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: SGPL1

Gene summary for SGPL1

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

SGPL1

Gene ID

8879

Gene namesphingosine-1-phosphate lyase 1
Gene AliasNPHS14
Cytomap10q22.1
Gene Typeprotein-coding
GO ID

GO:0000003

UniProtAcc

O95470


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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
8879SGPL1HTA11_1938_2000001011HumanColorectumAD2.66e-034.70e-01-0.0811
8879SGPL1HTA11_78_2000001011HumanColorectumAD5.20e-033.67e-01-0.1088
8879SGPL1HTA11_347_2000001011HumanColorectumAD8.90e-166.13e-01-0.1954
8879SGPL1A015-C-203HumanColorectumFAP6.22e-16-3.16e-01-0.1294
8879SGPL1A002-C-201HumanColorectumFAP2.17e-04-2.15e-010.0324
8879SGPL1A001-C-108HumanColorectumFAP5.03e-09-2.00e-01-0.0272
8879SGPL1A002-C-205HumanColorectumFAP5.86e-06-2.26e-01-0.1236
8879SGPL1A001-C-104HumanColorectumFAP2.35e-02-1.55e-010.0184
8879SGPL1A015-C-006HumanColorectumFAP1.60e-05-3.16e-01-0.0994
8879SGPL1A015-C-106HumanColorectumFAP5.91e-09-2.26e-01-0.0511
8879SGPL1A002-C-114HumanColorectumFAP7.35e-06-2.88e-01-0.1561
8879SGPL1A015-C-104HumanColorectumFAP1.12e-12-2.48e-01-0.1899
8879SGPL1A001-C-014HumanColorectumFAP2.43e-08-2.35e-010.0135
8879SGPL1A002-C-016HumanColorectumFAP3.18e-08-2.04e-010.0521
8879SGPL1A015-C-002HumanColorectumFAP2.41e-03-2.82e-01-0.0763
8879SGPL1A001-C-203HumanColorectumFAP9.75e-08-1.97e-01-0.0481
8879SGPL1A002-C-116HumanColorectumFAP4.06e-12-2.54e-01-0.0452
8879SGPL1A014-C-008HumanColorectumFAP2.01e-04-2.86e-01-0.191
8879SGPL1A018-E-020HumanColorectumFAP4.09e-05-2.07e-01-0.2034
8879SGPL1F034HumanColorectumFAP4.34e-09-1.77e-01-0.0665
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check button Transcriptomic changes along malignancy continuum.
TissueExpression DynamicsAbbreviation
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
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
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:0001570ColorectumCRCvasculogenesis17/207880/187236.09e-034.47e-0217
GO:0048705ColorectumCRCskeletal system morphogenesis37/2078220/187236.58e-034.71e-0237
GO:00480081ColorectumCRCplatelet-derived growth factor receptor signaling pathway13/207856/187237.26e-034.98e-0213
GO:00066433EsophagusESCCmembrane lipid metabolic process130/8552203/187239.29e-081.54e-06130
GO:0061458110EsophagusESCCreproductive system development247/8552427/187232.24e-073.42e-06247
GO:004860818EsophagusESCCreproductive structure development245/8552424/187232.82e-074.14e-06245
GO:00464673EsophagusESCCmembrane lipid biosynthetic process91/8552142/187237.19e-067.19e-0591
GO:00480087EsophagusESCCplatelet-derived growth factor receptor signaling pathway42/855256/187237.62e-067.54e-0542
GO:00097919EsophagusESCCpost-embryonic development56/855280/187239.08e-068.71e-0556
GO:00603242EsophagusESCCface development34/855244/187231.90e-051.67e-0434
GO:00066652EsophagusESCCsphingolipid metabolic process96/8552155/187233.21e-052.66e-0496
GO:00066318EsophagusESCCfatty acid metabolic process217/8552390/187234.21e-053.39e-04217
GO:00352647EsophagusESCCmulticellular organism growth80/8552132/187233.84e-042.22e-0380
GO:004851118EsophagusESCCrhythmic process164/8552298/187236.80e-043.57e-03164
GO:00442427EsophagusESCCcellular lipid catabolic process121/8552214/187238.63e-044.43e-03121
GO:00101711EsophagusESCCbody morphogenesis30/855243/187231.21e-035.88e-0330
GO:000166720EsophagusESCCameboidal-type cell migration250/8552475/187231.22e-035.97e-03250
GO:00603253EsophagusESCCface morphogenesis21/855228/187231.57e-037.33e-0321
GO:00107619EsophagusESCCfibroblast migration32/855247/187231.59e-037.43e-0332
GO:00301481EsophagusESCCsphingolipid biosynthetic process62/8552103/187232.10e-039.38e-0362
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa04071ColorectumADSphingolipid signaling pathway43/2092121/84654.83e-032.28e-021.45e-0243
hsa040711ColorectumADSphingolipid signaling pathway43/2092121/84654.83e-032.28e-021.45e-0243
hsa040714ColorectumFAPSphingolipid signaling pathway34/1404121/84659.53e-045.22e-033.17e-0334
hsa040715ColorectumFAPSphingolipid signaling pathway34/1404121/84659.53e-045.22e-033.17e-0334
hsa040716ColorectumCRCSphingolipid signaling pathway30/1091121/84652.49e-043.09e-032.09e-0330
hsa040717ColorectumCRCSphingolipid signaling pathway30/1091121/84652.49e-043.09e-032.09e-0330
hsa0407116EsophagusESCCSphingolipid signaling pathway85/4205121/84653.04e-061.73e-058.84e-0685
hsa006003EsophagusESCCSphingolipid metabolism36/420553/84655.41e-031.36e-026.99e-0336
hsa0407117EsophagusESCCSphingolipid signaling pathway85/4205121/84653.04e-061.73e-058.84e-0685
hsa0060012EsophagusESCCSphingolipid metabolism36/420553/84655.41e-031.36e-026.99e-0336
hsa040718LiverHCCSphingolipid signaling pathway72/4020121/84655.01e-031.47e-028.18e-0372
hsa00600LiverHCCSphingolipid metabolism34/402053/84651.06e-022.71e-021.51e-0234
hsa0407111LiverHCCSphingolipid signaling pathway72/4020121/84655.01e-031.47e-028.18e-0372
hsa006001LiverHCCSphingolipid metabolism34/402053/84651.06e-022.71e-021.51e-0234
hsa0407114Oral cavityOSCCSphingolipid signaling pathway82/3704121/84656.97e-085.08e-072.58e-0782
hsa006002Oral cavityOSCCSphingolipid metabolism33/370453/84655.00e-031.20e-026.13e-0333
hsa0407115Oral cavityOSCCSphingolipid signaling pathway82/3704121/84656.97e-085.08e-072.58e-0782
hsa0060011Oral cavityOSCCSphingolipid metabolism33/370453/84655.00e-031.20e-026.13e-0333
hsa0407122Oral cavityLPSphingolipid signaling pathway48/2418121/84655.30e-032.15e-021.39e-0248
hsa0407132Oral cavityLPSphingolipid signaling pathway48/2418121/84655.30e-032.15e-021.39e-0248
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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
SGPL1SNVMissense_Mutationnovelc.95N>Ap.Gly32Glup.G32EO95470protein_codingtolerated(0.9)benign(0.003)TCGA-AN-A046-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
SGPL1SNVMissense_Mutationnovelc.190G>Ap.Glu64Lysp.E64KO95470protein_codingdeleterious(0.03)benign(0.418)TCGA-BH-A2L8-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapycytoxanCR
SGPL1insertionNonsense_Mutationnovelc.1554_1555insTTAATTAGGGGGTCAGATGTTCTATAAGGAAACCAGTTACATp.Lys518_Thr519insLeuIleArgGlySerAspValLeuTerGlyAsnGlnLeuHisp.K518_T519insLIRGSDVL*GNQLHO95470protein_codingTCGA-A2-A04V-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapycytoxanPD
SGPL1insertionNonsense_Mutationnovelc.1562_1563insGCGATATAGAGGGCTTAGGGCAGCAGCTTAGGGCTTAGGCCAGACCp.Met522ArgfsTer10p.M522Rfs*10O95470protein_codingTCGA-A8-A06P-01Breastbreast invasive carcinomaFemale<65III/IVUnspecificSD
SGPL1SNVMissense_Mutationnovelc.186G>Tp.Gln62Hisp.Q62HO95470protein_codingtolerated(0.07)benign(0.067)TCGA-2W-A8YY-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
SGPL1SNVMissense_Mutationnovelc.286A>Gp.Lys96Glup.K96EO95470protein_codingtolerated(0.96)benign(0.007)TCGA-2W-A8YY-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
SGPL1SNVMissense_Mutationnovelc.1679A>Gp.Gln560Argp.Q560RO95470protein_codingtolerated(0.16)benign(0.05)TCGA-C5-A1MN-01Cervixcervical & endocervical cancerFemale<65III/IVChemotherapycisplatinSD
SGPL1SNVMissense_Mutationc.1282N>Tp.Arg428Cysp.R428CO95470protein_codingdeleterious(0)probably_damaging(0.978)TCGA-DS-A0VM-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinPD
SGPL1SNVMissense_Mutationnovelc.494G>Tp.Gly165Valp.G165VO95470protein_codingdeleterious(0.01)benign(0.071)TCGA-IR-A3LA-01Cervixcervical & endocervical cancerFemale<65I/IIChemotherapycisplatinCR
SGPL1SNVMissense_Mutationc.306N>Ap.Asn102Lysp.N102KO95470protein_codingtolerated(0.6)benign(0)TCGA-A6-A565-01Colorectumcolon adenocarcinomaFemale<65III/IVUnspecific5FUPD
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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
8879SGPL1ENZYME, DRUGGABLE GENOMEinhibitor252166675
8879SGPL1ENZYME, DRUGGABLE GENOMELX2931LX-2931
8879SGPL1ENZYME, DRUGGABLE GENOMELX3305LX-2931
8879SGPL1ENZYME, DRUGGABLE GENOMEinhibitor363894145LX-2931
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