Tissue | Expression Dynamics | Abbreviation |
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/PTPRJ_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/PTPRJ_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/PTPRJ_pca_on_diff_genes.png) | AEH: Atypical endometrial hyperplasia |
EEC: Endometrioid Cancer |
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/PTPRJ_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/PTPRJ_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/PTPRJ_pca_on_diff_genes.png) | AAH: Atypical adenomatous hyperplasia |
AIS: Adenocarcinoma in situ |
IAC: Invasive lung adenocarcinoma |
MIA: Minimally invasive adenocarcinoma |
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/PTPRJ_pca_on_diff_genes.png) | BPH: Benign Prostatic Hyperplasia |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:003809312 | Endometrium | EEC | Fc receptor signaling pathway | 14/2168 | 50/18723 | 1.23e-03 | 1.03e-02 | 14 |
GO:003812713 | Endometrium | EEC | ERBB signaling pathway | 26/2168 | 121/18723 | 1.28e-03 | 1.06e-02 | 26 |
GO:005085212 | Endometrium | EEC | T cell receptor signaling pathway | 26/2168 | 123/18723 | 1.64e-03 | 1.29e-02 | 26 |
GO:004340914 | Endometrium | EEC | negative regulation of MAPK cascade | 34/2168 | 180/18723 | 2.69e-03 | 1.95e-02 | 34 |
GO:190188812 | Endometrium | EEC | regulation of cell junction assembly | 37/2168 | 204/18723 | 3.70e-03 | 2.48e-02 | 37 |
GO:004349113 | Endometrium | EEC | protein kinase B signaling | 38/2168 | 211/18723 | 3.74e-03 | 2.49e-02 | 38 |
GO:005189612 | Endometrium | EEC | regulation of protein kinase B signaling | 34/2168 | 185/18723 | 4.24e-03 | 2.75e-02 | 34 |
GO:000181913 | Endometrium | EEC | positive regulation of cytokine production | 73/2168 | 467/18723 | 4.64e-03 | 2.97e-02 | 73 |
GO:003367314 | Endometrium | EEC | negative regulation of kinase activity | 41/2168 | 237/18723 | 5.55e-03 | 3.36e-02 | 41 |
GO:00070446 | Liver | NAFLD | cell-substrate junction assembly | 29/1882 | 95/18723 | 2.71e-08 | 2.86e-06 | 29 |
GO:01501156 | Liver | NAFLD | cell-substrate junction organization | 30/1882 | 101/18723 | 3.15e-08 | 3.23e-06 | 30 |
GO:00480415 | Liver | NAFLD | focal adhesion assembly | 27/1882 | 87/18723 | 5.52e-08 | 5.12e-06 | 27 |
GO:00160495 | Liver | NAFLD | cell growth | 85/1882 | 482/18723 | 1.75e-07 | 1.25e-05 | 85 |
GO:00071606 | Liver | NAFLD | cell-matrix adhesion | 49/1882 | 233/18723 | 4.36e-07 | 2.74e-05 | 49 |
GO:00108107 | Liver | NAFLD | regulation of cell-substrate adhesion | 47/1882 | 221/18723 | 5.30e-07 | 3.16e-05 | 47 |
GO:01501166 | Liver | NAFLD | regulation of cell-substrate junction organization | 22/1882 | 71/18723 | 9.51e-07 | 4.92e-05 | 22 |
GO:00518936 | Liver | NAFLD | regulation of focal adhesion assembly | 21/1882 | 66/18723 | 1.03e-06 | 5.22e-05 | 21 |
GO:00901096 | Liver | NAFLD | regulation of cell-substrate junction assembly | 21/1882 | 66/18723 | 1.03e-06 | 5.22e-05 | 21 |
GO:00315896 | Liver | NAFLD | cell-substrate adhesion | 65/1882 | 363/18723 | 2.84e-06 | 1.18e-04 | 65 |
GO:00423267 | Liver | NAFLD | negative regulation of phosphorylation | 67/1882 | 385/18723 | 5.49e-06 | 1.98e-04 | 67 |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa05208 | Colorectum | AD | Chemical carcinogenesis - reactive oxygen species | 126/2092 | 223/8465 | 1.01e-24 | 1.68e-22 | 1.07e-22 | 126 |
hsa04520 | Colorectum | AD | Adherens junction | 50/2092 | 93/8465 | 1.52e-09 | 2.83e-08 | 1.81e-08 | 50 |
hsa052081 | Colorectum | AD | Chemical carcinogenesis - reactive oxygen species | 126/2092 | 223/8465 | 1.01e-24 | 1.68e-22 | 1.07e-22 | 126 |
hsa045201 | Colorectum | AD | Adherens junction | 50/2092 | 93/8465 | 1.52e-09 | 2.83e-08 | 1.81e-08 | 50 |
hsa045208 | Colorectum | FAP | Adherens junction | 45/1404 | 93/8465 | 8.66e-13 | 2.89e-10 | 1.76e-10 | 45 |
hsa052088 | Colorectum | FAP | Chemical carcinogenesis - reactive oxygen species | 78/1404 | 223/8465 | 1.08e-11 | 1.80e-09 | 1.09e-09 | 78 |
hsa045209 | Colorectum | FAP | Adherens junction | 45/1404 | 93/8465 | 8.66e-13 | 2.89e-10 | 1.76e-10 | 45 |
hsa052089 | Colorectum | FAP | Chemical carcinogenesis - reactive oxygen species | 78/1404 | 223/8465 | 1.08e-11 | 1.80e-09 | 1.09e-09 | 78 |
hsa0452010 | Colorectum | CRC | Adherens junction | 37/1091 | 93/8465 | 5.72e-11 | 6.37e-09 | 4.32e-09 | 37 |
hsa0520810 | Colorectum | CRC | Chemical carcinogenesis - reactive oxygen species | 43/1091 | 223/8465 | 3.96e-03 | 2.36e-02 | 1.60e-02 | 43 |
hsa0452011 | Colorectum | CRC | Adherens junction | 37/1091 | 93/8465 | 5.72e-11 | 6.37e-09 | 4.32e-09 | 37 |
hsa0520811 | Colorectum | CRC | Chemical carcinogenesis - reactive oxygen species | 43/1091 | 223/8465 | 3.96e-03 | 2.36e-02 | 1.60e-02 | 43 |
hsa0520826 | Endometrium | AEH | Chemical carcinogenesis - reactive oxygen species | 91/1197 | 223/8465 | 3.28e-23 | 1.33e-21 | 9.76e-22 | 91 |
hsa0452025 | Endometrium | AEH | Adherens junction | 36/1197 | 93/8465 | 3.49e-09 | 5.98e-08 | 4.37e-08 | 36 |
hsa05208112 | Endometrium | AEH | Chemical carcinogenesis - reactive oxygen species | 91/1197 | 223/8465 | 3.28e-23 | 1.33e-21 | 9.76e-22 | 91 |
hsa04520111 | Endometrium | AEH | Adherens junction | 36/1197 | 93/8465 | 3.49e-09 | 5.98e-08 | 4.37e-08 | 36 |
hsa0520827 | Endometrium | EEC | Chemical carcinogenesis - reactive oxygen species | 94/1237 | 223/8465 | 4.11e-24 | 1.93e-22 | 1.44e-22 | 94 |
hsa0452026 | Endometrium | EEC | Adherens junction | 36/1237 | 93/8465 | 8.57e-09 | 1.48e-07 | 1.11e-07 | 36 |
hsa0520836 | Endometrium | EEC | Chemical carcinogenesis - reactive oxygen species | 94/1237 | 223/8465 | 4.11e-24 | 1.93e-22 | 1.44e-22 | 94 |
hsa0452035 | Endometrium | EEC | Adherens junction | 36/1237 | 93/8465 | 8.57e-09 | 1.48e-07 | 1.11e-07 | 36 |
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 |
PTPRJ | SNV | Missense_Mutation | | c.3227N>T | p.Pro1076Leu | p.P1076L | Q12913 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AQ-A04J-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | SD |
PTPRJ | SNV | Missense_Mutation | novel | c.959C>T | p.Ser320Phe | p.S320F | Q12913 | protein_coding | deleterious(0.02) | benign(0.156) | TCGA-BH-A42V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
PTPRJ | SNV | Missense_Mutation | | c.2453N>G | p.Pro818Arg | p.P818R | Q12913 | protein_coding | tolerated(0.08) | benign(0.011) | TCGA-C8-A12M-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
PTPRJ | SNV | Missense_Mutation | | c.2854N>A | p.Glu952Lys | p.E952K | Q12913 | protein_coding | tolerated(0.14) | benign(0.015) | TCGA-C8-A26Y-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
PTPRJ | SNV | Missense_Mutation | novel | c.1204N>T | p.His402Tyr | p.H402Y | Q12913 | protein_coding | tolerated(0.16) | benign(0.013) | TCGA-D8-A1XW-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin+cyclophosphamide | SD |
PTPRJ | SNV | Missense_Mutation | | c.3209G>A | p.Arg1070His | p.R1070H | Q12913 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-E9-A295-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | tamoxiphen | SD |
PTPRJ | insertion | In_Frame_Ins | novel | c.2397_2398insCCTGGCCGG | p.Gly799_Lys800insProGlyArg | p.G799_K800insPGR | Q12913 | protein_coding | | | TCGA-A2-A04Y-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | SD |
PTPRJ | insertion | Frame_Shift_Ins | novel | c.2398_2399insAGTCATTCTGTACAGGTGAGTGT | p.Met801SerfsTer41 | p.M801Sfs*41 | Q12913 | protein_coding | | | TCGA-A2-A04Y-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | SD |
PTPRJ | insertion | In_Frame_Ins | novel | c.461_462insCTCTTC | p.Lys154delinsAsnSerSer | p.K154delinsNSS | Q12913 | protein_coding | | | TCGA-AN-A0FN-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
PTPRJ | insertion | Frame_Shift_Ins | novel | c.462_463insGTTTCTGGTTGTTACTCCTCAGTCTT | p.His155ValfsTer45 | p.H155Vfs*45 | Q12913 | protein_coding | | | TCGA-AN-A0FN-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |