|
|||||
|
 | |
| |
| |
| |
| |
| |
|
Gene: ARHGAP12 |
Gene summary for ARHGAP12 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | ARHGAP12 | Gene ID | 94134 |
| Gene name | Rho GTPase activating protein 12 | |
| Gene Alias | ARHGAP12 | |
| Cytomap | 10p11.22 | |
| Gene Type | protein-coding | GO ID | GO:0002009 | UniProtAcc | Q8IWW6 |
Top |
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 |
| 94134 | ARHGAP12 | HTA11_3410_2000001011 | Human | Colorectum | AD | 2.69e-17 | -6.06e-01 | 0.0155 |
| 94134 | ARHGAP12 | HTA11_2951_2000001011 | Human | Colorectum | AD | 4.20e-02 | -7.04e-01 | 0.0216 |
| 94134 | ARHGAP12 | HTA11_3361_2000001011 | Human | Colorectum | AD | 1.75e-03 | -5.26e-01 | -0.1207 |
| 94134 | ARHGAP12 | HTA11_696_2000001011 | Human | Colorectum | AD | 8.54e-11 | -4.19e-01 | -0.1464 |
| 94134 | ARHGAP12 | HTA11_866_3004761011 | Human | Colorectum | AD | 3.15e-05 | -4.59e-01 | 0.096 |
| 94134 | ARHGAP12 | HTA11_10711_2000001011 | Human | Colorectum | AD | 5.48e-04 | -5.01e-01 | 0.0338 |
| 94134 | ARHGAP12 | HTA11_7696_3000711011 | Human | Colorectum | AD | 2.44e-12 | -4.98e-01 | 0.0674 |
| 94134 | ARHGAP12 | HTA11_99999973899_84307 | Human | Colorectum | MSS | 3.47e-03 | -5.35e-01 | 0.2585 |
| 94134 | ARHGAP12 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 2.79e-14 | -4.78e-01 | 0.3005 |
| 94134 | ARHGAP12 | A001-C-207 | Human | Colorectum | FAP | 1.77e-02 | -5.36e-02 | 0.1278 |
| 94134 | ARHGAP12 | A015-C-203 | Human | Colorectum | FAP | 3.06e-32 | -4.19e-01 | -0.1294 |
| 94134 | ARHGAP12 | A015-C-204 | Human | Colorectum | FAP | 3.69e-08 | -3.45e-01 | -0.0228 |
| 94134 | ARHGAP12 | A014-C-040 | Human | Colorectum | FAP | 3.99e-03 | -2.72e-01 | -0.1184 |
| 94134 | ARHGAP12 | A002-C-201 | Human | Colorectum | FAP | 5.17e-14 | -3.21e-01 | 0.0324 |
| 94134 | ARHGAP12 | A002-C-203 | Human | Colorectum | FAP | 1.02e-03 | -1.08e-01 | 0.2786 |
| 94134 | ARHGAP12 | A001-C-119 | Human | Colorectum | FAP | 3.69e-06 | -3.72e-01 | -0.1557 |
| 94134 | ARHGAP12 | A001-C-108 | Human | Colorectum | FAP | 1.57e-15 | -1.93e-01 | -0.0272 |
| 94134 | ARHGAP12 | A002-C-205 | Human | Colorectum | FAP | 1.09e-23 | -4.16e-01 | -0.1236 |
| 94134 | ARHGAP12 | A001-C-104 | Human | Colorectum | FAP | 9.47e-05 | -8.67e-02 | 0.0184 |
| 94134 | ARHGAP12 | A015-C-005 | Human | Colorectum | FAP | 1.48e-03 | -2.49e-01 | -0.0336 |
| Page: 1 2 3 4 5 6 7 8 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Colorectum (GSE201348) |  | FAP: Familial adenomatous polyposis |
| CRC: Colorectal cancer | ||
| Colorectum (HTA11) |  | AD: Adenomas |
| SER: Sessile serrated lesions | ||
| MSI-H: Microsatellite-high colorectal cancer | ||
| MSS: Microsatellite stable colorectal cancer | ||
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| Liver |  | HCC: Hepatocellular carcinoma |
| NAFLD: Non-alcoholic fatty liver disease | ||
| Lung |  | AAH: Atypical adenomatous hyperplasia |
| AIS: Adenocarcinoma in situ | ||
| IAC: Invasive lung adenocarcinoma | ||
| MIA: Minimally invasive adenocarcinoma | ||
| Prostate |  | BPH: Benign Prostatic Hyperplasia |
| Thyroid |  | 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. |
Top |
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). |
| Page: 1 2 3 4 5 6 7 8 9 |
| Enriched GO biological processes. |
| GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
| GO:0007015 | Colorectum | AD | actin filament organization | 167/3918 | 442/18723 | 1.65e-16 | 7.94e-14 | 167 |
| GO:0043087 | Colorectum | AD | regulation of GTPase activity | 110/3918 | 348/18723 | 1.64e-06 | 5.03e-05 | 110 |
| GO:0051056 | Colorectum | AD | regulation of small GTPase mediated signal transduction | 94/3918 | 302/18723 | 1.81e-05 | 3.76e-04 | 94 |
| GO:0051058 | Colorectum | AD | negative regulation of small GTPase mediated signal transduction | 21/3918 | 56/18723 | 3.26e-03 | 2.39e-02 | 21 |
| GO:00070152 | Colorectum | MSS | actin filament organization | 146/3467 | 442/18723 | 1.16e-13 | 2.67e-11 | 146 |
| GO:00430872 | Colorectum | MSS | regulation of GTPase activity | 101/3467 | 348/18723 | 1.00e-06 | 3.46e-05 | 101 |
| GO:00510561 | Colorectum | MSS | regulation of small GTPase mediated signal transduction | 82/3467 | 302/18723 | 1.31e-04 | 1.99e-03 | 82 |
| GO:00070154 | Colorectum | FAP | actin filament organization | 125/2622 | 442/18723 | 1.97e-15 | 3.03e-12 | 125 |
| GO:00510562 | Colorectum | FAP | regulation of small GTPase mediated signal transduction | 78/2622 | 302/18723 | 3.25e-08 | 2.85e-06 | 78 |
| GO:00430873 | Colorectum | FAP | regulation of GTPase activity | 85/2622 | 348/18723 | 1.20e-07 | 7.68e-06 | 85 |
| GO:00510581 | Colorectum | FAP | negative regulation of small GTPase mediated signal transduction | 16/2622 | 56/18723 | 3.40e-03 | 2.47e-02 | 16 |
| GO:00070155 | Colorectum | CRC | actin filament organization | 104/2078 | 442/18723 | 4.75e-14 | 7.12e-11 | 104 |
| GO:00510563 | Colorectum | CRC | regulation of small GTPase mediated signal transduction | 69/2078 | 302/18723 | 3.34e-09 | 9.08e-07 | 69 |
| GO:00430874 | Colorectum | CRC | regulation of GTPase activity | 69/2078 | 348/18723 | 1.11e-06 | 6.69e-05 | 69 |
| GO:00510582 | Colorectum | CRC | negative regulation of small GTPase mediated signal transduction | 14/2078 | 56/18723 | 2.65e-03 | 2.42e-02 | 14 |
| GO:000701527 | Esophagus | ESCC | actin filament organization | 259/8552 | 442/18723 | 2.37e-08 | 4.50e-07 | 259 |
| GO:00020115 | Esophagus | ESCC | morphogenesis of an epithelial sheet | 42/8552 | 57/18723 | 1.62e-05 | 1.45e-04 | 42 |
| GO:004308715 | Esophagus | ESCC | regulation of GTPase activity | 183/8552 | 348/18723 | 5.34e-03 | 2.00e-02 | 183 |
| GO:005105610 | Esophagus | ESCC | regulation of small GTPase mediated signal transduction | 157/8552 | 302/18723 | 1.55e-02 | 4.98e-02 | 157 |
| GO:00070157 | Liver | NAFLD | actin filament organization | 78/1882 | 442/18723 | 5.44e-07 | 3.21e-05 | 78 |
| Page: 1 2 3 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| Page: 1 |
Top |
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 |
| Page: 1 |
Top |
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. |
| Page: 1 |
Top |
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 |
| ARHGAP12 | SNV | Missense_Mutation | c.288N>C | p.Gln96His | p.Q96H | Q8IWW6 | protein_coding | tolerated(0.33) | benign(0.001) | TCGA-A8-A07I-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Chemotherapy | 5-fluorouracil | CR | |
| ARHGAP12 | SNV | Missense_Mutation | c.1717A>G | p.Thr573Ala | p.T573A | Q8IWW6 | protein_coding | tolerated(0.23) | benign(0.039) | TCGA-AN-A041-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| ARHGAP12 | SNV | Missense_Mutation | c.60N>T | p.Glu20Asp | p.E20D | Q8IWW6 | protein_coding | deleterious(0.03) | probably_damaging(0.999) | TCGA-B6-A0I8-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | PD | |
| ARHGAP12 | SNV | Missense_Mutation | c.1072N>A | p.Asp358Asn | p.D358N | Q8IWW6 | protein_coding | deleterious(0) | possibly_damaging(0.848) | TCGA-B6-A0RG-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| ARHGAP12 | SNV | Missense_Mutation | c.359C>T | p.Ser120Leu | p.S120L | Q8IWW6 | protein_coding | deleterious(0.01) | benign(0.177) | TCGA-D8-A1J8-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | nolvadex | SD | |
| ARHGAP12 | SNV | Missense_Mutation | c.1379N>T | p.Ser460Ile | p.S460I | Q8IWW6 | protein_coding | tolerated(0.16) | benign(0.003) | TCGA-GM-A2DL-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | CR | |
| ARHGAP12 | SNV | Missense_Mutation | c.2029N>G | p.Ile677Val | p.I677V | Q8IWW6 | protein_coding | deleterious(0.02) | probably_damaging(0.995) | TCGA-GM-A2DM-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | taxol | CR | |
| ARHGAP12 | SNV | Missense_Mutation | novel | c.763N>A | p.Ala255Thr | p.A255T | Q8IWW6 | protein_coding | tolerated(0.19) | benign(0.001) | TCGA-VS-A9UD-01 | Cervix | cervical & endocervical cancer | Female | >=65 | III/IV | Chemotherapy | cisplatin | CR |
| ARHGAP12 | SNV | Missense_Mutation | novel | c.2425N>C | p.Gly809Arg | p.G809R | Q8IWW6 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-VS-A9UO-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| ARHGAP12 | SNV | Missense_Mutation | novel | c.2188N>G | p.Leu730Val | p.L730V | Q8IWW6 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-ZJ-AAXU-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
| Page: 1 2 3 4 5 6 7 8 9 |
Top |
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 |
| 94134 | ARHGAP12 | ENZYME | methylphenidate | METHYLPHENIDATE | 29382897 |
| Page: 1 |
Copyright 2023-Present -The University of Texas Health Science Center at Houston |