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Gene: GATB |
Gene summary for GATB |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | GATB | Gene ID | 5188 |
| Gene name | glutamyl-tRNA amidotransferase subunit B | |
| Gene Alias | COXPD41 | |
| Cytomap | 4q31.3 | |
| Gene Type | protein-coding | GO ID | GO:0006082 | UniProtAcc | O75879 |
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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 |
| 5188 | GATB | LZE24T | Human | Esophagus | ESCC | 2.49e-04 | 1.16e-01 | 0.0596 |
| 5188 | GATB | P2T-E | Human | Esophagus | ESCC | 9.19e-10 | 2.71e-01 | 0.1177 |
| 5188 | GATB | P4T-E | Human | Esophagus | ESCC | 1.27e-04 | 1.30e-01 | 0.1323 |
| 5188 | GATB | P5T-E | Human | Esophagus | ESCC | 1.70e-03 | 1.16e-01 | 0.1327 |
| 5188 | GATB | P8T-E | Human | Esophagus | ESCC | 4.49e-03 | 9.05e-02 | 0.0889 |
| 5188 | GATB | P9T-E | Human | Esophagus | ESCC | 9.93e-05 | 9.49e-02 | 0.1131 |
| 5188 | GATB | P10T-E | Human | Esophagus | ESCC | 4.19e-08 | 7.09e-02 | 0.116 |
| 5188 | GATB | P11T-E | Human | Esophagus | ESCC | 3.24e-02 | 1.66e-01 | 0.1426 |
| 5188 | GATB | P12T-E | Human | Esophagus | ESCC | 6.36e-18 | 3.68e-01 | 0.1122 |
| 5188 | GATB | P15T-E | Human | Esophagus | ESCC | 4.05e-07 | 1.42e-01 | 0.1149 |
| 5188 | GATB | P16T-E | Human | Esophagus | ESCC | 8.25e-12 | 2.81e-01 | 0.1153 |
| 5188 | GATB | P20T-E | Human | Esophagus | ESCC | 1.42e-09 | 1.07e-01 | 0.1124 |
| 5188 | GATB | P21T-E | Human | Esophagus | ESCC | 4.30e-07 | 1.90e-01 | 0.1617 |
| 5188 | GATB | P22T-E | Human | Esophagus | ESCC | 4.65e-10 | 2.30e-01 | 0.1236 |
| 5188 | GATB | P24T-E | Human | Esophagus | ESCC | 1.27e-04 | 1.68e-01 | 0.1287 |
| 5188 | GATB | P26T-E | Human | Esophagus | ESCC | 4.97e-09 | 2.03e-01 | 0.1276 |
| 5188 | GATB | P27T-E | Human | Esophagus | ESCC | 1.09e-04 | 1.74e-01 | 0.1055 |
| 5188 | GATB | P30T-E | Human | Esophagus | ESCC | 5.12e-07 | 2.02e-01 | 0.137 |
| 5188 | GATB | P31T-E | Human | Esophagus | ESCC | 3.01e-10 | 1.88e-01 | 0.1251 |
| 5188 | GATB | P32T-E | Human | Esophagus | ESCC | 6.81e-18 | 3.81e-01 | 0.1666 |
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| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma |
| ∗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). |
| 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:003466012 | Esophagus | ESCC | ncRNA metabolic process | 346/8552 | 485/18723 | 4.35e-31 | 2.51e-28 | 346 |
| GO:014005313 | Esophagus | ESCC | mitochondrial gene expression | 93/8552 | 108/18723 | 1.96e-18 | 2.03e-16 | 93 |
| GO:003254314 | Esophagus | ESCC | mitochondrial translation | 68/8552 | 76/18723 | 1.02e-15 | 6.86e-14 | 68 |
| GO:00063992 | Esophagus | ESCC | tRNA metabolic process | 122/8552 | 179/18723 | 9.03e-10 | 2.19e-08 | 122 |
| GO:00346605 | Oral cavity | OSCC | ncRNA metabolic process | 296/7305 | 485/18723 | 2.94e-23 | 6.65e-21 | 296 |
| GO:01400533 | Oral cavity | OSCC | mitochondrial gene expression | 78/7305 | 108/18723 | 2.37e-12 | 9.86e-11 | 78 |
| GO:00325434 | Oral cavity | OSCC | mitochondrial translation | 59/7305 | 76/18723 | 7.21e-12 | 2.70e-10 | 59 |
| GO:00063991 | Oral cavity | OSCC | tRNA metabolic process | 101/7305 | 179/18723 | 1.65e-06 | 2.15e-05 | 101 |
| GO:003466011 | Oral cavity | LP | ncRNA metabolic process | 205/4623 | 485/18723 | 6.46e-18 | 1.09e-15 | 205 |
| GO:003254313 | Oral cavity | LP | mitochondrial translation | 43/4623 | 76/18723 | 2.85e-09 | 1.26e-07 | 43 |
| GO:014005312 | Oral cavity | LP | mitochondrial gene expression | 53/4623 | 108/18723 | 3.54e-08 | 1.27e-06 | 53 |
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| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| Page: 1 |
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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. |
| Page: 1 |
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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 |
| GATB | SNV | Missense_Mutation | rs575592914 | c.827G>A | p.Arg276Gln | p.R276Q | O75879 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| GATB | SNV | Missense_Mutation | c.257A>C | p.Gln86Pro | p.Q86P | O75879 | protein_coding | tolerated(0.34) | benign(0.007) | TCGA-AO-A03R-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | SD | |
| GATB | SNV | Missense_Mutation | c.401N>A | p.Ser134Tyr | p.S134Y | O75879 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-C8-A1HN-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| GATB | SNV | Missense_Mutation | novel | c.890A>G | p.Gln297Arg | p.Q297R | O75879 | protein_coding | deleterious(0.05) | benign(0.003) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| GATB | SNV | Missense_Mutation | novel | c.111C>G | p.Asn37Lys | p.N37K | O75879 | protein_coding | tolerated_low_confidence(0.19) | benign(0.011) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| GATB | SNV | Missense_Mutation | c.418N>T | p.His140Tyr | p.H140Y | O75879 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-Q1-A5R3-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | PR | |
| GATB | SNV | Missense_Mutation | novel | c.214N>T | p.His72Tyr | p.H72Y | O75879 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-VS-A9U6-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | PD |
| GATB | SNV | Missense_Mutation | c.992N>A | p.Gly331Glu | p.G331E | O75879 | protein_coding | tolerated(1) | possibly_damaging(0.792) | TCGA-AA-3489-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD | |
| GATB | SNV | Missense_Mutation | c.591N>A | p.Ser197Arg | p.S197R | O75879 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AA-3492-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| GATB | SNV | Missense_Mutation | c.1384N>C | p.Thr462Pro | p.T462P | O75879 | protein_coding | tolerated(0.25) | benign(0.072) | TCGA-AA-3672-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | 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 |
| Page: 1 |
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