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Gene: TIA1 |
Gene summary for TIA1 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | TIA1 | Gene ID | 7072 |
| Gene name | TIA1 cytotoxic granule associated RNA binding protein | |
| Gene Alias | ALS26 | |
| Cytomap | 2p13.3 | |
| Gene Type | protein-coding | GO ID | GO:0000375 | UniProtAcc | P31483 |
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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 |
| 7072 | TIA1 | HTA11_3410_2000001011 | Human | Colorectum | AD | 2.84e-04 | 1.21e-01 | 0.0155 |
| 7072 | TIA1 | HTA11_2487_2000001011 | Human | Colorectum | SER | 2.03e-06 | 2.22e-01 | -0.1808 |
| 7072 | TIA1 | HTA11_2951_2000001011 | Human | Colorectum | AD | 3.40e-02 | 1.90e-01 | 0.0216 |
| 7072 | TIA1 | HTA11_1938_2000001011 | Human | Colorectum | AD | 3.41e-16 | 4.68e-01 | -0.0811 |
| 7072 | TIA1 | HTA11_78_2000001011 | Human | Colorectum | AD | 8.17e-12 | 3.03e-01 | -0.1088 |
| 7072 | TIA1 | HTA11_347_2000001011 | Human | Colorectum | AD | 6.17e-17 | 3.14e-01 | -0.1954 |
| 7072 | TIA1 | HTA11_83_2000001011 | Human | Colorectum | SER | 8.73e-04 | 1.75e-01 | -0.1526 |
| 7072 | TIA1 | HTA11_866_2000001011 | Human | Colorectum | AD | 3.77e-02 | 1.25e-01 | -0.1001 |
| 7072 | TIA1 | HTA11_1391_2000001011 | Human | Colorectum | AD | 6.96e-05 | 2.11e-01 | -0.059 |
| 7072 | TIA1 | HTA11_866_3004761011 | Human | Colorectum | AD | 3.01e-09 | 2.09e-01 | 0.096 |
| 7072 | TIA1 | HTA11_10623_2000001011 | Human | Colorectum | AD | 1.36e-03 | 2.23e-01 | -0.0177 |
| 7072 | TIA1 | HTA11_6801_2000001011 | Human | Colorectum | SER | 2.21e-02 | 2.67e-01 | 0.0171 |
| 7072 | TIA1 | HTA11_7696_3000711011 | Human | Colorectum | AD | 8.55e-04 | 1.60e-01 | 0.0674 |
| 7072 | TIA1 | HTA11_6818_2000001021 | Human | Colorectum | AD | 2.64e-03 | 1.43e-01 | 0.0588 |
| 7072 | TIA1 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 4.40e-38 | 7.54e-01 | 0.294 |
| 7072 | TIA1 | HTA11_99999965062_69753 | Human | Colorectum | MSI-H | 3.42e-04 | 3.76e-01 | 0.3487 |
| 7072 | TIA1 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 1.31e-25 | 5.87e-01 | 0.281 |
| 7072 | TIA1 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 2.83e-14 | 3.57e-01 | 0.3859 |
| 7072 | TIA1 | HTA11_99999973899_84307 | Human | Colorectum | MSS | 2.92e-03 | 1.82e-01 | 0.2585 |
| 7072 | TIA1 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 2.09e-08 | 2.30e-01 | 0.3005 |
| Page: 1 2 3 4 5 6 7 8 |
| 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 | ||
| 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 | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma | ||
| Prostate |  | BPH: Benign Prostatic Hyperplasia |
| Skin |  | AK: Actinic keratosis |
| cSCC: Cutaneous squamous cell carcinoma | ||
| SCCIS:squamous cell carcinoma in situ | ||
| 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:0008380 | Colorectum | AD | RNA splicing | 169/3918 | 434/18723 | 3.59e-18 | 2.04e-15 | 169 |
| GO:0000377 | Colorectum | AD | RNA splicing, via transesterification reactions with bulged adenosine as nucleophile | 130/3918 | 320/18723 | 5.88e-16 | 2.16e-13 | 130 |
| GO:0000398 | Colorectum | AD | mRNA splicing, via spliceosome | 130/3918 | 320/18723 | 5.88e-16 | 2.16e-13 | 130 |
| GO:0000375 | Colorectum | AD | RNA splicing, via transesterification reactions | 131/3918 | 324/18723 | 7.11e-16 | 2.22e-13 | 131 |
| GO:1903311 | Colorectum | AD | regulation of mRNA metabolic process | 117/3918 | 288/18723 | 1.69e-14 | 4.23e-12 | 117 |
| GO:0043484 | Colorectum | AD | regulation of RNA splicing | 70/3918 | 148/18723 | 6.47e-13 | 1.16e-10 | 70 |
| GO:0048024 | Colorectum | AD | regulation of mRNA splicing, via spliceosome | 50/3918 | 101/18723 | 1.62e-10 | 1.56e-08 | 50 |
| GO:0050684 | Colorectum | AD | regulation of mRNA processing | 61/3918 | 137/18723 | 4.23e-10 | 3.58e-08 | 61 |
| GO:0006417 | Colorectum | AD | regulation of translation | 141/3918 | 468/18723 | 1.32e-06 | 4.22e-05 | 141 |
| GO:00083801 | Colorectum | SER | RNA splicing | 123/2897 | 434/18723 | 3.84e-12 | 8.41e-10 | 123 |
| GO:00003751 | Colorectum | SER | RNA splicing, via transesterification reactions | 90/2897 | 324/18723 | 8.68e-09 | 7.50e-07 | 90 |
| GO:00003771 | Colorectum | SER | RNA splicing, via transesterification reactions with bulged adenosine as nucleophile | 89/2897 | 320/18723 | 9.82e-09 | 8.14e-07 | 89 |
| GO:00003981 | Colorectum | SER | mRNA splicing, via spliceosome | 89/2897 | 320/18723 | 9.82e-09 | 8.14e-07 | 89 |
| GO:00434841 | Colorectum | SER | regulation of RNA splicing | 49/2897 | 148/18723 | 7.02e-08 | 4.49e-06 | 49 |
| GO:19033111 | Colorectum | SER | regulation of mRNA metabolic process | 78/2897 | 288/18723 | 2.61e-07 | 1.43e-05 | 78 |
| GO:00480241 | Colorectum | SER | regulation of mRNA splicing, via spliceosome | 35/2897 | 101/18723 | 1.52e-06 | 6.85e-05 | 35 |
| GO:00506841 | Colorectum | SER | regulation of mRNA processing | 42/2897 | 137/18723 | 5.57e-06 | 2.01e-04 | 42 |
| GO:00064171 | Colorectum | SER | regulation of translation | 100/2897 | 468/18723 | 3.76e-04 | 5.74e-03 | 100 |
| GO:00083802 | Colorectum | MSS | RNA splicing | 159/3467 | 434/18723 | 1.75e-19 | 1.22e-16 | 159 |
| GO:19033112 | Colorectum | MSS | regulation of mRNA metabolic process | 115/3467 | 288/18723 | 1.23e-17 | 6.41e-15 | 115 |
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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 |
| TIA1 | SNV | Missense_Mutation | novel | c.920G>T | p.Gly307Val | p.G307V | P31483 | protein_coding | deleterious(0.01) | possibly_damaging(0.548) | TCGA-3C-AALI-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unspecific | Poly E | Complete Response |
| TIA1 | SNV | Missense_Mutation | c.319N>T | p.His107Tyr | p.H107Y | P31483 | protein_coding | deleterious(0) | probably_damaging(0.986) | TCGA-A7-A0DA-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | SD | |
| TIA1 | SNV | Missense_Mutation | c.865N>C | p.Asp289His | p.D289H | P31483 | protein_coding | deleterious(0) | probably_damaging(0.984) | TCGA-AR-A24Q-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | SD | |
| TIA1 | SNV | Missense_Mutation | c.1059G>C | p.Trp353Cys | p.W353C | P31483 | protein_coding | deleterious(0.03) | benign(0.006) | TCGA-EW-A1J5-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | SD | |
| TIA1 | insertion | Nonsense_Mutation | novel | c.981_982insATTTAAAACATGTAATATAAAGATGTTAAAAAAAAAAAC | p.Trp327_Gln328insIleTerAsnMetTerTyrLysAspValLysLysLysAsn | p.W327_Q328insI*NM*YKDVKKKN | P31483 | protein_coding | TCGA-AN-A0FN-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | ||
| TIA1 | insertion | Frame_Shift_Ins | novel | c.257_258insACAATTA | p.Ser86ArgfsTer11 | p.S86Rfs*11 | P31483 | protein_coding | TCGA-AR-A0U0-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | ||
| TIA1 | SNV | Missense_Mutation | novel | c.1107N>A | p.Ser369Arg | p.S369R | P31483 | protein_coding | deleterious(0.02) | benign(0.051) | TCGA-C5-A8ZZ-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unspecific | Cisplatin | SD |
| TIA1 | SNV | Missense_Mutation | novel | c.29N>G | p.Tyr10Cys | p.Y10C | P31483 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AA-A022-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| TIA1 | SNV | Missense_Mutation | rs756853891 | c.562G>A | p.Ala188Thr | p.A188T | P31483 | protein_coding | tolerated(0.29) | benign(0.015) | TCGA-AD-A5EJ-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| TIA1 | SNV | Missense_Mutation | c.763N>T | p.Arg255Trp | p.R255W | P31483 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | 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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