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: IER3

Gene summary for IER3

check button Gene summary.

Gene informationSpeciesHuman
Gene symbol

IER3

Gene ID

8870

Gene nameimmediate early response 3
Gene AliasDIF-2
Cytomap6p21.33
Gene Typeprotein-coding
GO ID

GO:0006915

UniProtAcc

A0A1U9X7X2


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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
8870IER3SYSMH2HumanOral cavityOSCC5.28e-222.37e+000.2326
8870IER3SYSMH3HumanOral cavityOSCC4.49e-452.39e+000.2442
8870IER3SYSMH4HumanOral cavityOSCC5.04e-642.24e+000.1226
8870IER3SYSMH5HumanOral cavityOSCC1.23e-241.83e+000.0647
8870IER3SYSMH6HumanOral cavityOSCC2.87e-442.58e+000.1275
8870IER3GSM5252126_BPH283PrGF_ViaHumanProstateBPH2.91e-031.60e+00-0.1771
8870IER3GSM5252127_BPH283PrSF_ViaHumanProstateBPH5.09e-071.32e+00-0.1453
8870IER3GSM5252129_BPH327PrSF_ViaHumanProstateBPH4.38e-091.29e+00-0.1697
8870IER3GSM5252130_BPH340PrGF_ViaHumanProstateBPH8.80e-191.44e+00-0.1972
8870IER3GSM5252131_BPH340PrSF_ViaHumanProstateBPH2.09e-242.09e+00-0.2126
8870IER3GSM5252132_BPH389PrGFHumanProstateBPH1.60e-052.39e+00-0.2247
8870IER3GSM5252133_BPH389PrSFHumanProstateBPH8.50e-163.20e+00-0.2027
8870IER3GSM5252134_BPH511PrG_Fcol_3GEXHumanProstateBPH4.55e-131.74e+00-0.1433
8870IER3GSM5252135_BPH511PrPUr_Fcol_3GEXHumanProstateBPH2.55e-333.45e+00-0.1833
8870IER3GSM5252136_BPH556PrGA1_FcolHumanProstateBPH3.49e-242.45e+00-0.23
8870IER3GSM5252137_BPH556PrGA2_FcolHumanProstateBPH3.18e-112.64e+00-0.23
8870IER3047563_1562-all-cellsHumanProstateBPH3.71e-091.45e-010.0791
8870IER3052099_1652-all-cellsHumanProstateBPH3.35e-03-3.33e-010.1038
8870IER3Dong_P1HumanProstateTumor1.98e-122.23e-010.035
8870IER3Dong_P3HumanProstateTumor1.73e-08-1.86e-010.0278
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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
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
GCThe 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.CAG: Chronic atrophic gastritis
CAG with IM: Chronic atrophic gastritis with intestinal metaplasia
CSG: Chronic superficial gastritis
GC: Gastric cancer
SIM: Severe intestinal metaplasia
WIM: Wild intestinal metaplasia
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
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:20010208BreastPrecancerregulation of response to DNA damage stimulus24/1080219/187231.93e-031.87e-0224
GO:200102013BreastIDCregulation of response to DNA damage stimulus30/1434219/187231.36e-031.40e-0230
GO:200102023BreastDCISregulation of response to DNA damage stimulus30/1390219/187238.32e-049.47e-0330
GO:20010209CervixCCregulation of response to DNA damage stimulus46/2311219/187231.92e-042.23e-0346
GO:190495115EndometriumAEHpositive regulation of establishment of protein localization74/2100319/187237.05e-106.51e-0874
GO:005122215EndometriumAEHpositive regulation of protein transport66/2100303/187237.79e-083.99e-0666
GO:00481939EndometriumAEHGolgi vesicle transport60/2100296/187233.65e-069.79e-0560
GO:00068886EndometriumAEHendoplasmic reticulum to Golgi vesicle-mediated transport29/2100130/187232.11e-042.59e-0329
GO:00507087EndometriumAEHregulation of protein secretion49/2100268/187233.83e-044.12e-0349
GO:00507149EndometriumAEHpositive regulation of protein secretion28/2100137/187231.17e-031.01e-0228
GO:200102010EndometriumAEHregulation of response to DNA damage stimulus40/2100219/187231.28e-031.09e-0240
GO:0035265EndometriumAEHorgan growth33/2100178/187232.53e-031.87e-0233
GO:00716927EndometriumAEHprotein localization to extracellular region58/2100368/187234.72e-033.00e-0258
GO:00093068EndometriumAEHprotein secretion56/2100359/187236.71e-033.94e-0256
GO:00355928EndometriumAEHestablishment of protein localization to extracellular region56/2100360/187237.10e-034.09e-0256
GO:190495116EndometriumEECpositive regulation of establishment of protein localization74/2168319/187232.90e-092.10e-0774
GO:005122216EndometriumEECpositive regulation of protein transport66/2168303/187232.55e-071.09e-0566
GO:004819313EndometriumEECGolgi vesicle transport60/2168296/187239.91e-062.17e-0460
GO:000688812EndometriumEECendoplasmic reticulum to Golgi vesicle-mediated transport29/2168130/187233.63e-043.95e-0329
GO:005070813EndometriumEECregulation of protein secretion50/2168268/187234.33e-044.51e-0350
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check button Enriched KEGG pathways.
Pathway IDTissueDisease StageDescriptionGene RatioBg Ratiopvaluep.adjustqvalueCount
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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
IER3SNVMissense_Mutationc.371C>Tp.Pro124Leup.P124LP46695protein_codingdeleterious(0.05)benign(0.056)TCGA-MU-A51Y-01Cervixcervical & endocervical cancerFemale<65I/IIUnknownUnknownSD
IER3SNVMissense_Mutationc.7C>Tp.His3Tyrp.H3YP46695protein_codingtolerated(0.36)benign(0.442)TCGA-DD-A73D-01Liverliver hepatocellular carcinomaFemale>=65I/IIUnknownUnknownPD
IER3SNVMissense_Mutationc.194N>Cp.Val65Alap.V65AP46695protein_codingdeleterious(0.01)probably_damaging(0.994)TCGA-CG-5721-01Stomachstomach adenocarcinomaMale<65III/IVUnknownUnknownSD
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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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