e-0798
GO:00160557CervixCCWnt signaling pathway98/2311444/187234.82e-094.65e-0798
GO:01987387CervixCCcell-cell signaling by wnt98/2311446/187236.16e-095.58e-0798
GO:00301117CervixCCregulation of Wnt signaling pathway76/2311328/187233.05e-082.08e-0676
GO:00027644CervixCCimmune response-regulating signaling pathway97/2311468/187231.49e-077.07e-0697
GO:00614588CervixCCreproductive system development87/2311427/187231.37e-064.55e-0587
GO:00608287CervixCCregulation of canonical Wnt signaling pathway58/2311253/187231.83e-065.89e-0558
GO:00486088CervixCCreproductive structure development86/2311424/187231.90e-065.97e-0586
GO:004887210CervixCChomeostasis of number of cells61/2311272/187232.17e-066.55e-0561
GO:00600707CervixCCcanonical Wnt signaling pathway66/2311303/187232.47e-067.35e-0566
GO:00485118CervixCCrhythmic process65/2311298/187232.79e-068.04e-0565
GO:00076238CervixCCcircadian rhythm46/2311210/187236.76e-059.60e-0446
GO:00022212CervixCCpattern recognition receptor signaling pathway39/2311172/187231.08e-041.38e-0339
GO:00622073CervixCCregulation of pattern recognition receptor signaling pathway27/2311105/187231.37e-041.68e-0327
GO:00016497CervixCCosteoblast differentiation47/2311229/187232.88e-043.11e-0347
GO:00301776CervixCCpositive regulation of Wnt signaling pathway31/2311140/187238.01e-047.02e-0331
GO:00329226CervixCCcircadian regulation of gene expression18/231168/187231.18e-039.56e-0318
GO:00015037CervixCCossification71/2311408/187231.67e-031.28e-0271
Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 

check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa043109CervixCCWnt signaling pathway43/1267171/84653.03e-041.64e-039.68e-0443
hsa0431012CervixCCWnt signaling pathway43/1267171/84653.03e-041.64e-039.68e-0443
hsa04310ColorectumADWnt signaling pathway56/2092171/84651.03e-023.93e-022.51e-0256
hsa043101ColorectumADWnt signaling pathway56/2092171/84651.03e-023.93e-022.51e-0256
hsa043102ColorectumMSSWnt signaling pathway53/1875171/84654.24e-031.86e-021.14e-0253
hsa043103ColorectumMSSWnt signaling pathway53/1875171/84654.24e-031.86e-021.14e-0253
hsa043104ColorectumFAPWnt signaling pathway46/1404171/84653.94e-043.06e-031.86e-0346
hsa043105ColorectumFAPWnt signaling pathway46/1404171/84653.94e-043.06e-031.86e-0346
hsa043106ColorectumCRCWnt signaling pathway40/1091171/84651.01e-041.57e-031.07e-0340
hsa043107ColorectumCRCWnt signaling pathway40/1091171/84651.01e-041.57e-031.07e-0340
hsa0431010EndometriumAEHWnt signaling pathway37/1197171/84654.68e-032.53e-021.86e-0237
hsa0431013EndometriumAEHWnt signaling pathway37/1197171/84654.68e-032.53e-021.86e-0237
hsa0431022EndometriumEECWnt signaling pathway40/1237171/84651.37e-038.99e-036.70e-0340
hsa0431032EndometriumEECWnt signaling pathway40/1237171/84651.37e-038.99e-036.70e-0340
hsa043108LungIACWnt signaling pathway40/1053171/84654.56e-057.06e-044.69e-0440
hsa0431011LungIACWnt signaling pathway40/1053171/84654.56e-057.06e-044.69e-0440
hsa0431021LungAISWnt signaling pathway39/961171/84651.29e-053.32e-042.12e-0439
hsa0431031LungAISWnt signaling pathway39/961171/84651.29e-053.32e-042.12e-0439
hsa0431014ProstateBPHWnt signaling pathway50/1718171/84653.11e-031.15e-027.14e-0350
hsa0431015ProstateBPHWnt signaling pathway50/1718171/84653.11e-031.15e-027.14e-0350
Page: 1 2 

Top

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
Page: 1 

Top

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.
Page: 1 

Top

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
LGR4SNVMissense_Mutationnovelc.1817N>Tp.Ala606Valp.A606VQ9BXB1protein_codingdeleterious(0)possibly_damaging(0.756)TCGA-A2-A4S1-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
LGR4SNVMissense_Mutationrs749587915c.466N>Tp.Arg156Trpp.R156WQ9BXB1protein_codingdeleterious(0)probably_damaging(0.999)TCGA-AN-A0XU-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownSD
LGR4SNVMissense_Mutationc.1968N>Ap.Ser656Argp.S656RQ9BXB1protein_codingtolerated(0.3)benign(0.007)TCGA-C8-A134-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapy5-fluorouracilCR
LGR4SNVMissense_Mutationc.539N>Gp.Gln180Argp.Q180RQ9BXB1protein_codingtolerated(0.06)possibly_damaging(0.782)TCGA-D8-A147-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapydoxorubicineSD
LGR4insertionNonsense_Mutationnovelc.508_509insCATTGTGATATTGAAAGTATAp.Val170delinsAlaLeuTerTyrTerLysTyrMetp.V170delinsAL*Y*KYMQ9BXB1protein_codingTCGA-A2-A0CQ-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapyadriamycinSD
LGR4insertionFrame_Shift_Insnovelc.573_574insGAAATp.Ile192GlufsTer15p.I192Efs*15Q9BXB1protein_codingTCGA-AR-A0TU-01Breastbreast invasive carcinomaFemale<65I/IIUnspecificDoxorubicinSD
LGR4SNVMissense_Mutationc.1953N>Cp.Met651Ilep.M651IQ9BXB1protein_codingtolerated(0.45)benign(0)TCGA-IR-A3LK-01Cervixcervical & endocervical cancerFemale>=65I/IIChemotherapycisplatinPD
LGR4SNVMissense_Mutationrs200626048c.1625N>Ap.Arg542Hisp.R542HQ9BXB1protein_codingdeleterious(0)probably_damaging(0.996)TCGA-VS-A8EL-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
LGR4SNVMissense_Mutationc.2000N>Gp.Leu667Argp.L667RQ9BXB1protein_codingtolerated(0.08)benign(0.419)TCGA-A6-3809-01Colorectumcolon adenocarcinomaFemale>=65I/IIUnknownUnknownSD
LGR4SNVMissense_Mutationrs376236224c.274G>Ap.Asp92Asnp.D92NQ9BXB1protein_codingtolerated(0.24)possibly_damaging(0.735)TCGA-A6-5661-01Colorectumcolon adenocarcinomaFemale>=65I/IIUnknownUnknownSD
Page: 1 2 3 4 5 6 7 8 9 

Top

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
55366LGR4G PROTEIN COUPLED RECEPTOR, DRUGGABLE GENOMEagonist178100589
55366LGR4G PROTEIN COUPLED RECEPTOR, DRUGGABLE GENOMEagonist178100587
55366LGR4G PROTEIN COUPLED RECEPTOR, DRUGGABLE GENOMEagonist178100588
55366LGR4G PROTEIN COUPLED RECEPTOR, DRUGGABLE GENOMEagonist178100586
Page: 1