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: PYGL

Gene summary for PYGL

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

PYGL

Gene ID

5836

Gene nameglycogen phosphorylase L
Gene AliasGSD6
Cytomap14q22.1
Gene Typeprotein-coding
GO ID

GO:0000272

UniProtAcc

P06737


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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
5836PYGLCA_HPV_2HumanCervixCC9.61e-062.43e-010.0391
5836PYGLCCI_2HumanCervixCC7.27e-047.29e-010.5249
5836PYGLTumorHumanCervixCC9.61e-438.14e-010.1241
5836PYGLsample3HumanCervixCC1.37e-569.35e-010.1387
5836PYGLT3HumanCervixCC1.22e-599.25e-010.1389
5836PYGLLZE4THumanEsophagusESCC6.43e-196.22e-010.0811
5836PYGLLZE7THumanEsophagusESCC2.76e-043.18e-010.0667
5836PYGLLZE20THumanEsophagusESCC1.42e-073.89e-010.0662
5836PYGLP4T-EHumanEsophagusESCC2.45e-128.13e-020.1323
5836PYGLP5T-EHumanEsophagusESCC5.14e-245.90e-010.1327
5836PYGLP8T-EHumanEsophagusESCC1.19e-062.04e-020.0889
5836PYGLP9T-EHumanEsophagusESCC8.70e-153.24e-010.1131
5836PYGLP10T-EHumanEsophagusESCC1.46e-134.30e-010.116
5836PYGLP11T-EHumanEsophagusESCC3.16e-136.89e-010.1426
5836PYGLP12T-EHumanEsophagusESCC2.39e-022.05e-010.1122
5836PYGLP15T-EHumanEsophagusESCC2.00e-226.32e-010.1149
5836PYGLP16T-EHumanEsophagusESCC6.16e-173.39e-010.1153
5836PYGLP17T-EHumanEsophagusESCC1.03e-043.94e-010.1278
5836PYGLP19T-EHumanEsophagusESCC9.00e-081.43e+000.1662
5836PYGLP20T-EHumanEsophagusESCC6.88e-113.40e-010.1124
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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
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
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
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:0019693112SkincSCCribose phosphate metabolic process146/4864396/187239.28e-071.68e-05146
GO:0046390111SkincSCCribose phosphate biosynthetic process79/4864190/187231.86e-063.10e-0579
GO:00702655SkincSCCnecrotic cell death25/486462/187239.44e-034.25e-0225
GO:0006091112ThyroidPTCgeneration of precursor metabolites and energy252/5968490/187238.24e-201.13e-17252
GO:0015980111ThyroidPTCenergy derivation by oxidation of organic compounds176/5968318/187232.67e-182.90e-16176
GO:001969327ThyroidPTCribose phosphate metabolic process176/5968396/187238.28e-081.70e-06176
GO:004639024ThyroidPTCribose phosphate biosynthetic process85/5968190/187231.30e-041.03e-0385
GO:001605218ThyroidPTCcarbohydrate catabolic process70/5968154/187232.77e-041.97e-0370
GO:0033500110ThyroidPTCcarbohydrate homeostasis103/5968259/187234.19e-031.99e-02103
GO:0042593110ThyroidPTCglucose homeostasis102/5968258/187235.34e-032.46e-02102
GO:00702656ThyroidPTCnecrotic cell death29/596862/187239.96e-034.07e-0229
GO:000609134ThyroidATCgeneration of precursor metabolites and energy256/6293490/187236.55e-187.69e-16256
GO:001598034ThyroidATCenergy derivation by oxidation of organic compounds177/6293318/187233.60e-162.92e-14177
GO:001969328ThyroidATCribose phosphate metabolic process184/6293396/187235.87e-081.05e-06184
GO:004639025ThyroidATCribose phosphate biosynthetic process92/6293190/187231.57e-051.46e-0492
GO:001605224ThyroidATCcarbohydrate catabolic process71/6293154/187238.33e-044.57e-0371
GO:003350024ThyroidATCcarbohydrate homeostasis109/6293259/187232.56e-031.18e-02109
GO:004259325ThyroidATCglucose homeostasis108/6293258/187233.27e-031.47e-02108
GO:007026512ThyroidATCnecrotic cell death30/629362/187231.12e-024.00e-0230
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa049109EsophagusESCCInsulin signaling pathway89/4205137/84651.97e-047.32e-043.75e-0489
hsa049318EsophagusESCCInsulin resistance69/4205108/84651.92e-035.54e-032.84e-0369
hsa0492214EsophagusESCCGlucagon signaling pathway64/4205107/84652.18e-024.80e-022.46e-0264
hsa0491014EsophagusESCCInsulin signaling pathway89/4205137/84651.97e-047.32e-043.75e-0489
hsa0493113EsophagusESCCInsulin resistance69/4205108/84651.92e-035.54e-032.84e-0369
hsa0492215EsophagusESCCGlucagon signaling pathway64/4205107/84652.18e-024.80e-022.46e-0264
hsa0491041LiverHCCInsulin signaling pathway95/4020137/84651.53e-071.97e-061.10e-0695
hsa0493121LiverHCCInsulin resistance77/4020108/84653.89e-074.46e-062.48e-0677
hsa0492241LiverHCCGlucagon signaling pathway64/4020107/84656.70e-031.87e-021.04e-0264
hsa0491051LiverHCCInsulin signaling pathway95/4020137/84651.53e-071.97e-061.10e-0695
hsa0493131LiverHCCInsulin resistance77/4020108/84653.89e-074.46e-062.48e-0677
hsa0492251LiverHCCGlucagon signaling pathway64/4020107/84656.70e-031.87e-021.04e-0264
hsa049108Oral cavityOSCCInsulin signaling pathway83/3704137/84654.83e-052.00e-041.02e-0483
hsa049317Oral cavityOSCCInsulin resistance60/3704108/84658.66e-031.97e-021.00e-0260
hsa0491013Oral cavityOSCCInsulin signaling pathway83/3704137/84654.83e-052.00e-041.02e-0483
hsa0493112Oral cavityOSCCInsulin resistance60/3704108/84658.66e-031.97e-021.00e-0260
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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
PYGLSNVMissense_Mutationnovelc.2326N>Cp.Ala776Prop.A776PP06737protein_codingdeleterious(0)probably_damaging(0.994)TCGA-A1-A0SH-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapytcSD
PYGLSNVMissense_Mutationc.509N>Cp.Lys170Thrp.K170TP06737protein_codingtolerated(0.28)benign(0.091)TCGA-A8-A08R-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownSD
PYGLSNVMissense_Mutationnovelc.278N>Ap.Gly93Aspp.G93DP06737protein_codingdeleterious(0)probably_damaging(1)TCGA-AC-A5EH-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
PYGLSNVMissense_Mutationrs745756440c.2180A>Gp.Tyr727Cysp.Y727CP06737protein_codingdeleterious(0)probably_damaging(1)TCGA-BH-A0B9-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapycyclophosphamideSD
PYGLSNVMissense_Mutationc.2172N>Cp.Lys724Asnp.K724NP06737protein_codingtolerated(0.36)benign(0.007)TCGA-D8-A1J9-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownSD
PYGLdeletionFrame_Shift_Delnovelc.1971delNp.Ile658PhefsTer23p.I658Ffs*23P06737protein_codingTCGA-D8-A27V-01Breastbreast invasive carcinomaFemale<65I/IIHormone TherapytamoxiphenSD
PYGLSNVMissense_Mutationnovelc.1333N>Ap.Leu445Ilep.L445IP06737protein_codingdeleterious(0.01)possibly_damaging(0.698)TCGA-2W-A8YY-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
PYGLSNVMissense_Mutationnovelc.873N>Tp.Glu291Aspp.E291DP06737protein_codingdeleterious(0)probably_damaging(0.975)TCGA-2W-A8YY-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
PYGLSNVMissense_Mutationnovelc.586N>Cp.Glu196Glnp.E196QP06737protein_codingdeleterious(0.01)probably_damaging(0.983)TCGA-C5-A2LZ-01Cervixcervical & endocervical cancerFemale>=65III/IVUnknownUnknownPD
PYGLSNVMissense_Mutationc.67G>Cp.Glu23Glnp.E23QP06737protein_codingdeleterious(0.05)benign(0.025)TCGA-DG-A2KJ-01Cervixcervical & endocervical cancerFemale<65III/IVChemotherapycisplatinSD
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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
5836PYGLDRUGGABLE GENOME, ENZYMEdexamethasoneDEXAMETHASONE23007406
5836PYGLDRUGGABLE GENOME, ENZYMEmethotrexateMETHOTREXATE23007406
5836PYGLDRUGGABLE GENOME, ENZYMEPSN357
5836PYGLDRUGGABLE GENOME, ENZYMEasparaginaseASPARAGINASE23007406
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