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/PTPRK_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/PTPRK_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/PTPRK_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/PTPRK_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/PTPRK_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/PTPRK_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/PTPRK_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/PTPRK_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/PTPRK_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/PTPRK_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/PTPRK_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/PTPRK_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:00621976 | Stomach | GC | cellular response to chemical stress | 44/1159 | 337/18723 | 2.24e-06 | 9.73e-05 | 44 |
GO:00003026 | Stomach | GC | response to reactive oxygen species | 32/1159 | 222/18723 | 6.94e-06 | 2.57e-04 | 32 |
GO:00345996 | Stomach | GC | cellular response to oxidative stress | 38/1159 | 288/18723 | 8.45e-06 | 2.96e-04 | 38 |
GO:0042110 | Stomach | GC | T cell activation | 53/1159 | 487/18723 | 4.56e-05 | 1.10e-03 | 53 |
GO:00346146 | Stomach | GC | cellular response to reactive oxygen species | 22/1159 | 155/18723 | 2.27e-04 | 3.83e-03 | 22 |
GO:00315895 | Stomach | GC | cell-substrate adhesion | 40/1159 | 363/18723 | 2.91e-04 | 4.68e-03 | 40 |
GO:0009314 | Stomach | GC | response to radiation | 47/1159 | 456/18723 | 4.21e-04 | 6.33e-03 | 47 |
GO:01501155 | Stomach | GC | cell-substrate junction organization | 15/1159 | 101/18723 | 1.35e-03 | 1.49e-02 | 15 |
GO:00506784 | Stomach | GC | regulation of epithelial cell proliferation | 39/1159 | 381/18723 | 1.42e-03 | 1.55e-02 | 39 |
GO:00343295 | Stomach | GC | cell junction assembly | 42/1159 | 420/18723 | 1.50e-03 | 1.62e-02 | 42 |
GO:00070445 | Stomach | GC | cell-substrate junction assembly | 14/1159 | 95/18723 | 2.07e-03 | 2.09e-02 | 14 |
GO:00712144 | Stomach | GC | cellular response to abiotic stimulus | 34/1159 | 331/18723 | 2.62e-03 | 2.45e-02 | 34 |
GO:01040044 | Stomach | GC | cellular response to environmental stimulus | 34/1159 | 331/18723 | 2.62e-03 | 2.45e-02 | 34 |
GO:00506734 | Stomach | GC | epithelial cell proliferation | 42/1159 | 437/18723 | 3.13e-03 | 2.78e-02 | 42 |
GO:00108374 | Stomach | GC | regulation of keratinocyte proliferation | 7/1159 | 35/18723 | 4.99e-03 | 3.96e-02 | 7 |
GO:00071605 | Stomach | GC | cell-matrix adhesion | 25/1159 | 233/18723 | 5.24e-03 | 4.11e-02 | 25 |
GO:000697911 | Stomach | CAG with IM | response to oxidative stress | 59/1050 | 446/18723 | 7.12e-10 | 1.02e-07 | 59 |
GO:006219711 | Stomach | CAG with IM | cellular response to chemical stress | 43/1050 | 337/18723 | 4.05e-07 | 2.34e-05 | 43 |
GO:003459911 | Stomach | CAG with IM | cellular response to oxidative stress | 37/1050 | 288/18723 | 2.19e-06 | 9.55e-05 | 37 |
GO:000030211 | Stomach | CAG with IM | response to reactive oxygen species | 31/1050 | 222/18723 | 2.54e-06 | 1.07e-04 | 31 |
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 |
PTPRK | SNV | Missense_Mutation | | c.4103N>A | p.Pro1368His | p.P1368H | Q15262 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-A2-A25A-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unspecific | Cytoxan | SD |
PTPRK | SNV | Missense_Mutation | novel | c.1970N>A | p.Thr657Lys | p.T657K | Q15262 | protein_coding | deleterious(0.02) | benign(0.15) | TCGA-A7-A3IZ-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | SD |
PTPRK | SNV | Missense_Mutation | rs372899705 | c.2630N>T | p.Thr877Ile | p.T877I | Q15262 | protein_coding | deleterious(0) | probably_damaging(0.979) | TCGA-AN-A0AK-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
PTPRK | SNV | Missense_Mutation | | c.1345N>T | p.Ala449Ser | p.A449S | Q15262 | protein_coding | tolerated(1) | benign(0.099) | TCGA-BH-A0EB-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | arimidex | SD |
PTPRK | SNV | Missense_Mutation | | c.3706G>A | p.Asp1236Asn | p.D1236N | Q15262 | protein_coding | deleterious(0) | probably_damaging(0.996) | TCGA-GM-A2D9-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | arimidex | SD |
PTPRK | SNV | Missense_Mutation | rs375206155 | c.2650N>G | p.Ile884Val | p.I884V | Q15262 | protein_coding | tolerated(0.6) | benign(0.001) | TCGA-PE-A5DD-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | | CR |
PTPRK | insertion | Frame_Shift_Ins | novel | c.3787_3788insGAGG | p.Gln1263ArgfsTer26 | p.Q1263Rfs*26 | Q15262 | protein_coding | | | TCGA-AO-A03R-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | SD |
PTPRK | insertion | Frame_Shift_Ins | novel | c.3786_3787insTGGAAAAGTGGCAGGAGGAATG | p.Gln1263TrpfsTer32 | p.Q1263Wfs*32 | Q15262 | protein_coding | | | TCGA-AO-A03R-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | SD |
PTPRK | insertion | Frame_Shift_Ins | novel | c.315_316insTT | p.Ile106LeufsTer14 | p.I106Lfs*14 | Q15262 | protein_coding | | | TCGA-AQ-A04J-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | SD |
PTPRK | insertion | Frame_Shift_Ins | novel | c.314_315insGTGGTTTGACAAAGAGCTA | p.Cys105TrpfsTer9 | p.C105Wfs*9 | Q15262 | protein_coding | | | TCGA-AQ-A04J-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | SD |