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Gene: TRAK2 |
Gene summary for TRAK2 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | TRAK2 | Gene ID | 66008 |
| Gene name | trafficking kinesin protein 2 | |
| Gene Alias | ALS2CR3 | |
| Cytomap | 2q33.1 | |
| Gene Type | protein-coding | GO ID | GO:0000902 | UniProtAcc | O60296 |
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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 |
| 66008 | TRAK2 | LZE4T | Human | Esophagus | ESCC | 1.83e-02 | 1.54e-01 | 0.0811 |
| 66008 | TRAK2 | LZE5T | Human | Esophagus | ESCC | 2.53e-03 | 2.59e-01 | 0.0514 |
| 66008 | TRAK2 | LZE24T | Human | Esophagus | ESCC | 1.24e-10 | 2.23e-01 | 0.0596 |
| 66008 | TRAK2 | P2T-E | Human | Esophagus | ESCC | 2.36e-11 | 4.71e-02 | 0.1177 |
| 66008 | TRAK2 | P4T-E | Human | Esophagus | ESCC | 1.37e-10 | 2.85e-01 | 0.1323 |
| 66008 | TRAK2 | P5T-E | Human | Esophagus | ESCC | 2.11e-06 | 5.14e-02 | 0.1327 |
| 66008 | TRAK2 | P8T-E | Human | Esophagus | ESCC | 1.51e-13 | 1.98e-01 | 0.0889 |
| 66008 | TRAK2 | P10T-E | Human | Esophagus | ESCC | 3.77e-09 | 1.10e-01 | 0.116 |
| 66008 | TRAK2 | P11T-E | Human | Esophagus | ESCC | 2.86e-06 | 3.92e-01 | 0.1426 |
| 66008 | TRAK2 | P12T-E | Human | Esophagus | ESCC | 1.96e-15 | 3.07e-01 | 0.1122 |
| 66008 | TRAK2 | P15T-E | Human | Esophagus | ESCC | 2.57e-05 | 1.43e-01 | 0.1149 |
| 66008 | TRAK2 | P16T-E | Human | Esophagus | ESCC | 7.50e-03 | 6.43e-02 | 0.1153 |
| 66008 | TRAK2 | P20T-E | Human | Esophagus | ESCC | 1.46e-08 | 1.83e-01 | 0.1124 |
| 66008 | TRAK2 | P21T-E | Human | Esophagus | ESCC | 1.30e-09 | 1.75e-01 | 0.1617 |
| 66008 | TRAK2 | P22T-E | Human | Esophagus | ESCC | 1.49e-07 | 1.49e-01 | 0.1236 |
| 66008 | TRAK2 | P23T-E | Human | Esophagus | ESCC | 1.57e-02 | 6.98e-02 | 0.108 |
| 66008 | TRAK2 | P24T-E | Human | Esophagus | ESCC | 2.28e-06 | 1.01e-01 | 0.1287 |
| 66008 | TRAK2 | P26T-E | Human | Esophagus | ESCC | 7.44e-03 | 8.58e-02 | 0.1276 |
| 66008 | TRAK2 | P27T-E | Human | Esophagus | ESCC | 4.14e-14 | 1.72e-01 | 0.1055 |
| 66008 | TRAK2 | P28T-E | Human | Esophagus | ESCC | 1.22e-11 | 1.64e-01 | 0.1149 |
| Page: 1 2 3 4 |
| 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 | ||
| Liver |  | HCC: Hepatocellular carcinoma |
| NAFLD: Non-alcoholic fatty liver disease | ||
| 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. |
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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:003070521 | Liver | HCC | cytoskeleton-dependent intracellular transport | 111/7958 | 195/18723 | 3.25e-05 | 3.28e-04 | 111 |
| GO:0047496 | Liver | HCC | vesicle transport along microtubule | 34/7958 | 47/18723 | 3.27e-05 | 3.29e-04 | 34 |
| GO:0098930 | Liver | HCC | axonal transport | 43/7958 | 64/18723 | 5.73e-05 | 5.31e-04 | 43 |
| GO:00109702 | Liver | HCC | transport along microtubule | 90/7958 | 155/18723 | 6.49e-05 | 5.92e-04 | 90 |
| GO:0051646 | Liver | HCC | mitochondrion localization | 34/7958 | 50/18723 | 2.38e-04 | 1.79e-03 | 34 |
| GO:00064862 | Liver | HCC | protein glycosylation | 122/7958 | 226/18723 | 3.11e-04 | 2.21e-03 | 122 |
| GO:00434132 | Liver | HCC | macromolecule glycosylation | 122/7958 | 226/18723 | 3.11e-04 | 2.21e-03 | 122 |
| GO:00995182 | Liver | HCC | vesicle cytoskeletal trafficking | 46/7958 | 73/18723 | 3.23e-04 | 2.28e-03 | 46 |
| GO:00700852 | Liver | HCC | glycosylation | 128/7958 | 240/18723 | 4.35e-04 | 2.92e-03 | 128 |
| GO:00083331 | Liver | HCC | endosome to lysosome transport | 35/7958 | 55/18723 | 1.26e-03 | 6.92e-03 | 35 |
| GO:001097511 | Liver | HCC | regulation of neuron projection development | 220/7958 | 445/18723 | 1.68e-03 | 8.78e-03 | 220 |
| GO:0008089 | Liver | HCC | anterograde axonal transport | 32/7958 | 50/18723 | 1.76e-03 | 9.12e-03 | 32 |
| GO:0009100 | Liver | HCC | glycoprotein metabolic process | 193/7958 | 387/18723 | 1.89e-03 | 9.62e-03 | 193 |
| GO:00507674 | Liver | HCC | regulation of neurogenesis | 181/7958 | 364/18723 | 3.00e-03 | 1.40e-02 | 181 |
| GO:0051654 | Liver | HCC | establishment of mitochondrion localization | 20/7958 | 29/18723 | 3.61e-03 | 1.60e-02 | 20 |
| GO:0034643 | Liver | HCC | establishment of mitochondrion localization, microtubule-mediated | 18/7958 | 26/18723 | 5.37e-03 | 2.24e-02 | 18 |
| GO:0047497 | Liver | HCC | mitochondrion transport along microtubule | 18/7958 | 26/18723 | 5.37e-03 | 2.24e-02 | 18 |
| GO:0048311 | Liver | HCC | mitochondrion distribution | 12/7958 | 16/18723 | 8.74e-03 | 3.40e-02 | 12 |
| GO:001635811 | Liver | HCC | dendrite development | 121/7958 | 243/18723 | 1.26e-02 | 4.56e-02 | 121 |
| GO:0006605113 | Thyroid | PTC | protein targeting | 180/5968 | 314/18723 | 6.81e-21 | 1.19e-18 | 180 |
| Page: 1 2 3 4 5 6 7 |
| 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 |
| Page: 1 |
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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 |
| TRAK2 | SNV | Missense_Mutation | novel | c.1044N>C | p.Lys348Asn | p.K348N | O60296 | protein_coding | deleterious(0) | probably_damaging(0.966) | TCGA-A2-A3XY-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | PD |
| TRAK2 | SNV | Missense_Mutation | c.202G>C | p.Asp68His | p.D68H | O60296 | protein_coding | deleterious(0) | probably_damaging(0.977) | TCGA-A8-A08P-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Chemotherapy | 5-fluorouracil | CR | |
| TRAK2 | SNV | Missense_Mutation | c.1327N>C | p.Glu443Gln | p.E443Q | O60296 | protein_coding | tolerated(0.59) | benign(0.011) | TCGA-AC-A23H-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD | |
| TRAK2 | SNV | Missense_Mutation | rs774108541 | c.836N>A | p.Arg279Gln | p.R279Q | O60296 | protein_coding | deleterious(0.01) | probably_damaging(0.938) | TCGA-AC-A23H-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
| TRAK2 | SNV | Missense_Mutation | novel | c.2135N>A | p.Ser712Tyr | p.S712Y | O60296 | protein_coding | deleterious(0) | possibly_damaging(0.883) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| TRAK2 | SNV | Missense_Mutation | rs201575231 | c.1763N>A | p.Arg588Gln | p.R588Q | O60296 | protein_coding | deleterious(0) | possibly_damaging(0.878) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| TRAK2 | SNV | Missense_Mutation | novel | c.1118N>A | p.Ser373Tyr | p.S373Y | O60296 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| TRAK2 | SNV | Missense_Mutation | c.1116N>C | p.Glu372Asp | p.E372D | O60296 | protein_coding | tolerated(1) | benign(0.003) | TCGA-B6-A0RL-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| TRAK2 | SNV | Missense_Mutation | c.2517N>C | p.Lys839Asn | p.K839N | O60296 | protein_coding | deleterious(0) | probably_damaging(0.966) | TCGA-D8-A1J8-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | nolvadex | SD | |
| TRAK2 | SNV | Missense_Mutation | c.2197N>G | p.Thr733Ala | p.T733A | O60296 | protein_coding | tolerated(0.38) | benign(0.006) | TCGA-E2-A1IH-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | aromasin | SD |
| Page: 1 2 3 4 5 6 7 8 9 |
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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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