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Gene: GRAP2 |
Gene summary for GRAP2 |
Gene summary. |
Gene information | Species | Human | Gene symbol | GRAP2 | Gene ID | 9402 |
Gene name | GRB2 related adaptor protein 2 | |
Gene Alias | GADS | |
Cytomap | 22q13.1 | |
Gene Type | protein-coding | GO ID | GO:0007154 | UniProtAcc | O75791 |
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Malignant transformation analysis |
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 |
Malignant transformation involving gene list. |
Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
9402 | GRAP2 | HTA11_1938_2000001011 | Human | Colorectum | AD | 2.69e-05 | 2.70e-01 | -0.0811 |
9402 | GRAP2 | HTA11_347_2000001011 | Human | Colorectum | AD | 2.58e-11 | 2.88e-01 | -0.1954 |
9402 | GRAP2 | HTA11_411_2000001011 | Human | Colorectum | SER | 2.36e-03 | 4.65e-01 | -0.2602 |
9402 | GRAP2 | HTA11_2112_2000001011 | Human | Colorectum | SER | 1.26e-03 | 3.60e-01 | -0.2196 |
9402 | GRAP2 | HTA11_3361_2000001011 | Human | Colorectum | AD | 1.82e-07 | 3.13e-01 | -0.1207 |
9402 | GRAP2 | HTA11_83_2000001011 | Human | Colorectum | SER | 1.79e-08 | 2.90e-01 | -0.1526 |
9402 | GRAP2 | HTA11_696_2000001011 | Human | Colorectum | AD | 1.87e-17 | 3.65e-01 | -0.1464 |
9402 | GRAP2 | HTA11_866_2000001011 | Human | Colorectum | AD | 2.43e-07 | 2.22e-01 | -0.1001 |
9402 | GRAP2 | HTA11_1391_2000001011 | Human | Colorectum | AD | 1.56e-19 | 5.02e-01 | -0.059 |
9402 | GRAP2 | HTA11_5216_2000001011 | Human | Colorectum | SER | 3.13e-03 | 3.02e-01 | -0.1462 |
9402 | GRAP2 | HTA11_546_2000001011 | Human | Colorectum | AD | 5.72e-03 | 2.08e-01 | -0.0842 |
9402 | GRAP2 | HTA11_866_3004761011 | Human | Colorectum | AD | 1.95e-10 | 2.81e-01 | 0.096 |
9402 | GRAP2 | HTA11_4255_2000001011 | Human | Colorectum | SER | 3.32e-04 | 3.02e-01 | 0.0446 |
9402 | GRAP2 | HTA11_8622_2000001021 | Human | Colorectum | SER | 2.89e-05 | 3.01e-01 | 0.0528 |
9402 | GRAP2 | HTA11_7663_2000001011 | Human | Colorectum | SER | 1.27e-07 | 4.47e-01 | 0.0131 |
9402 | GRAP2 | HTA11_10711_2000001011 | Human | Colorectum | AD | 2.21e-07 | 2.33e-01 | 0.0338 |
9402 | GRAP2 | HTA11_7696_3000711011 | Human | Colorectum | AD | 5.17e-04 | 1.63e-01 | 0.0674 |
9402 | GRAP2 | HTA11_6818_2000001011 | Human | Colorectum | AD | 1.69e-09 | 4.97e-01 | 0.0112 |
9402 | GRAP2 | HTA11_6818_2000001021 | Human | Colorectum | AD | 2.39e-21 | 5.78e-01 | 0.0588 |
9402 | GRAP2 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 6.60e-04 | 1.37e-01 | 0.294 |
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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. |
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Malignant transformation related pathway analysis |
Find out the enriched GO biological processes and KEGG pathways involved in transition from healthy to precancer to cancer |
Figure of enriched GO biological processes. |
Tissue | Disease Stage | Enriched GO biological Processes |
Colorectum | AD | |
Colorectum | SER | |
Colorectum | MSS | |
Colorectum | MSI-H | |
Colorectum | FAP |
∗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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Enriched GO biological processes. |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:0007265 | Colorectum | AD | Ras protein signal transduction | 104/3918 | 337/18723 | 1.01e-05 | 2.35e-04 | 104 |
GO:00072651 | Colorectum | MSS | Ras protein signal transduction | 91/3467 | 337/18723 | 7.20e-05 | 1.21e-03 | 91 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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Cell-cell communication analysis |
Identification of potential cell-cell interactions between two cell types and their ligand-receptor pairs for different disease states |
Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
Find out the significant the regulons (TFs) and the target genes of each regulon across cell types for different disease states |
TF | Cell Type | Tissue | Disease Stage | Target Gene | RSS | Regulon 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 |
Annotation of somatic variants for genes involved in malignant transformation |
Hugo Symbol | Variant Class | Variant Classification | dbSNP RS | HGVSc | HGVSp | HGVSp Short | SWISSPROT | BIOTYPE | SIFT | PolyPhen | Tumor Sample Barcode | Tissue | Histology | Sex | Age | Stage | Therapy Types | Drugs | Outcome |
GRAP2 | deletion | Frame_Shift_Del | c.567delN | p.Pro191ArgfsTer49 | p.P191Rfs*49 | O75791 | protein_coding | TCGA-D5-6530-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |||
GRAP2 | insertion | Frame_Shift_Ins | novel | c.566_567insC | p.Thr192AspfsTer47 | p.T192Dfs*47 | O75791 | protein_coding | TCGA-G4-6588-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | ||
GRAP2 | SNV | Missense_Mutation | novel | c.787N>T | p.Asp263Tyr | p.D263Y | O75791 | protein_coding | deleterious(0) | probably_damaging(0.972) | TCGA-A5-A0G1-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
GRAP2 | SNV | Missense_Mutation | rs761211125 | c.833C>T | p.Ala278Val | p.A278V | O75791 | protein_coding | deleterious(0.01) | benign(0.302) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
GRAP2 | SNV | Missense_Mutation | novel | c.940C>T | p.His314Tyr | p.H314Y | O75791 | protein_coding | deleterious(0.03) | benign(0.001) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
GRAP2 | SNV | Missense_Mutation | c.320T>A | p.Val107Asp | p.V107D | O75791 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-A5-A0G9-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
GRAP2 | SNV | Missense_Mutation | rs201778964 | c.935N>A | p.Arg312His | p.R312H | O75791 | protein_coding | deleterious(0.01) | possibly_damaging(0.515) | TCGA-A5-A1OF-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
GRAP2 | SNV | Missense_Mutation | novel | c.922N>C | p.Trp308Arg | p.W308R | O75791 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AP-A1DK-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
GRAP2 | SNV | Missense_Mutation | novel | c.154N>T | p.Asp52Tyr | p.D52Y | O75791 | protein_coding | deleterious(0) | possibly_damaging(0.808) | TCGA-AX-A2HC-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | paclitaxel | PD |
GRAP2 | SNV | Missense_Mutation | novel | c.26N>G | p.Phe9Cys | p.F9C | O75791 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-B5-A11L-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
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Related drugs of malignant transformation related genes |
Identification of chemicals and drugs interact with genes involved in malignant transfromation |
(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
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