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: MAGED1

Gene summary for MAGED1

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

MAGED1

Gene ID

9500

Gene nameMAGE family member D1
Gene AliasDLXIN-1
CytomapXp11.22
Gene Typeprotein-coding
GO ID

GO:0000122

UniProtAcc

Q9Y5V3


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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
9500MAGED1HTA11_3410_2000001011HumanColorectumAD9.46e-10-4.06e-010.0155
9500MAGED1HTA11_347_2000001011HumanColorectumAD5.03e-044.59e-01-0.1954
9500MAGED1HTA11_99999965104_69814HumanColorectumMSS3.44e-056.25e-010.281
9500MAGED1F007HumanColorectumFAP7.16e-07-4.59e-010.1176
9500MAGED1A001-C-207HumanColorectumFAP3.43e-12-4.98e-010.1278
9500MAGED1A015-C-203HumanColorectumFAP1.09e-37-6.64e-01-0.1294
9500MAGED1A015-C-204HumanColorectumFAP8.02e-08-3.71e-01-0.0228
9500MAGED1A014-C-040HumanColorectumFAP3.51e-10-6.98e-01-0.1184
9500MAGED1A002-C-201HumanColorectumFAP1.18e-20-4.41e-010.0324
9500MAGED1A001-C-119HumanColorectumFAP1.44e-22-8.24e-01-0.1557
9500MAGED1A001-C-108HumanColorectumFAP9.52e-24-5.78e-01-0.0272
9500MAGED1A002-C-205HumanColorectumFAP1.78e-36-7.01e-01-0.1236
9500MAGED1A001-C-104HumanColorectumFAP1.88e-06-4.34e-010.0184
9500MAGED1A015-C-005HumanColorectumFAP1.02e-05-3.51e-01-0.0336
9500MAGED1A015-C-006HumanColorectumFAP4.16e-26-7.71e-01-0.0994
9500MAGED1A015-C-106HumanColorectumFAP4.78e-16-5.02e-01-0.0511
9500MAGED1A002-C-114HumanColorectumFAP2.82e-32-7.18e-01-0.1561
9500MAGED1A015-C-104HumanColorectumFAP6.53e-41-7.55e-01-0.1899
9500MAGED1A001-C-014HumanColorectumFAP5.93e-26-6.53e-010.0135
9500MAGED1A002-C-016HumanColorectumFAP3.09e-28-5.26e-010.0521
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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
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.

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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:2001233ColorectumADregulation of apoptotic signaling pathway119/3918356/187232.14e-081.21e-06119
GO:1900180ColorectumADregulation of protein localization to nucleus55/3918136/187231.70e-077.34e-0655
GO:0034504ColorectumADprotein localization to nucleus94/3918290/187232.83e-068.09e-0594
GO:0007623ColorectumADcircadian rhythm72/3918210/187234.50e-061.21e-0472
GO:0048511ColorectumADrhythmic process94/3918298/187231.00e-052.34e-0494
GO:0033674ColorectumADpositive regulation of kinase activity131/3918467/187231.28e-041.85e-03131
GO:0060562ColorectumADepithelial tube morphogenesis93/3918325/187235.65e-046.00e-0393
GO:2001235ColorectumADpositive regulation of apoptotic signaling pathway42/3918126/187237.85e-047.84e-0342
GO:0045860ColorectumADpositive regulation of protein kinase activity107/3918386/187238.01e-047.92e-03107
GO:0050673ColorectumADepithelial cell proliferation119/3918437/187238.75e-048.51e-03119
GO:1903828ColorectumADnegative regulation of cellular protein localization39/3918117/187231.18e-031.06e-0239
GO:0042752ColorectumADregulation of circadian rhythm40/3918121/187231.24e-031.09e-0240
GO:0071900ColorectumADregulation of protein serine/threonine kinase activity98/3918359/187232.18e-031.73e-0298
GO:0072073ColorectumADkidney epithelium development42/3918136/187234.02e-032.80e-0242
GO:0071902ColorectumADpositive regulation of protein serine/threonine kinase activity58/3918200/187234.09e-032.84e-0258
GO:0001763ColorectumADmorphogenesis of a branching structure56/3918196/187236.60e-034.09e-0256
GO:20012332ColorectumMSSregulation of apoptotic signaling pathway116/3467356/187231.02e-101.06e-08116
GO:19001802ColorectumMSSregulation of protein localization to nucleus54/3467136/187236.20e-093.95e-0754
GO:00345042ColorectumMSSprotein localization to nucleus92/3467290/187233.66e-081.98e-0692
GO:00076232ColorectumMSScircadian rhythm69/3467210/187234.22e-071.67e-0569
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa04722ColorectumADNeurotrophin signaling pathway50/2092119/84652.28e-052.24e-041.43e-0450
hsa047221ColorectumADNeurotrophin signaling pathway50/2092119/84652.28e-052.24e-041.43e-0450
hsa047224ColorectumMSSNeurotrophin signaling pathway45/1875119/84657.04e-056.55e-044.02e-0445
hsa047225ColorectumMSSNeurotrophin signaling pathway45/1875119/84657.04e-056.55e-044.02e-0445
hsa047226ColorectumFAPNeurotrophin signaling pathway38/1404119/84652.49e-052.78e-041.69e-0438
hsa047227ColorectumFAPNeurotrophin signaling pathway38/1404119/84652.49e-052.78e-041.69e-0438
hsa047228ColorectumCRCNeurotrophin signaling pathway33/1091119/84651.08e-053.00e-042.04e-0433
hsa047229ColorectumCRCNeurotrophin signaling pathway33/1091119/84651.08e-053.00e-042.04e-0433
hsa0472225EsophagusESCCNeurotrophin signaling pathway80/4205119/84657.33e-053.07e-041.57e-0480
hsa04722111EsophagusESCCNeurotrophin signaling pathway80/4205119/84657.33e-053.07e-041.57e-0480
hsa0472210LiverHCCNeurotrophin signaling pathway74/4020119/84658.27e-043.26e-031.81e-0374
hsa0472211LiverHCCNeurotrophin signaling pathway74/4020119/84658.27e-043.26e-031.81e-0374
hsa0472220Oral cavityOSCCNeurotrophin signaling pathway74/3704119/84653.55e-051.49e-047.58e-0574
hsa04722110Oral cavityOSCCNeurotrophin signaling pathway74/3704119/84653.55e-051.49e-047.58e-0574
hsa0472224Oral cavityLPNeurotrophin signaling pathway46/2418119/84651.07e-023.77e-022.43e-0246
hsa0472234Oral cavityLPNeurotrophin signaling pathway46/2418119/84651.07e-023.77e-022.43e-0246
hsa0472218ProstateBPHNeurotrophin signaling pathway38/1718119/84651.76e-037.16e-034.43e-0338
hsa0472219ProstateBPHNeurotrophin signaling pathway38/1718119/84651.76e-037.16e-034.43e-0338
hsa0472223ProstateTumorNeurotrophin signaling pathway39/1791119/84652.01e-038.10e-035.02e-0339
hsa0472233ProstateTumorNeurotrophin signaling pathway39/1791119/84652.01e-038.10e-035.02e-0339
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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
MAGED1SNVMissense_Mutationnovelc.2408N>Tp.Pro803Leup.P803LQ9Y5V3protein_codingdeleterious_low_confidence(0)probably_damaging(0.943)TCGA-A2-A4S1-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownSD
MAGED1SNVMissense_Mutationrs782818810c.371N>Tp.Ser124Leup.S124LQ9Y5V3protein_codingtolerated_low_confidence(1)benign(0.01)TCGA-A8-A0A2-01Breastbreast invasive carcinomaFemale>=65I/IIHormone TherapytamoxiphenSD
MAGED1SNVMissense_Mutationc.2138N>Cp.Arg713Thrp.R713TQ9Y5V3protein_codingtolerated_low_confidence(0.17)benign(0.21)TCGA-AC-A23H-01Breastbreast invasive carcinomaFemale>=65I/IIUnknownUnknownPD
MAGED1SNVMissense_Mutationnovelc.805N>Ap.Glu269Lysp.E269KQ9Y5V3protein_codingtolerated_low_confidence(0.28)benign(0.175)TCGA-AO-A0JC-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapyfluorouracilSD
MAGED1SNVMissense_Mutationnovelc.360C>Ap.Asp120Glup.D120EQ9Y5V3protein_codingdeleterious_low_confidence(0.01)probably_damaging(0.991)TCGA-B6-A0RE-01Breastbreast invasive carcinomaFemale<65I/IIUnknownUnknownSD
MAGED1SNVMissense_Mutationc.1936G>Ap.Gly646Argp.G646RQ9Y5V3protein_codingtolerated_low_confidence(0.06)probably_damaging(0.999)TCGA-BH-A0HF-01Breastbreast invasive carcinomaFemale>=65I/IIHormone TherapyarimidexSD
MAGED1SNVMissense_Mutationc.680N>Tp.Asp227Valp.D227VQ9Y5V3protein_codingdeleterious_low_confidence(0)possibly_damaging(0.642)TCGA-D8-A1JI-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapydoxorubicineSD
MAGED1SNVMissense_Mutationnovelc.2395N>Tp.Arg799Cysp.R799CQ9Y5V3protein_codingdeleterious_low_confidence(0)possibly_damaging(0.725)TCGA-E9-A6HE-01Breastbreast invasive carcinomaFemale<65III/IVChemotherapyadriamycinCR
MAGED1SNVMissense_Mutationnovelc.2461T>Gp.Phe821Valp.F821VQ9Y5V3protein_codingtolerated_low_confidence(0.08)probably_damaging(0.969)TCGA-EW-A1PC-01Breastbreast invasive carcinomaFemale>=65I/IIHormone TherapytamoxiphenSD
MAGED1deletionIn_Frame_Delnovelc.1288_1305delNNNNNNNNNNNNNNNNNNp.Asn432_Gln437delp.N432_Q437delQ9Y5V3protein_codingTCGA-D8-A1XK-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapydoxorubicine+cyclophosphamideSD
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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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