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Gene: KARS1 |
Gene summary for KARS1 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | KARS1 | Gene ID | 3735 |
| Gene name | lysyl-tRNA synthetase 1 | |
| Gene Alias | CMTRIB | |
| Cytomap | 16q23.1 | |
| Gene Type | protein-coding | GO ID | GO:0000165 | UniProtAcc | Q15046 |
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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 |
| 3735 | KARS1 | HTA11_3410_2000001011 | Human | Colorectum | AD | 2.70e-23 | 4.23e-01 | 0.0155 |
| 3735 | KARS1 | HTA11_2487_2000001011 | Human | Colorectum | SER | 9.92e-26 | 6.28e-01 | -0.1808 |
| 3735 | KARS1 | HTA11_2951_2000001011 | Human | Colorectum | AD | 2.79e-07 | 4.66e-01 | 0.0216 |
| 3735 | KARS1 | HTA11_1938_2000001011 | Human | Colorectum | AD | 5.76e-31 | 8.61e-01 | -0.0811 |
| 3735 | KARS1 | HTA11_78_2000001011 | Human | Colorectum | AD | 4.83e-28 | 7.25e-01 | -0.1088 |
| 3735 | KARS1 | HTA11_347_2000001011 | Human | Colorectum | AD | 4.01e-41 | 7.40e-01 | -0.1954 |
| 3735 | KARS1 | HTA11_411_2000001011 | Human | Colorectum | SER | 7.44e-09 | 5.05e-01 | -0.2602 |
| 3735 | KARS1 | HTA11_2112_2000001011 | Human | Colorectum | SER | 6.90e-09 | 5.85e-01 | -0.2196 |
| 3735 | KARS1 | HTA11_3361_2000001011 | Human | Colorectum | AD | 4.10e-17 | 6.39e-01 | -0.1207 |
| 3735 | KARS1 | HTA11_83_2000001011 | Human | Colorectum | SER | 9.48e-25 | 7.89e-01 | -0.1526 |
| 3735 | KARS1 | HTA11_696_2000001011 | Human | Colorectum | AD | 4.96e-35 | 6.52e-01 | -0.1464 |
| 3735 | KARS1 | HTA11_866_2000001011 | Human | Colorectum | AD | 1.29e-28 | 4.95e-01 | -0.1001 |
| 3735 | KARS1 | HTA11_1391_2000001011 | Human | Colorectum | AD | 5.40e-44 | 1.14e+00 | -0.059 |
| 3735 | KARS1 | HTA11_2992_2000001011 | Human | Colorectum | SER | 1.53e-17 | 8.16e-01 | -0.1706 |
| 3735 | KARS1 | HTA11_5212_2000001011 | Human | Colorectum | AD | 2.32e-13 | 5.15e-01 | -0.2061 |
| 3735 | KARS1 | HTA11_5216_2000001011 | Human | Colorectum | SER | 1.51e-11 | 6.52e-01 | -0.1462 |
| 3735 | KARS1 | HTA11_546_2000001011 | Human | Colorectum | AD | 4.57e-20 | 7.48e-01 | -0.0842 |
| 3735 | KARS1 | HTA11_9341_2000001011 | Human | Colorectum | SER | 1.20e-07 | 4.38e-01 | -0.00410000000000005 |
| 3735 | KARS1 | HTA11_7862_2000001011 | Human | Colorectum | AD | 1.00e-20 | 6.54e-01 | -0.0179 |
| 3735 | KARS1 | HTA11_866_3004761011 | Human | Colorectum | AD | 8.87e-41 | 8.09e-01 | 0.096 |
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| 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 |
| ∗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: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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| 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 |
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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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