Tissue | Expression Dynamics | Abbreviation |
Cervix | ![The image shows the transcriptomic changes along malignancy continuum.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.](images/deg_images/Cervix/TRA2A_pca_on_diff_genes.png) | CC: Cervix cancer |
HSIL_HPV: HPV-infected high-grade squamous intraepithelial lesions |
N_HPV: HPV-infected normal cervix |
Colorectum (GSE201348) | ![The image shows the transcriptomic changes along malignancy continuum.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.](images/deg_images/Colorectum/Becker/TRA2A_pca_on_diff_genes.png) | FAP: Familial adenomatous polyposis |
CRC: Colorectal cancer |
Colorectum (HTA11) | ![The image shows the transcriptomic changes along malignancy continuum.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.](images/deg_images/Colorectum/Chen/TRA2A_pca_on_diff_genes.png) | AD: Adenomas |
SER: Sessile serrated lesions |
MSI-H: Microsatellite-high colorectal cancer |
MSS: Microsatellite stable colorectal cancer |
Endometrium | ![The image shows the transcriptomic changes along malignancy continuum.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.](images/deg_images/Endometrium/TRA2A_pca_on_diff_genes.png) | AEH: Atypical endometrial hyperplasia |
EEC: Endometrioid Cancer |
Esophagus | ![The image shows the transcriptomic changes along malignancy continuum.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.](images/deg_images/Esophagus/TRA2A_pca_on_diff_genes.png) | ESCC: Esophageal squamous cell carcinoma |
HGIN: High-grade intraepithelial neoplasias |
LGIN: Low-grade intraepithelial neoplasias |
GC | ![The image shows the transcriptomic changes along malignancy continuum.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.](images/deg_images/GC/TRA2A_pca_on_diff_genes.png) | CAG: Chronic atrophic gastritis |
CAG with IM: Chronic atrophic gastritis with intestinal metaplasia |
CSG: Chronic superficial gastritis |
GC: Gastric cancer |
SIM: Severe intestinal metaplasia |
WIM: Wild intestinal metaplasia |
Liver | ![The image shows the transcriptomic changes along malignancy continuum.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.](images/deg_images/Liver/TRA2A_pca_on_diff_genes.png) | HCC: Hepatocellular carcinoma |
NAFLD: Non-alcoholic fatty liver disease |
Lung | ![The image shows the transcriptomic changes along malignancy continuum.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.](images/deg_images/Lung/TRA2A_pca_on_diff_genes.png) | AAH: Atypical adenomatous hyperplasia |
AIS: Adenocarcinoma in situ |
IAC: Invasive lung adenocarcinoma |
MIA: Minimally invasive adenocarcinoma |
Oral Cavity | ![The image shows the transcriptomic changes along malignancy continuum.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.](images/deg_images/OralCavity/TRA2A_pca_on_diff_genes.png) | EOLP: Erosive Oral lichen planus |
LP: leukoplakia |
NEOLP: Non-erosive oral lichen planus |
OSCC: Oral squamous cell carcinoma |
Prostate | ![The image shows the transcriptomic changes along malignancy continuum.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.](images/deg_images/Prostate/TRA2A_pca_on_diff_genes.png) | BPH: Benign Prostatic Hyperplasia |
Skin | ![The image shows the transcriptomic changes along malignancy continuum.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.](images/deg_images/Skin/TRA2A_pca_on_diff_genes.png) | AK: Actinic keratosis |
cSCC: Cutaneous squamous cell carcinoma |
SCCIS:squamous cell carcinoma in situ |
Thyroid | ![The image shows the transcriptomic changes along malignancy continuum.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.](images/deg_images/Thyroid/TRA2A_pca_on_diff_genes.png) | ATC: Anaplastic thyroid cancer |
HT: Hashimoto's thyroiditis |
PTC: Papillary thyroid cancer |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:00083806 | Stomach | CAG with IM | RNA splicing | 39/1050 | 434/18723 | 2.55e-03 | 2.49e-02 | 39 |
GO:003312011 | Stomach | CAG with IM | positive regulation of RNA splicing | 7/1050 | 37/18723 | 4.01e-03 | 3.47e-02 | 7 |
GO:00003776 | Stomach | CAG with IM | RNA splicing, via transesterification reactions with bulged adenosine as nucleophile | 30/1050 | 320/18723 | 4.15e-03 | 3.56e-02 | 30 |
GO:00003986 | Stomach | CAG with IM | mRNA splicing, via spliceosome | 30/1050 | 320/18723 | 4.15e-03 | 3.56e-02 | 30 |
GO:00480246 | Stomach | CAG with IM | regulation of mRNA splicing, via spliceosome | 13/1050 | 101/18723 | 4.19e-03 | 3.57e-02 | 13 |
GO:00003756 | Stomach | CAG with IM | RNA splicing, via transesterification reactions | 30/1050 | 324/18723 | 4.95e-03 | 4.01e-02 | 30 |
GO:004802621 | Stomach | CSG | positive regulation of mRNA splicing, via spliceosome | 6/1034 | 22/18723 | 9.71e-04 | 1.25e-02 | 6 |
GO:000838011 | Stomach | CSG | RNA splicing | 40/1034 | 434/18723 | 1.07e-03 | 1.35e-02 | 40 |
GO:004348421 | Stomach | CSG | regulation of RNA splicing | 18/1034 | 148/18723 | 1.36e-03 | 1.58e-02 | 18 |
GO:000037711 | Stomach | CSG | RNA splicing, via transesterification reactions with bulged adenosine as nucleophile | 31/1034 | 320/18723 | 1.74e-03 | 1.89e-02 | 31 |
GO:000039811 | Stomach | CSG | mRNA splicing, via spliceosome | 31/1034 | 320/18723 | 1.74e-03 | 1.89e-02 | 31 |
GO:000037511 | Stomach | CSG | RNA splicing, via transesterification reactions | 31/1034 | 324/18723 | 2.11e-03 | 2.17e-02 | 31 |
GO:003312021 | Stomach | CSG | positive regulation of RNA splicing | 7/1034 | 37/18723 | 3.68e-03 | 3.27e-02 | 7 |
GO:004802411 | Stomach | CSG | regulation of mRNA splicing, via spliceosome | 13/1034 | 101/18723 | 3.68e-03 | 3.27e-02 | 13 |
GO:004348430 | Thyroid | HT | regulation of RNA splicing | 46/1272 | 148/18723 | 4.82e-19 | 6.71e-16 | 46 |
GO:000838028 | Thyroid | HT | RNA splicing | 84/1272 | 434/18723 | 1.23e-18 | 1.14e-15 | 84 |
GO:000037527 | Thyroid | HT | RNA splicing, via transesterification reactions | 66/1272 | 324/18723 | 4.86e-16 | 2.08e-13 | 66 |
GO:000037727 | Thyroid | HT | RNA splicing, via transesterification reactions with bulged adenosine as nucleophile | 65/1272 | 320/18723 | 9.43e-16 | 3.50e-13 | 65 |
GO:000039827 | Thyroid | HT | mRNA splicing, via spliceosome | 65/1272 | 320/18723 | 9.43e-16 | 3.50e-13 | 65 |
GO:004802429 | Thyroid | HT | regulation of mRNA splicing, via spliceosome | 34/1272 | 101/18723 | 1.32e-15 | 4.57e-13 | 34 |
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 |
TRA2A | SNV | Missense_Mutation | rs754412749 | c.764G>A | p.Arg255Gln | p.R255Q | Q13595 | protein_coding | tolerated_low_confidence(0.3) | benign(0.105) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
TRA2A | SNV | Missense_Mutation | | c.757N>A | p.Asp253Asn | p.D253N | Q13595 | protein_coding | deleterious_low_confidence(0.03) | probably_damaging(0.956) | TCGA-EW-A1IW-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | aromasin | SD |
TRA2A | SNV | Missense_Mutation | rs776132151 | c.571C>T | p.Arg191Trp | p.R191W | Q13595 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
TRA2A | SNV | Missense_Mutation | | c.524N>G | p.Glu175Gly | p.E175G | Q13595 | protein_coding | tolerated(0.06) | benign(0.066) | TCGA-C5-A0TN-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | PD |
TRA2A | SNV | Missense_Mutation | | c.230N>G | p.Ser77Cys | p.S77C | Q13595 | protein_coding | deleterious_low_confidence(0.01) | possibly_damaging(0.869) | TCGA-IR-A3LH-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
TRA2A | SNV | Missense_Mutation | rs200126944 | c.730C>T | p.Arg244Cys | p.R244C | Q13595 | protein_coding | deleterious(0) | benign(0.217) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | CR |
TRA2A | SNV | Missense_Mutation | | c.322N>T | p.His108Tyr | p.H108Y | Q13595 | protein_coding | deleterious(0.04) | benign(0.14) | TCGA-CK-4951-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
TRA2A | SNV | Missense_Mutation | rs776132151 | c.571C>T | p.Arg191Trp | p.R191W | Q13595 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-F5-6814-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
TRA2A | SNV | Missense_Mutation | novel | c.199C>T | p.Arg67Cys | p.R67C | Q13595 | protein_coding | deleterious_low_confidence(0) | possibly_damaging(0.586) | TCGA-A5-A1OF-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
TRA2A | SNV | Missense_Mutation | novel | c.160T>G | p.Ser54Ala | p.S54A | Q13595 | protein_coding | deleterious_low_confidence(0.04) | possibly_damaging(0.661) | TCGA-AJ-A23O-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |