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: NGFR

Gene summary for NGFR

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

NGFR

Gene ID

4804

Gene namenerve growth factor receptor
Gene AliasCD271
Cytomap17q21.33
Gene Typeprotein-coding
GO ID

GO:0000902

UniProtAcc

P08138


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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
4804NGFRLZE8THumanEsophagusESCC1.09e-031.52e-010.067
4804NGFRLZE24THumanEsophagusESCC1.63e-042.52e-010.0596
4804NGFRLZE21THumanEsophagusESCC4.41e-021.28e-010.0655
4804NGFRP2T-EHumanEsophagusESCC1.04e-701.77e+000.1177
4804NGFRP4T-EHumanEsophagusESCC1.54e-023.89e-010.1323
4804NGFRP8T-EHumanEsophagusESCC9.91e-051.91e-010.0889
4804NGFRP10T-EHumanEsophagusESCC4.65e-071.44e-010.116
4804NGFRP11T-EHumanEsophagusESCC4.98e-312.05e+000.1426
4804NGFRP12T-EHumanEsophagusESCC1.16e-022.31e-010.1122
4804NGFRP15T-EHumanEsophagusESCC9.44e-165.14e-010.1149
4804NGFRP16T-EHumanEsophagusESCC2.56e-327.57e-010.1153
4804NGFRP17T-EHumanEsophagusESCC7.47e-031.19e+000.1278
4804NGFRP19T-EHumanEsophagusESCC6.05e-072.10e+000.1662
4804NGFRP20T-EHumanEsophagusESCC9.36e-094.11e-010.1124
4804NGFRP21T-EHumanEsophagusESCC5.40e-411.01e+000.1617
4804NGFRP22T-EHumanEsophagusESCC1.44e-081.54e-010.1236
4804NGFRP23T-EHumanEsophagusESCC3.06e-041.26e-010.108
4804NGFRP24T-EHumanEsophagusESCC5.73e-069.12e-010.1287
4804NGFRP26T-EHumanEsophagusESCC2.66e-265.44e-010.1276
4804NGFRP27T-EHumanEsophagusESCC1.19e-174.32e-010.1055
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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
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
∗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:2001233111EsophagusESCCregulation of apoptotic signaling pathway256/8552356/187234.11e-241.04e-21256
GO:003450418EsophagusESCCprotein localization to nucleus211/8552290/187234.06e-216.60e-19211
GO:0045862111EsophagusESCCpositive regulation of proteolysis256/8552372/187237.88e-209.43e-18256
GO:1903829111EsophagusESCCpositive regulation of cellular protein localization199/8552276/187232.99e-193.45e-17199
GO:190018018EsophagusESCCregulation of protein localization to nucleus102/8552136/187232.84e-121.13e-10102
GO:2000116111EsophagusESCCregulation of cysteine-type endopeptidase activity158/8552235/187231.67e-115.90e-10158
GO:0043281111EsophagusESCCregulation of cysteine-type endopeptidase activity involved in apoptotic process143/8552209/187232.12e-117.31e-10143
GO:190018217EsophagusESCCpositive regulation of protein localization to nucleus70/855287/187232.63e-118.99e-1070
GO:2001235110EsophagusESCCpositive regulation of apoptotic signaling pathway92/8552126/187233.91e-101.05e-0892
GO:0010952111EsophagusESCCpositive regulation of peptidase activity133/8552197/187234.31e-101.14e-08133
GO:0052547111EsophagusESCCregulation of peptidase activity275/8552461/187237.54e-101.88e-08275
GO:0070997111EsophagusESCCneuron death216/8552361/187233.49e-086.45e-07216
GO:0052548111EsophagusESCCregulation of endopeptidase activity253/8552432/187233.68e-086.78e-07253
GO:00435888EsophagusESCCskin development163/8552263/187236.48e-081.14e-06163
GO:000726510EsophagusESCCRas protein signal transduction201/8552337/187231.44e-072.30e-06201
GO:0010950111EsophagusESCCpositive regulation of endopeptidase activity116/8552179/187231.77e-072.79e-06116
GO:000854410EsophagusESCCepidermis development193/8552324/187232.87e-074.19e-06193
GO:190165319EsophagusESCCcellular response to peptide208/8552359/187231.68e-062.01e-05208
GO:0051402110EsophagusESCCneuron apoptotic process148/8552246/187233.08e-063.47e-05148
GO:004814414EsophagusESCCfibroblast proliferation57/855281/187235.83e-066.03e-0557
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa0472225EsophagusESCCNeurotrophin signaling pathway80/4205119/84657.33e-053.07e-041.57e-0480
hsa042156EsophagusESCCApoptosis - multiple species25/420532/84659.13e-042.92e-031.49e-0325
hsa052028EsophagusESCCTranscriptional misregulation in cancer116/4205193/84652.08e-035.95e-033.05e-03116
hsa041517EsophagusESCCPI3K-Akt signaling pathway197/4205354/84651.24e-022.83e-021.45e-02197
hsa04722111EsophagusESCCNeurotrophin signaling pathway80/4205119/84657.33e-053.07e-041.57e-0480
hsa0421511EsophagusESCCApoptosis - multiple species25/420532/84659.13e-042.92e-031.49e-0325
hsa0520213EsophagusESCCTranscriptional misregulation in cancer116/4205193/84652.08e-035.95e-033.05e-03116
hsa0415114EsophagusESCCPI3K-Akt signaling pathway197/4205354/84651.24e-022.83e-021.45e-02197
hsa0472220Oral cavityOSCCNeurotrophin signaling pathway74/3704119/84653.55e-051.49e-047.58e-0574
hsa0401014Oral cavityOSCCMAPK signaling pathway165/3704302/84657.11e-052.74e-041.40e-04165
hsa04215Oral cavityOSCCApoptosis - multiple species25/370432/84657.74e-052.88e-041.47e-0425
hsa041516Oral cavityOSCCPI3K-Akt signaling pathway185/3704354/84656.26e-041.86e-039.49e-04185
hsa0401518Oral cavityOSCCRap1 signaling pathway107/3704210/84652.01e-024.34e-022.21e-02107
hsa04722110Oral cavityOSCCNeurotrophin signaling pathway74/3704119/84653.55e-051.49e-047.58e-0574
hsa0401015Oral cavityOSCCMAPK signaling pathway165/3704302/84657.11e-052.74e-041.40e-04165
hsa042151Oral cavityOSCCApoptosis - multiple species25/370432/84657.74e-052.88e-041.47e-0425
hsa0415113Oral cavityOSCCPI3K-Akt signaling pathway185/3704354/84656.26e-041.86e-039.49e-04185
hsa0401519Oral cavityOSCCRap1 signaling pathway107/3704210/84652.01e-024.34e-022.21e-02107
hsa0472224Oral cavityLPNeurotrophin signaling pathway46/2418119/84651.07e-023.77e-022.43e-0246
hsa0472234Oral cavityLPNeurotrophin signaling pathway46/2418119/84651.07e-023.77e-022.43e-0246
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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
NGFNGFRNGF_NGFRNGFLiverHealthy
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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
NGFRinsertionFrame_Shift_Insnovelc.482_483insCp.Asp162GlyfsTer55p.D162Gfs*55P08138protein_codingTCGA-DS-A1OC-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapygemcitabineSD
NGFRinsertionFrame_Shift_Insnovelc.484_485dupGAp.Asp162GlufsTer64p.D162Efs*64P08138protein_codingTCGA-DS-A1OC-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapygemcitabineSD
NGFRSNVMissense_Mutationrs764232409c.377N>Ap.Arg126Hisp.R126HP08138protein_codingtolerated(0.13)benign(0.436)TCGA-A6-5660-01Colorectumcolon adenocarcinomaMale>=65III/IVAncillaryleucovorinSD
NGFRSNVMissense_Mutationrs534528579c.1198G>Ap.Ala400Thrp.A400TP08138protein_codingtolerated(0.25)benign(0.139)TCGA-AA-3666-01Colorectumcolon adenocarcinomaMale>=65III/IVUnknownUnknownPD
NGFRSNVMissense_Mutationrs116828180c.974N>Tp.Ser325Leup.S325LP08138protein_codingtolerated(0.28)benign(0)TCGA-AZ-4315-01Colorectumcolon adenocarcinomaMale<65I/IIUnknownUnknownSD
NGFRSNVMissense_Mutationc.925N>Ap.Val309Metp.V309MP08138protein_codingdeleterious(0)probably_damaging(0.999)TCGA-CM-6162-01Colorectumcolon adenocarcinomaFemale<65III/IVChemotherapyoxaliplatinSD
NGFRSNVMissense_Mutationrs759353737c.353N>Tp.Thr118Metp.T118MP08138protein_codingtolerated(0.11)benign(0.031)TCGA-D5-6920-01Colorectumcolon adenocarcinomaFemale>=65I/IIUnknownUnknownSD
NGFRSNVMissense_Mutationc.1120N>Tp.Asp374Tyrp.D374YP08138protein_codingdeleterious(0.02)probably_damaging(0.951)TCGA-AG-A002-01Colorectumrectum adenocarcinomaMale<65I/IIUnknownUnknownSD
NGFRdeletionFrame_Shift_Delc.1251delNp.Cys418AlafsTer48p.C418Afs*48P08138protein_codingTCGA-AZ-6598-01Colorectumcolon adenocarcinomaFemale>=65I/IIUnknownUnknownSD
NGFRSNVMissense_Mutationrs143067054c.1151N>Ap.Arg384Hisp.R384HP08138protein_codingtolerated(0.24)probably_damaging(0.954)TCGA-A5-A0GM-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
4804NGFRCELL SURFACE, DRUGGABLE GENOMEFulranumabFULRANUMAB
4804NGFRCELL SURFACE, DRUGGABLE GENOMECXB909
4804NGFRCELL SURFACE, DRUGGABLE GENOME178101573
4804NGFRCELL SURFACE, DRUGGABLE GENOMEVoclosporinVOCLOSPORIN
4804NGFRCELL SURFACE, DRUGGABLE GENOMELM11A-31
4804NGFRCELL SURFACE, DRUGGABLE GENOME178101723
4804NGFRCELL SURFACE, DRUGGABLE GENOME178101729
4804NGFRCELL SURFACE, DRUGGABLE GENOME178101730
4804NGFRCELL SURFACE, DRUGGABLE GENOMEPYM50028
4804NGFRCELL SURFACE, DRUGGABLE GENOMECenegerminCENEGERMIN
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