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: PGM3

Gene summary for PGM3

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

PGM3

Gene ID

5238

Gene namephosphoglucomutase 3
Gene AliasAGM1
Cytomap6q14.1
Gene Typeprotein-coding
GO ID

GO:0000003

UniProtAcc

O95394


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
5238PGM3SYSMH1HumanOral cavityOSCC3.62e-132.99e-010.1127
5238PGM3SYSMH2HumanOral cavityOSCC4.08e-113.25e-010.2326
5238PGM3SYSMH3HumanOral cavityOSCC2.89e-275.50e-010.2442
5238PGM3SYSMH5HumanOral cavityOSCC3.61e-081.86e-010.0647
5238PGM3SYSMH6HumanOral cavityOSCC4.21e-113.43e-010.1275
5238PGM3GSM5252128_BPH327PrGF_ViaHumanProstateBPH7.18e-042.25e-01-0.1688
5238PGM3GSM5252130_BPH340PrGF_ViaHumanProstateBPH2.58e-113.81e-01-0.1972
5238PGM3GSM5252131_BPH340PrSF_ViaHumanProstateBPH1.01e-052.44e-01-0.2126
5238PGM3GSM5252132_BPH389PrGFHumanProstateBPH6.03e-168.02e-01-0.2247
5238PGM3GSM5252133_BPH389PrSFHumanProstateBPH1.72e-025.35e-01-0.2027
5238PGM3GSM5252134_BPH511PrG_Fcol_3GEXHumanProstateBPH8.29e-134.91e-01-0.1433
5238PGM3GSM5252135_BPH511PrPUr_Fcol_3GEXHumanProstateBPH2.73e-155.12e-01-0.1833
5238PGM3GSM5252136_BPH556PrGA1_FcolHumanProstateBPH2.40e-073.32e-01-0.23
5238PGM3GSM5252137_BPH556PrGA2_FcolHumanProstateBPH5.31e-063.63e-01-0.23
5238PGM3047563_1562-all-cellsHumanProstateBPH7.57e-072.22e-010.0791
5238PGM3048752_1579-all-cellsHumanProstateBPH1.35e-194.55e-010.1008
5238PGM3052095_1628-all-cellsHumanProstateBPH1.67e-021.56e-010.1032
5238PGM3052097_1595-all-cellsHumanProstateBPH2.54e-204.97e-010.0972
5238PGM3052099_1652-all-cellsHumanProstateBPH2.65e-134.43e-010.1038
5238PGM3Dong_P1HumanProstateTumor3.24e-02-3.65e-020.035
Page: 1 2 3 4 5 6 

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
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
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:000648714EsophagusESCCprotein N-linked glycosylation51/855265/187236.41e-081.13e-0651
GO:00091002EsophagusESCCglycoprotein metabolic process226/8552387/187232.64e-073.94e-06226
GO:00700854EsophagusESCCglycosylation144/8552240/187235.12e-065.38e-05144
GO:00064865EsophagusESCCprotein glycosylation135/8552226/187231.36e-051.24e-04135
GO:00434135EsophagusESCCmacromolecule glycosylation135/8552226/187231.36e-051.24e-04135
GO:00092256EsophagusESCCnucleotide-sugar metabolic process29/855236/187231.91e-051.67e-0429
GO:00091012EsophagusESCCglycoprotein biosynthetic process181/8552317/187232.54e-052.15e-04181
GO:00064931EsophagusESCCprotein O-linked glycosylation51/855286/187237.54e-032.70e-0251
GO:00092262EsophagusESCCnucleotide-sugar biosynthetic process14/855219/187231.27e-024.21e-0214
GO:000648711LiverHCCprotein N-linked glycosylation48/795865/187232.85e-075.00e-0648
GO:00064862LiverHCCprotein glycosylation122/7958226/187233.11e-042.21e-03122
GO:00434132LiverHCCmacromolecule glycosylation122/7958226/187233.11e-042.21e-03122
GO:00700852LiverHCCglycosylation128/7958240/187234.35e-042.92e-03128
GO:00092254LiverHCCnucleotide-sugar metabolic process25/795836/187239.87e-045.71e-0325
GO:0009100LiverHCCglycoprotein metabolic process193/7958387/187231.89e-039.62e-03193
GO:00064875Oral cavityOSCCprotein N-linked glycosylation44/730565/187232.63e-063.26e-0544
GO:00092255Oral cavityOSCCnucleotide-sugar metabolic process26/730536/187235.44e-054.51e-0426
GO:00091001Oral cavityOSCCglycoprotein metabolic process185/7305387/187232.37e-041.54e-03185
GO:00091011Oral cavityOSCCglycoprotein biosynthetic process151/7305317/187231.01e-035.26e-03151
GO:00064864Oral cavityOSCCprotein glycosylation111/7305226/187231.22e-036.10e-03111
Page: 1 2 3 

check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa012505EsophagusESCCBiosynthesis of nucleotide sugars28/420537/84651.10e-033.42e-031.75e-0328
hsa005202EsophagusESCCAmino sugar and nucleotide sugar metabolism35/420549/84651.60e-034.88e-032.50e-0335
hsa0125012EsophagusESCCBiosynthesis of nucleotide sugars28/420537/84651.10e-033.42e-031.75e-0328
hsa0052011EsophagusESCCAmino sugar and nucleotide sugar metabolism35/420549/84651.60e-034.88e-032.50e-0335
hsa00520Oral cavityOSCCAmino sugar and nucleotide sugar metabolism34/370449/84652.48e-048.08e-044.11e-0434
hsa012504Oral cavityOSCCBiosynthesis of nucleotide sugars25/370437/84652.93e-037.49e-033.81e-0325
hsa005201Oral cavityOSCCAmino sugar and nucleotide sugar metabolism34/370449/84652.48e-048.08e-044.11e-0434
hsa0125011Oral cavityOSCCBiosynthesis of nucleotide sugars25/370437/84652.93e-037.49e-033.81e-0325
Page: 1 

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
PGM3SNVMissense_Mutationc.497A>Cp.Gln166Prop.Q166PO95394protein_codingdeleterious(0.04)possibly_damaging(0.832)TCGA-AR-A0TX-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownSD
PGM3SNVMissense_Mutationc.421N>Cp.Glu141Glnp.E141QO95394protein_codingtolerated(0.32)benign(0.071)TCGA-D8-A27G-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
PGM3insertionFrame_Shift_Insnovelc.398_399insTCAGATACCAp.Leu134GlnfsTer6p.L134Qfs*6O95394protein_codingTCGA-AQ-A04J-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapycytoxanSD
PGM3SNVMissense_Mutationc.385N>Ap.Asp129Asnp.D129NO95394protein_codingtolerated(0.11)benign(0.076)TCGA-EA-A50E-01Cervixcervical & endocervical cancerFemale<65I/IIUnknownUnknownPD
PGM3SNVMissense_Mutationnovelc.1531N>Tp.Asp511Tyrp.D511YO95394protein_codingdeleterious(0.01)possibly_damaging(0.544)TCGA-AA-3984-01Colorectumcolon adenocarcinomaFemale<65I/IIUnknownUnknownSD
PGM3SNVMissense_Mutationnovelc.872N>Ap.Gly291Glup.G291EO95394protein_codingdeleterious(0)probably_damaging(0.976)TCGA-AA-3984-01Colorectumcolon adenocarcinomaFemale<65I/IIUnknownUnknownSD
PGM3SNVMissense_Mutationc.244N>Cp.Lys82Glnp.K82QO95394protein_codingtolerated(0.33)benign(0.044)TCGA-AA-A010-01Colorectumcolon adenocarcinomaFemale<65I/IIChemotherapyfolinicCR
PGM3SNVMissense_Mutationc.583N>Cp.Tyr195Hisp.Y195HO95394protein_codingtolerated(0.52)possibly_damaging(0.663)TCGA-CK-5916-01Colorectumcolon adenocarcinomaFemale>=65I/IIUnknownUnknownPD
PGM3SNVMissense_Mutationc.1676C>Ap.Ala559Aspp.A559DO95394protein_codingdeleterious(0)probably_damaging(1)TCGA-AG-A014-01Colorectumrectum adenocarcinomaMale>=65I/IIUnknownUnknownSD
PGM3SNVMissense_Mutationc.431N>Gp.Asn144Serp.N144SO95394protein_codingtolerated(0.09)benign(0.011)TCGA-AG-A02N-01Colorectumrectum adenocarcinomaMale>=65I/IIChemotherapyfolinicCR
Page: 1 2 3 4 5 6 

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
Page: 1