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Gene: GPATCH2 |
Gene summary for GPATCH2 |
Gene summary. |
Gene information | Species | Human | Gene symbol | GPATCH2 | Gene ID | 55105 |
Gene name | G-patch domain containing 2 | |
Gene Alias | CT110 | |
Cytomap | 1q41 | |
Gene Type | protein-coding | GO ID | GO:0005575 | UniProtAcc | Q9NW75 |
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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 |
55105 | GPATCH2 | CCI_1 | Human | Cervix | CC | 1.77e-04 | 7.31e-01 | 0.528 |
55105 | GPATCH2 | CCI_2 | Human | Cervix | CC | 6.18e-05 | 6.87e-01 | 0.5249 |
55105 | GPATCH2 | CCI_3 | Human | Cervix | CC | 4.94e-10 | 9.19e-01 | 0.516 |
55105 | GPATCH2 | HTA11_3410_2000001011 | Human | Colorectum | AD | 2.03e-10 | -5.15e-01 | 0.0155 |
55105 | GPATCH2 | HTA11_3361_2000001011 | Human | Colorectum | AD | 8.27e-03 | -4.67e-01 | -0.1207 |
55105 | GPATCH2 | HTA11_866_3004761011 | Human | Colorectum | AD | 1.09e-09 | -5.15e-01 | 0.096 |
55105 | GPATCH2 | HTA11_7696_3000711011 | Human | Colorectum | AD | 9.52e-05 | -3.80e-01 | 0.0674 |
55105 | GPATCH2 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 2.89e-09 | -3.23e-01 | 0.294 |
55105 | GPATCH2 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 8.56e-11 | -4.67e-01 | 0.3005 |
55105 | GPATCH2 | A001-C-207 | Human | Colorectum | FAP | 1.16e-02 | -3.24e-01 | 0.1278 |
55105 | GPATCH2 | A015-C-203 | Human | Colorectum | FAP | 2.41e-21 | -3.04e-01 | -0.1294 |
55105 | GPATCH2 | A015-C-204 | Human | Colorectum | FAP | 3.89e-03 | -1.30e-01 | -0.0228 |
55105 | GPATCH2 | A014-C-040 | Human | Colorectum | FAP | 1.13e-02 | -3.93e-01 | -0.1184 |
55105 | GPATCH2 | A002-C-201 | Human | Colorectum | FAP | 4.60e-06 | -2.08e-01 | 0.0324 |
55105 | GPATCH2 | A002-C-203 | Human | Colorectum | FAP | 4.13e-03 | -1.67e-01 | 0.2786 |
55105 | GPATCH2 | A001-C-119 | Human | Colorectum | FAP | 3.94e-04 | -3.65e-01 | -0.1557 |
55105 | GPATCH2 | A001-C-108 | Human | Colorectum | FAP | 1.12e-10 | -1.71e-01 | -0.0272 |
55105 | GPATCH2 | A002-C-205 | Human | Colorectum | FAP | 1.03e-16 | -2.73e-01 | -0.1236 |
55105 | GPATCH2 | A015-C-005 | Human | Colorectum | FAP | 4.08e-02 | -1.71e-01 | -0.0336 |
55105 | GPATCH2 | A015-C-006 | Human | Colorectum | FAP | 2.44e-08 | -2.32e-01 | -0.0994 |
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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 |
Esophagus | ESCC | |
Skin | AK | |
Skin | SCCIS | |
Skin | cSCC | |
Thyroid | HT |
∗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 |
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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 |
GPATCH2 | SNV | Missense_Mutation | c.424C>G | p.Leu142Val | p.L142V | Q9NW75 | protein_coding | tolerated(0.17) | possibly_damaging(0.46) | TCGA-A8-A095-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | 5-fluorouracil | CR | |
GPATCH2 | SNV | Missense_Mutation | c.1144T>A | p.Ser382Thr | p.S382T | Q9NW75 | protein_coding | tolerated(0.26) | benign(0.038) | TCGA-BH-A0B0-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | CR | |
GPATCH2 | SNV | Missense_Mutation | c.701A>G | p.Glu234Gly | p.E234G | Q9NW75 | protein_coding | deleterious(0) | possibly_damaging(0.606) | TCGA-D8-A1JE-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamicin | SD | |
GPATCH2 | SNV | Missense_Mutation | c.1049N>T | p.Gly350Val | p.G350V | Q9NW75 | protein_coding | deleterious(0) | possibly_damaging(0.743) | TCGA-E2-A15J-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | docetaxel | SD | |
GPATCH2 | SNV | Missense_Mutation | novel | c.607G>A | p.Glu203Lys | p.E203K | Q9NW75 | protein_coding | tolerated(0.1) | possibly_damaging(0.675) | TCGA-DS-A1OB-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | carboplatin | PD |
GPATCH2 | SNV | Missense_Mutation | novel | c.64N>T | p.Ser22Cys | p.S22C | Q9NW75 | protein_coding | tolerated_low_confidence(0.07) | probably_damaging(0.931) | TCGA-MY-A5BF-01 | Cervix | cervical & endocervical cancer | Female | >=65 | I/II | Chemotherapy | cisplatin | CR |
GPATCH2 | SNV | Missense_Mutation | rs867427900 | c.376C>T | p.Arg126Cys | p.R126C | Q9NW75 | protein_coding | deleterious(0) | possibly_damaging(0.847) | TCGA-A6-2686-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
GPATCH2 | SNV | Missense_Mutation | novel | c.239A>G | p.His80Arg | p.H80R | Q9NW75 | protein_coding | tolerated(0.16) | benign(0.332) | TCGA-CK-4951-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
GPATCH2 | SNV | Missense_Mutation | rs200676995 | c.1565C>T | p.Pro522Leu | p.P522L | Q9NW75 | protein_coding | deleterious_low_confidence(0.01) | benign(0.011) | TCGA-F4-6807-01 | Colorectum | colon adenocarcinoma | Female | <65 | III/IV | Chemotherapy | xeloda | CR |
GPATCH2 | SNV | Missense_Mutation | c.969A>C | p.Glu323Asp | p.E323D | Q9NW75 | protein_coding | tolerated(0.49) | benign(0.118) | TCGA-EI-6883-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Chemotherapy | 5fluorouracil+leucovorin | SD |
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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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