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: KDELR2

Gene summary for KDELR2

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

KDELR2

Gene ID

11014

Gene nameKDEL endoplasmic reticulum protein retention receptor 2
Gene AliasELP-1
Cytomap7p22.1
Gene Typeprotein-coding
GO ID

GO:0006621

UniProtAcc

P33947


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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
11014KDELR2GSM4909281HumanBreastIDC7.42e-196.18e-010.21
11014KDELR2GSM4909282HumanBreastIDC2.41e-367.74e-01-0.0288
11014KDELR2GSM4909285HumanBreastIDC1.51e-033.04e-010.21
11014KDELR2GSM4909286HumanBreastIDC9.28e-03-2.45e-010.1081
11014KDELR2GSM4909287HumanBreastIDC1.59e-032.89e-010.2057
11014KDELR2GSM4909288HumanBreastIDC1.11e-041.32e-010.0988
11014KDELR2GSM4909290HumanBreastIDC1.43e-307.41e-010.2096
11014KDELR2GSM4909291HumanBreastIDC2.57e-115.02e-010.1753
11014KDELR2GSM4909296HumanBreastIDC1.78e-113.64e-010.1524
11014KDELR2GSM4909297HumanBreastIDC2.24e-11-1.83e-010.1517
11014KDELR2GSM4909304HumanBreastIDC4.74e-125.01e-010.1636
11014KDELR2GSM4909308HumanBreastIDC3.21e-246.04e-010.158
11014KDELR2GSM4909311HumanBreastIDC4.04e-31-3.35e-020.1534
11014KDELR2GSM4909312HumanBreastIDC3.07e-225.07e-010.1552
11014KDELR2GSM4909313HumanBreastIDC5.60e-031.05e-010.0391
11014KDELR2GSM4909315HumanBreastIDC1.51e-216.02e-010.21
11014KDELR2GSM4909316HumanBreastIDC1.71e-247.11e-010.21
11014KDELR2GSM4909319HumanBreastIDC4.13e-33-1.88e-010.1563
11014KDELR2GSM4909320HumanBreastIDC4.43e-05-3.46e-010.1575
11014KDELR2GSM4909321HumanBreastIDC3.82e-109.49e-020.1559
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check button Transcriptomic changes along malignancy continuum.
TissueExpression DynamicsAbbreviation
BreastThe 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.IDC: Invasive ductal carcinoma
DCIS: Ductal carcinoma in situ
Precancer(BRCA1-mut): Precancerous lesion from BRCA1 mutation carriers
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
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:00451859BreastPrecancermaintenance of protein location19/108094/187231.43e-065.35e-0519
GO:00512358BreastPrecancermaintenance of location40/1080327/187235.85e-061.71e-0440
GO:00516519BreastPrecancermaintenance of location in cell30/1080214/187235.91e-061.71e-0430
GO:00325076BreastPrecancermaintenance of protein location in cell14/108065/187231.59e-053.89e-0414
GO:00709725BreastPrecancerprotein localization to endoplasmic reticulum15/108074/187231.74e-054.17e-0415
GO:00725954BreastPrecancermaintenance of protein localization in organelle10/108042/187231.06e-041.93e-0310
GO:00354373BreastPrecancermaintenance of protein localization in endoplasmic reticulum4/108014/187236.92e-034.67e-024
GO:005165114BreastIDCmaintenance of location in cell37/1434214/187232.39e-069.35e-0537
GO:004518514BreastIDCmaintenance of protein location21/143494/187236.69e-062.05e-0421
GO:007097213BreastIDCprotein localization to endoplasmic reticulum18/143474/187238.58e-062.47e-0418
GO:005123513BreastIDCmaintenance of location48/1434327/187239.90e-062.77e-0448
GO:003250714BreastIDCmaintenance of protein location in cell16/143465/187232.29e-055.51e-0416
GO:007259512BreastIDCmaintenance of protein localization in organelle12/143442/187234.94e-051.08e-0312
GO:00354371BreastIDCmaintenance of protein localization in endoplasmic reticulum6/143414/187233.50e-045.13e-036
GO:00068906BreastIDCretrograde vesicle-mediated transport, Golgi to endoplasmic reticulum10/143452/187235.49e-034.03e-0210
GO:005165123BreastDCISmaintenance of location in cell36/1390214/187233.07e-061.02e-0436
GO:004518521BreastDCISmaintenance of protein location21/139094/187234.12e-061.24e-0421
GO:007097222BreastDCISprotein localization to endoplasmic reticulum18/139074/187235.57e-061.60e-0418
GO:005123523BreastDCISmaintenance of location47/1390327/187239.55e-062.56e-0447
GO:003250722BreastDCISmaintenance of protein location in cell16/139065/187231.56e-053.79e-0416
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
hsa0511014BreastPrecancerVibrio cholerae infection14/68450/84652.67e-052.64e-042.02e-0414
hsa0511015BreastPrecancerVibrio cholerae infection14/68450/84652.67e-052.64e-042.02e-0414
hsa0511022BreastIDCVibrio cholerae infection17/86750/84654.82e-066.82e-055.10e-0517
hsa0511032BreastIDCVibrio cholerae infection17/86750/84654.82e-066.82e-055.10e-0517
hsa0511041BreastDCISVibrio cholerae infection17/84650/84653.45e-064.45e-053.28e-0517
hsa0511051BreastDCISVibrio cholerae infection17/84650/84653.45e-064.45e-053.28e-0517
hsa0511016CervixCCVibrio cholerae infection18/126750/84651.91e-041.11e-036.55e-0418
hsa0511017CervixCCVibrio cholerae infection18/126750/84651.91e-041.11e-036.55e-0418
hsa0511023CervixN_HPVVibrio cholerae infection8/34950/84659.07e-046.49e-035.08e-038
hsa0511033CervixN_HPVVibrio cholerae infection8/34950/84659.07e-046.49e-035.08e-038
hsa05110ColorectumADVibrio cholerae infection29/209250/84655.10e-077.12e-064.54e-0629
hsa051101ColorectumADVibrio cholerae infection29/209250/84655.10e-077.12e-064.54e-0629
hsa051102ColorectumSERVibrio cholerae infection24/158050/84652.17e-063.13e-052.28e-0524
hsa051103ColorectumSERVibrio cholerae infection24/158050/84652.17e-063.13e-052.28e-0524
hsa051104ColorectumMSSVibrio cholerae infection27/187550/84658.58e-071.20e-057.34e-0627
hsa051105ColorectumMSSVibrio cholerae infection27/187550/84658.58e-071.20e-057.34e-0627
hsa051106ColorectumMSI-HVibrio cholerae infection18/79750/84652.77e-075.61e-064.70e-0618
hsa051107ColorectumMSI-HVibrio cholerae infection18/79750/84652.77e-075.61e-064.70e-0618
hsa0511018EndometriumAEHVibrio cholerae infection18/119750/84659.09e-058.69e-046.36e-0418
hsa0511019EndometriumAEHVibrio cholerae infection18/119750/84659.09e-058.69e-046.36e-0418
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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
KDELR2SNVMissense_Mutationnovelc.229C>Ap.Leu77Metp.L77MP33947protein_codingtolerated(0.26)benign(0.21)TCGA-BH-A0H0-01Breastbreast invasive carcinomaFemale>=65I/IIHormone TherapyarimidexSD
KDELR2SNVMissense_Mutationrs200179757c.343N>Tp.Pro115Serp.P115SP33947protein_codingtolerated(0.4)possibly_damaging(0.799)TCGA-S3-AA15-01Breastbreast invasive carcinomaFemale<65I/IIChemotherapyadriamycinCR
KDELR2SNVMissense_Mutationnovelc.158C>Ap.Thr53Asnp.T53NP33947protein_codingdeleterious(0.04)possibly_damaging(0.72)TCGA-A5-A2K5-01Endometriumuterine corpus endometrioid carcinomaFemale>=65I/IIUnknownUnknownSD
KDELR2SNVMissense_Mutationnovelc.475N>Tp.Arg159Cysp.R159CP33947protein_codingdeleterious(0)probably_damaging(1)TCGA-AP-A1DV-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIUnknownUnknownSD
KDELR2SNVMissense_Mutationrs762563240c.185C>Tp.Ser62Phep.S62FP33947protein_codingtolerated(0.35)benign(0)TCGA-AX-A2HC-01Endometriumuterine corpus endometrioid carcinomaFemale<65III/IVChemotherapypaclitaxelPD
KDELR2SNVMissense_Mutationnovelc.106N>Gp.Ser36Glyp.S36GP33947protein_codingdeleterious(0.03)benign(0.246)TCGA-B5-A3FA-01Endometriumuterine corpus endometrioid carcinomaFemale>=65I/IIUnknownUnknownSD
KDELR2SNVMissense_Mutationnovelc.538N>Ap.Ala180Thrp.A180TP33947protein_codingtolerated(0.08)possibly_damaging(0.839)TCGA-EY-A215-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIUnknownUnknownSD
KDELR2SNVMissense_Mutationnovelc.496N>Cp.Trp166Argp.W166RP33947protein_codingdeleterious(0)probably_damaging(1)TCGA-FI-A2F4-01Endometriumuterine corpus endometrioid carcinomaFemale<65I/IIUnknownUnknownSD
KDELR2SNVMissense_Mutationnovelc.227N>Gp.Tyr76Cysp.Y76CP33947protein_codingdeleterious(0.01)probably_damaging(0.928)TCGA-DD-AAE0-01Liverliver hepatocellular carcinomaFemale<65III/IVUnknownUnknownSD
KDELR2SNVMissense_Mutationc.398N>Tp.Pro133Leup.P133LP33947protein_codingdeleterious(0)probably_damaging(1)TCGA-HJ-7597-01Stomachstomach adenocarcinomaFemale>=65I/IIChemotherapyfluorouracilCR
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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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