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: PLPP1

Gene summary for PLPP1

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

PLPP1

Gene ID

8611

Gene namephospholipid phosphatase 1
Gene AliasLLP1a
Cytomap5q11.2
Gene Typeprotein-coding
GO ID

GO:0006066

UniProtAcc

A0A024QZS3


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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
8611PLPP1P5T-EHumanEsophagusESCC1.14e-234.49e-010.1327
8611PLPP1P8T-EHumanEsophagusESCC5.75e-114.03e-010.0889
8611PLPP1P9T-EHumanEsophagusESCC1.31e-178.38e-010.1131
8611PLPP1P10T-EHumanEsophagusESCC1.04e-182.87e-010.116
8611PLPP1P11T-EHumanEsophagusESCC9.83e-462.46e+000.1426
8611PLPP1P12T-EHumanEsophagusESCC2.90e-451.04e+000.1122
8611PLPP1P15T-EHumanEsophagusESCC7.09e-136.55e-010.1149
8611PLPP1P16T-EHumanEsophagusESCC3.45e-211.35e-010.1153
8611PLPP1P17T-EHumanEsophagusESCC2.66e-047.39e-010.1278
8611PLPP1P19T-EHumanEsophagusESCC1.79e-122.43e+000.1662
8611PLPP1P20T-EHumanEsophagusESCC1.67e-227.63e-010.1124
8611PLPP1P21T-EHumanEsophagusESCC5.01e-165.82e-010.1617
8611PLPP1P22T-EHumanEsophagusESCC3.22e-254.14e-010.1236
8611PLPP1P23T-EHumanEsophagusESCC9.16e-201.16e+000.108
8611PLPP1P24T-EHumanEsophagusESCC2.62e-331.23e+000.1287
8611PLPP1P26T-EHumanEsophagusESCC1.46e-348.42e-010.1276
8611PLPP1P27T-EHumanEsophagusESCC9.22e-491.01e+000.1055
8611PLPP1P30T-EHumanEsophagusESCC2.05e-053.70e-010.137
8611PLPP1P31T-EHumanEsophagusESCC1.38e-256.28e-010.1251
8611PLPP1P32T-EHumanEsophagusESCC2.44e-301.26e+000.1666
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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
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
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:004854510CervixCCresponse to steroid hormone74/2311339/187235.71e-072.09e-0574
GO:00305229CervixCCintracellular receptor signaling pathway60/2311265/187231.89e-065.97e-0560
GO:00163117CervixCCdephosphorylation73/2311417/187231.23e-039.87e-0373
GO:00713839CervixCCcellular response to steroid hormone stimulus40/2311204/187231.93e-031.42e-0240
GO:00305188CervixCCintracellular steroid hormone receptor signaling pathway25/2311116/187233.59e-032.30e-0225
GO:00305218CervixCCandrogen receptor signaling pathway12/231144/187235.76e-033.30e-0212
GO:0071383ColorectumADcellular response to steroid hormone stimulus73/3918204/187236.31e-072.24e-0573
GO:0030522ColorectumADintracellular receptor signaling pathway87/3918265/187233.69e-061.03e-0487
GO:0043401ColorectumADsteroid hormone mediated signaling pathway51/3918136/187236.52e-061.63e-0451
GO:0048545ColorectumADresponse to steroid hormone104/3918339/187231.33e-052.90e-04104
GO:0016311ColorectumADdephosphorylation123/3918417/187231.84e-053.82e-04123
GO:0009755ColorectumADhormone-mediated signaling pathway64/3918190/187232.78e-055.24e-0464
GO:0006066ColorectumADalcohol metabolic process106/3918353/187233.02e-055.57e-04106
GO:0030518ColorectumADintracellular steroid hormone receptor signaling pathway43/3918116/187234.61e-057.97e-0443
GO:0030258ColorectumADlipid modification67/3918212/187231.66e-042.27e-0367
GO:0030521ColorectumADandrogen receptor signaling pathway20/391844/187232.26e-042.94e-0320
GO:0006644ColorectumADphospholipid metabolic process101/3918383/187235.80e-033.67e-02101
GO:00713832ColorectumMSScellular response to steroid hormone stimulus72/3467204/187238.87e-095.43e-0772
GO:00434012ColorectumMSSsteroid hormone mediated signaling pathway51/3467136/187231.43e-076.67e-0651
GO:00305222ColorectumMSSintracellular receptor signaling pathway84/3467265/187231.47e-076.79e-0684
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa0466612CervixCCFc gamma R-mediated phagocytosis31/126797/84651.78e-051.42e-048.40e-0531
hsa0466613CervixCCFc gamma R-mediated phagocytosis31/126797/84651.78e-051.42e-048.40e-0531
hsa04666ColorectumADFc gamma R-mediated phagocytosis46/209297/84659.10e-071.22e-057.77e-0646
hsa00561ColorectumADGlycerolipid metabolism24/209263/84651.25e-024.54e-022.90e-0224
hsa046661ColorectumADFc gamma R-mediated phagocytosis46/209297/84659.10e-071.22e-057.77e-0646
hsa005611ColorectumADGlycerolipid metabolism24/209263/84651.25e-024.54e-022.90e-0224
hsa046664ColorectumMSSFc gamma R-mediated phagocytosis45/187597/84659.30e-081.56e-069.55e-0745
hsa05231ColorectumMSSCholine metabolism in cancer34/187598/84652.90e-031.39e-028.50e-0334
hsa005612ColorectumMSSGlycerolipid metabolism23/187563/84656.55e-032.64e-021.62e-0223
hsa046665ColorectumMSSFc gamma R-mediated phagocytosis45/187597/84659.30e-081.56e-069.55e-0745
hsa052311ColorectumMSSCholine metabolism in cancer34/187598/84652.90e-031.39e-028.50e-0334
hsa005613ColorectumMSSGlycerolipid metabolism23/187563/84656.55e-032.64e-021.62e-0223
hsa046666ColorectumFAPFc gamma R-mediated phagocytosis35/140497/84652.46e-064.28e-052.60e-0535
hsa052312ColorectumFAPCholine metabolism in cancer29/140498/84659.03e-045.20e-033.16e-0329
hsa046667ColorectumFAPFc gamma R-mediated phagocytosis35/140497/84652.46e-064.28e-052.60e-0535
hsa052313ColorectumFAPCholine metabolism in cancer29/140498/84659.03e-045.20e-033.16e-0329
hsa046668ColorectumCRCFc gamma R-mediated phagocytosis27/109197/84656.24e-051.12e-037.57e-0427
hsa052314ColorectumCRCCholine metabolism in cancer24/109198/84651.21e-039.84e-036.67e-0324
hsa046669ColorectumCRCFc gamma R-mediated phagocytosis27/109197/84656.24e-051.12e-037.57e-0427
hsa052315ColorectumCRCCholine metabolism in cancer24/109198/84651.21e-039.84e-036.67e-0324
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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
PLPP1SNVMissense_Mutationnovelc.350C>Gp.Thr117Serp.T117SO14494protein_codingdeleterious(0)possibly_damaging(0.834)TCGA-GM-A3NW-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapyfluorouracilSD
PLPP1SNVMissense_Mutationrs757205685c.580G>Ap.Asp194Asnp.D194NO14494protein_codingtolerated(0.1)possibly_damaging(0.479)TCGA-DS-A1OB-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycarboplatinPD
PLPP1SNVMissense_Mutationc.761G>Tp.Arg254Ilep.R254IO14494protein_codingdeleterious(0)possibly_damaging(0.514)TCGA-AG-A002-01Colorectumrectum adenocarcinomaMale<65I/IIUnknownUnknownSD
PLPP1SNVMissense_Mutationc.548N>Cp.Val183Alap.V183AO14494protein_codingdeleterious(0)benign(0.167)TCGA-A5-A0GW-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIUnknownUnknownSD
PLPP1SNVMissense_Mutationc.112N>Tp.Gly38Cysp.G38CO14494protein_codingdeleterious(0)probably_damaging(1)TCGA-AP-A059-01Endometriumuterine corpus endometrioid carcinomaFemale>=65I/IIUnknownUnknownSD
PLPP1SNVMissense_Mutationnovelc.303N>Cp.Lys101Asnp.K101NO14494protein_codingdeleterious(0)probably_damaging(0.99)TCGA-AX-A05Z-01Endometriumuterine corpus endometrioid carcinomaFemale<65III/IVChemotherapyadriamycinSD
PLPP1SNVMissense_Mutationc.302N>Cp.Lys101Thrp.K101TO14494protein_codingdeleterious(0)probably_damaging(0.985)TCGA-AX-A0J0-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIUnknownUnknownSD
PLPP1SNVMissense_Mutationnovelc.479G>Cp.Arg160Thrp.R160TO14494protein_codingtolerated(0.21)benign(0.017)TCGA-B5-A3S1-01Endometriumuterine corpus endometrioid carcinomaFemale>=65III/IVChemotherapypaclitaxelSD
PLPP1SNVMissense_Mutationc.305C>Tp.Ala102Valp.A102VO14494protein_codingtolerated(0.61)possibly_damaging(0.619)TCGA-D1-A103-01Endometriumuterine corpus endometrioid carcinomaFemale>=65I/IIUnknownUnknownSD
PLPP1SNVMissense_Mutationc.745G>Ap.Asp249Asnp.D249NO14494protein_codingtolerated(0.09)benign(0.134)TCGA-D1-A16Y-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
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