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: DGKD

Gene summary for DGKD

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

DGKD

Gene ID

8527

Gene namediacylglycerol kinase delta
Gene AliasDGK-delta
Cytomap2q37.1
Gene Typeprotein-coding
GO ID

GO:0001775

UniProtAcc

A0A024R495


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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
8527DGKDHTA11_3410_2000001011HumanColorectumAD1.67e-11-5.41e-010.0155
8527DGKDHTA11_866_3004761011HumanColorectumAD2.80e-03-4.03e-010.096
8527DGKDHTA11_99999970781_79442HumanColorectumMSS8.20e-06-3.62e-010.294
8527DGKDA002-C-010HumanColorectumFAP1.03e-02-6.95e-020.242
8527DGKDA015-C-203HumanColorectumFAP2.76e-26-7.13e-02-0.1294
8527DGKDA015-C-204HumanColorectumFAP3.85e-02-2.40e-01-0.0228
8527DGKDA014-C-040HumanColorectumFAP1.02e-02-1.83e-01-0.1184
8527DGKDA002-C-201HumanColorectumFAP3.23e-09-2.62e-010.0324
8527DGKDA001-C-119HumanColorectumFAP1.21e-02-2.77e-01-0.1557
8527DGKDA001-C-108HumanColorectumFAP9.18e-15-4.44e-02-0.0272
8527DGKDA002-C-205HumanColorectumFAP4.24e-16-3.81e-01-0.1236
8527DGKDA015-C-006HumanColorectumFAP2.64e-09-9.66e-02-0.0994
8527DGKDA015-C-106HumanColorectumFAP1.29e-102.30e-02-0.0511
8527DGKDA002-C-114HumanColorectumFAP1.85e-13-1.82e-01-0.1561
8527DGKDA015-C-104HumanColorectumFAP5.25e-27-8.71e-02-0.1899
8527DGKDA001-C-014HumanColorectumFAP9.82e-12-1.44e-010.0135
8527DGKDA002-C-016HumanColorectumFAP7.31e-18-3.19e-010.0521
8527DGKDA015-C-002HumanColorectumFAP1.14e-06-2.70e-01-0.0763
8527DGKDA001-C-203HumanColorectumFAP2.52e-08-3.46e-02-0.0481
8527DGKDA002-C-116HumanColorectumFAP1.71e-30-4.17e-01-0.0452
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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
LungThe 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.AAH: Atypical adenomatous hyperplasia
AIS: Adenocarcinoma in situ
IAC: Invasive lung adenocarcinoma
MIA: Minimally invasive adenocarcinoma
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:0038127ColorectumADERBB signaling pathway55/3918121/187231.19e-098.85e-0855
GO:0007173ColorectumADepidermal growth factor receptor signaling pathway50/3918108/187233.08e-092.07e-0750
GO:0042060ColorectumADwound healing128/3918422/187232.73e-067.89e-05128
GO:0072583ColorectumADclathrin-dependent endocytosis24/391847/187234.60e-061.22e-0424
GO:1901184ColorectumADregulation of ERBB signaling pathway34/391879/187237.46e-061.82e-0434
GO:0042058ColorectumADregulation of epidermal growth factor receptor signaling pathway31/391873/187232.56e-054.89e-0431
GO:0006898ColorectumADreceptor-mediated endocytosis76/3918244/187231.07e-041.59e-0376
GO:0030100ColorectumADregulation of endocytosis67/3918211/187231.42e-042.01e-0367
GO:0030258ColorectumADlipid modification67/3918212/187231.66e-042.27e-0367
GO:0050878ColorectumADregulation of body fluid levels108/3918379/187232.54e-043.20e-03108
GO:0045807ColorectumADpositive regulation of endocytosis35/3918100/187237.78e-047.78e-0335
GO:0048260ColorectumADpositive regulation of receptor-mediated endocytosis20/391852/187232.87e-032.14e-0220
GO:0048259ColorectumADregulation of receptor-mediated endocytosis35/3918110/187234.85e-033.27e-0235
GO:0006650ColorectumADglycerophospholipid metabolic process83/3918306/187235.40e-033.55e-0283
GO:0006644ColorectumADphospholipid metabolic process101/3918383/187235.80e-033.67e-02101
GO:0045017ColorectumADglycerolipid biosynthetic process69/3918252/187238.33e-034.88e-0269
GO:00071732ColorectumMSSepidermal growth factor receptor signaling pathway43/3467108/187231.92e-078.31e-0643
GO:00381272ColorectumMSSERBB signaling pathway46/3467121/187233.63e-071.45e-0546
GO:00420602ColorectumMSSwound healing119/3467422/187235.93e-072.24e-05119
GO:00725831ColorectumMSSclathrin-dependent endocytosis22/346747/187238.74e-062.16e-0422
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa00561ColorectumADGlycerolipid metabolism24/209263/84651.25e-024.54e-022.90e-0224
hsa005611ColorectumADGlycerolipid metabolism24/209263/84651.25e-024.54e-022.90e-0224
hsa05231ColorectumMSSCholine metabolism in cancer34/187598/84652.90e-031.39e-028.50e-0334
hsa005612ColorectumMSSGlycerolipid metabolism23/187563/84656.55e-032.64e-021.62e-0223
hsa052311ColorectumMSSCholine metabolism in cancer34/187598/84652.90e-031.39e-028.50e-0334
hsa005613ColorectumMSSGlycerolipid metabolism23/187563/84656.55e-032.64e-021.62e-0223
hsa052312ColorectumFAPCholine metabolism in cancer29/140498/84659.03e-045.20e-033.16e-0329
hsa052313ColorectumFAPCholine metabolism in cancer29/140498/84659.03e-045.20e-033.16e-0329
hsa04070ColorectumCRCPhosphatidylinositol signaling system25/109197/84654.27e-044.60e-033.12e-0325
hsa052314ColorectumCRCCholine metabolism in cancer24/109198/84651.21e-039.84e-036.67e-0324
hsa040701ColorectumCRCPhosphatidylinositol signaling system25/109197/84654.27e-044.60e-033.12e-0325
hsa052315ColorectumCRCCholine metabolism in cancer24/109198/84651.21e-039.84e-036.67e-0324
hsa052319EsophagusESCCCholine metabolism in cancer61/420598/84657.97e-031.92e-029.84e-0361
hsa0523114EsophagusESCCCholine metabolism in cancer61/420598/84657.97e-031.92e-029.84e-0361
hsa005615LiverHCCGlycerolipid metabolism41/402063/84653.59e-031.12e-026.22e-0341
hsa052316LiverHCCCholine metabolism in cancer57/402098/84652.14e-024.90e-022.72e-0257
hsa0056112LiverHCCGlycerolipid metabolism41/402063/84653.59e-031.12e-026.22e-0341
hsa0523111LiverHCCCholine metabolism in cancer57/402098/84652.14e-024.90e-022.72e-0257
hsa052317LungIACCholine metabolism in cancer23/105398/84651.72e-039.66e-036.41e-0323
hsa04072LungIACPhospholipase D signaling pathway28/1053148/84651.46e-025.00e-023.32e-0228
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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
DGKDSNVMissense_Mutationc.1259N>Tp.Ser420Leup.S420LQ16760protein_codingdeleterious(0.01)benign(0.358)TCGA-AC-A23H-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownPD
DGKDSNVMissense_Mutationrs754657046c.1396N>Ap.Glu466Lysp.E466KQ16760protein_codingtolerated(0.22)benign(0.047)TCGA-AN-A046-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
DGKDSNVMissense_Mutationrs753381810c.1663N>Ap.Asp555Asnp.D555NQ16760protein_codingdeleterious(0.03)benign(0.067)TCGA-AQ-A04H-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapytaxotereSD
DGKDSNVMissense_Mutationc.583N>Ap.Glu195Lysp.E195KQ16760protein_codingdeleterious(0.02)benign(0.381)TCGA-BH-A0HF-01Breastbreast invasive carcinomaFemale>=65I/IIHormone TherapyarimidexSD
DGKDSNVMissense_Mutationc.1421T>Cp.Val474Alap.V474AQ16760protein_codingtolerated(0.26)benign(0.01)TCGA-BH-A18G-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
DGKDSNVMissense_Mutationrs758673209c.896N>Tp.Thr299Metp.T299MQ16760protein_codingdeleterious(0)benign(0.295)TCGA-D8-A1JA-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapyadriamycinPD
DGKDSNVMissense_Mutationc.3572N>Tp.Lys1191Metp.K1191MQ16760protein_codingdeleterious(0)probably_damaging(1)TCGA-EW-A1P4-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapydocetaxelSD
DGKDSNVMissense_Mutationnovelc.2219N>Tp.Arg740Leup.R740LQ16760protein_codingtolerated(0.73)benign(0.006)TCGA-GM-A3XG-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapypaclitaxelCR
DGKDSNVMissense_Mutationnovelc.1081N>Ap.Leu361Ilep.L361IQ16760protein_codingtolerated(0.06)possibly_damaging(0.524)TCGA-OL-A66J-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
DGKDinsertionFrame_Shift_Insnovelc.265_266insTTGATGGCGTGTCGGGCTGGGGGCTTTCTGCAGCCTTCCCTGTTCCp.Lys89IlefsTer21p.K89Ifs*21Q16760protein_codingTCGA-A2-A0EQ-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapyadriamycinSD
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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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