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Gene: GARS |
Gene summary for GARS |
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Gene information | Species | Human | Gene symbol | GARS | Gene ID | 2618 |
Gene name | phosphoribosylglycinamide formyltransferase, phosphoribosylglycinamide synthetase, phosphoribosylaminoimidazole synthetase | |
Gene Alias | AIRS | |
Cytomap | 21q22.11 | |
Gene Type | protein-coding | GO ID | GO:0003360 | UniProtAcc | P22102 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
2618 | GARS | CCI_1 | Human | Cervix | CC | 3.77e-04 | 2.28e-01 | 0.528 |
2618 | GARS | CCI_2 | Human | Cervix | CC | 3.08e-11 | 4.53e-01 | 0.5249 |
2618 | GARS | CCI_3 | Human | Cervix | CC | 2.36e-07 | 2.60e-01 | 0.516 |
2618 | GARS | Tumor | Human | Cervix | CC | 1.21e-28 | 4.70e-01 | 0.1241 |
2618 | GARS | sample3 | Human | Cervix | CC | 7.46e-51 | 6.26e-01 | 0.1387 |
2618 | GARS | H2 | Human | Cervix | HSIL_HPV | 8.11e-04 | 1.42e-01 | 0.0632 |
2618 | GARS | T3 | Human | Cervix | CC | 2.87e-52 | 6.40e-01 | 0.1389 |
2618 | GARS | LZE2T | Human | Esophagus | ESCC | 2.55e-03 | 6.64e-01 | 0.082 |
2618 | GARS | LZE4T | Human | Esophagus | ESCC | 1.68e-27 | 7.46e-01 | 0.0811 |
2618 | GARS | LZE5T | Human | Esophagus | ESCC | 1.06e-03 | 6.83e-01 | 0.0514 |
2618 | GARS | LZE7T | Human | Esophagus | ESCC | 2.26e-15 | 8.36e-01 | 0.0667 |
2618 | GARS | LZE8T | Human | Esophagus | ESCC | 6.27e-06 | 2.52e-01 | 0.067 |
2618 | GARS | LZE20T | Human | Esophagus | ESCC | 1.12e-05 | 3.02e-01 | 0.0662 |
2618 | GARS | LZE22T | Human | Esophagus | ESCC | 4.09e-04 | 6.04e-01 | 0.068 |
2618 | GARS | LZE24T | Human | Esophagus | ESCC | 1.58e-23 | 6.97e-01 | 0.0596 |
2618 | GARS | LZE21T | Human | Esophagus | ESCC | 7.42e-05 | 4.86e-01 | 0.0655 |
2618 | GARS | LZE6T | Human | Esophagus | ESCC | 1.83e-07 | 3.50e-01 | 0.0845 |
2618 | GARS | P1T-E | Human | Esophagus | ESCC | 3.61e-06 | 6.97e-01 | 0.0875 |
2618 | GARS | P2T-E | Human | Esophagus | ESCC | 8.41e-46 | 9.02e-01 | 0.1177 |
2618 | GARS | P4T-E | Human | Esophagus | ESCC | 3.81e-52 | 1.14e+00 | 0.1323 |
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∗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 |
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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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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:0009117 | Colorectum | AD | nucleotide metabolic process | 168/3918 | 489/18723 | 2.20e-12 | 3.36e-10 | 168 |
GO:0006753 | Colorectum | AD | nucleoside phosphate metabolic process | 169/3918 | 497/18723 | 4.99e-12 | 6.98e-10 | 169 |
GO:1901293 | Colorectum | AD | nucleoside phosphate biosynthetic process | 80/3918 | 256/18723 | 6.31e-05 | 1.05e-03 | 80 |
GO:0009165 | Colorectum | AD | nucleotide biosynthetic process | 79/3918 | 254/18723 | 8.33e-05 | 1.30e-03 | 79 |
GO:0006418 | Colorectum | AD | tRNA aminoacylation for protein translation | 19/3918 | 41/18723 | 2.37e-04 | 3.03e-03 | 19 |
GO:0043039 | Colorectum | AD | tRNA aminoacylation | 19/3918 | 44/18723 | 7.13e-04 | 7.21e-03 | 19 |
GO:0043038 | Colorectum | AD | amino acid activation | 19/3918 | 45/18723 | 9.94e-04 | 9.28e-03 | 19 |
GO:0006520 | Colorectum | AD | cellular amino acid metabolic process | 81/3918 | 284/18723 | 1.37e-03 | 1.19e-02 | 81 |
GO:00091171 | Colorectum | SER | nucleotide metabolic process | 122/2897 | 489/18723 | 2.50e-08 | 1.76e-06 | 122 |
GO:00067531 | Colorectum | SER | nucleoside phosphate metabolic process | 122/2897 | 497/18723 | 6.64e-08 | 4.33e-06 | 122 |
GO:00064181 | Colorectum | SER | tRNA aminoacylation for protein translation | 17/2897 | 41/18723 | 5.75e-05 | 1.35e-03 | 17 |
GO:00430391 | Colorectum | SER | tRNA aminoacylation | 17/2897 | 44/18723 | 1.64e-04 | 3.12e-03 | 17 |
GO:00430381 | Colorectum | SER | amino acid activation | 17/2897 | 45/18723 | 2.25e-04 | 3.91e-03 | 17 |
GO:00091651 | Colorectum | SER | nucleotide biosynthetic process | 58/2897 | 254/18723 | 1.21e-03 | 1.38e-02 | 58 |
GO:19012931 | Colorectum | SER | nucleoside phosphate biosynthetic process | 58/2897 | 256/18723 | 1.47e-03 | 1.59e-02 | 58 |
GO:00065201 | Colorectum | SER | cellular amino acid metabolic process | 61/2897 | 284/18723 | 4.20e-03 | 3.41e-02 | 61 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa00670 | Colorectum | MSI-H | One carbon pool by folate | 7/797 | 20/8465 | 1.65e-03 | 1.73e-02 | 1.45e-02 | 7 |
hsa006701 | Colorectum | MSI-H | One carbon pool by folate | 7/797 | 20/8465 | 1.65e-03 | 1.73e-02 | 1.45e-02 | 7 |
hsa015232 | Esophagus | ESCC | Antifolate resistance | 22/4205 | 30/8465 | 7.23e-03 | 1.76e-02 | 8.99e-03 | 22 |
hsa0152311 | Esophagus | ESCC | Antifolate resistance | 22/4205 | 30/8465 | 7.23e-03 | 1.76e-02 | 8.99e-03 | 22 |
hsa006702 | Liver | HCC | One carbon pool by folate | 17/4020 | 20/8465 | 6.04e-04 | 2.50e-03 | 1.39e-03 | 17 |
hsa01523 | Liver | HCC | Antifolate resistance | 21/4020 | 30/8465 | 1.06e-02 | 2.71e-02 | 1.51e-02 | 21 |
hsa0067011 | Liver | HCC | One carbon pool by folate | 17/4020 | 20/8465 | 6.04e-04 | 2.50e-03 | 1.39e-03 | 17 |
hsa015231 | Liver | HCC | Antifolate resistance | 21/4020 | 30/8465 | 1.06e-02 | 2.71e-02 | 1.51e-02 | 21 |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
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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 |
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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 |
GARS | deletion | Frame_Shift_Del | c.623delA | p.Asn208MetfsTer11 | p.N208Mfs*11 | P41250 | protein_coding | TCGA-B5-A3FC-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |||
GARS | SNV | Missense_Mutation | c.2214N>T | p.Glu738Asp | p.E738D | P41250 | protein_coding | tolerated_low_confidence(0.09) | benign(0.005) | TCGA-G3-A5SJ-01 | Liver | liver hepatocellular carcinoma | Male | <65 | I/II | Unknown | Unknown | PD | |
GARS | SNV | Missense_Mutation | c.1798G>A | p.Glu600Lys | p.E600K | P41250 | protein_coding | deleterious(0.01) | benign(0.144) | TCGA-49-AARN-01 | Lung | lung adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
GARS | SNV | Missense_Mutation | c.823N>A | p.Pro275Thr | p.P275T | P41250 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-67-3771-01 | Lung | lung adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
GARS | SNV | Missense_Mutation | c.372N>A | p.Met124Ile | p.M124I | P41250 | protein_coding | deleterious(0.04) | benign(0.014) | TCGA-71-6725-01 | Lung | lung adenocarcinoma | Female | <65 | I/II | Chemotherapy | cisplatin | PD | |
GARS | SNV | Missense_Mutation | rs766280100 | c.1793N>C | p.Gly598Ala | p.G598A | P41250 | protein_coding | deleterious(0.04) | benign(0.017) | TCGA-91-A4BC-01 | Lung | lung adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
GARS | SNV | Missense_Mutation | novel | c.1847N>A | p.Cys616Tyr | p.C616Y | P41250 | protein_coding | deleterious(0) | probably_damaging(0.985) | TCGA-39-5034-01 | Lung | lung squamous cell carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
GARS | SNV | Missense_Mutation | novel | c.991N>G | p.Arg331Gly | p.R331G | P41250 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-56-A49D-01 | Lung | lung squamous cell carcinoma | Male | >=65 | III/IV | Unknown | Unknown | SD |
GARS | SNV | Missense_Mutation | novel | c.1841N>C | p.Phe614Ser | p.F614S | P41250 | protein_coding | deleterious(0) | benign(0.022) | TCGA-60-2715-01 | Lung | lung squamous cell carcinoma | Male | <65 | I/II | Chemotherapy | docetaxel | PD |
GARS | insertion | Frame_Shift_Ins | novel | c.524_525insACCTATACTC | p.Leu176ProfsTer14 | p.L176Pfs*14 | P41250 | protein_coding | TCGA-55-8616-01 | Lung | lung adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
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Related drugs of malignant transformation related genes |
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(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
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