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/PRKN_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/PRKN_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/PRKN_pca_on_diff_genes.png) | AEH: Atypical endometrial hyperplasia |
EEC: Endometrioid Cancer |
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/PRKN_pca_on_diff_genes.png) | AAH: Atypical adenomatous hyperplasia |
AIS: Adenocarcinoma in situ |
IAC: Invasive lung adenocarcinoma |
MIA: Minimally invasive adenocarcinoma |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:20012423 | Colorectum | MSI-H | regulation of intrinsic apoptotic signaling pathway | 40/1319 | 164/18723 | 2.39e-12 | 4.91e-10 | 40 |
GO:00421763 | Colorectum | MSI-H | regulation of protein catabolic process | 65/1319 | 391/18723 | 6.96e-11 | 1.29e-08 | 65 |
GO:20012333 | Colorectum | MSI-H | regulation of apoptotic signaling pathway | 61/1319 | 356/18723 | 7.62e-11 | 1.37e-08 | 61 |
GO:19033623 | Colorectum | MSI-H | regulation of cellular protein catabolic process | 49/1319 | 255/18723 | 9.82e-11 | 1.66e-08 | 49 |
GO:00510993 | Colorectum | MSI-H | positive regulation of binding | 38/1319 | 173/18723 | 2.34e-10 | 3.60e-08 | 38 |
GO:00971933 | Colorectum | MSI-H | intrinsic apoptotic signaling pathway | 52/1319 | 288/18723 | 2.82e-10 | 4.23e-08 | 52 |
GO:19030503 | Colorectum | MSI-H | regulation of proteolysis involved in cellular protein catabolic process | 43/1319 | 221/18723 | 9.16e-10 | 1.27e-07 | 43 |
GO:00069793 | Colorectum | MSI-H | response to oxidative stress | 68/1319 | 446/18723 | 1.17e-09 | 1.59e-07 | 68 |
GO:00190583 | Colorectum | MSI-H | viral life cycle | 53/1319 | 317/18723 | 3.27e-09 | 4.32e-07 | 53 |
GO:00104983 | Colorectum | MSI-H | proteasomal protein catabolic process | 71/1319 | 490/18723 | 4.67e-09 | 6.03e-07 | 71 |
GO:20000583 | Colorectum | MSI-H | regulation of ubiquitin-dependent protein catabolic process | 34/1319 | 164/18723 | 9.82e-09 | 1.21e-06 | 34 |
GO:00725943 | Colorectum | MSI-H | establishment of protein localization to organelle | 63/1319 | 422/18723 | 1.10e-08 | 1.33e-06 | 63 |
GO:20012343 | Colorectum | MSI-H | negative regulation of apoptotic signaling pathway | 41/1319 | 224/18723 | 1.43e-08 | 1.69e-06 | 41 |
GO:19033203 | Colorectum | MSI-H | regulation of protein modification by small protein conjugation or removal | 43/1319 | 242/18723 | 1.60e-08 | 1.85e-06 | 43 |
GO:00313963 | Colorectum | MSI-H | regulation of protein ubiquitination | 39/1319 | 210/18723 | 2.12e-08 | 2.36e-06 | 39 |
GO:00190793 | Colorectum | MSI-H | viral genome replication | 29/1319 | 131/18723 | 2.57e-08 | 2.80e-06 | 29 |
GO:00510983 | Colorectum | MSI-H | regulation of binding | 54/1319 | 363/18723 | 1.38e-07 | 1.30e-05 | 54 |
GO:00621973 | Colorectum | MSI-H | cellular response to chemical stress | 51/1319 | 337/18723 | 1.78e-07 | 1.52e-05 | 51 |
GO:20012433 | Colorectum | MSI-H | negative regulation of intrinsic apoptotic signaling pathway | 23/1319 | 98/18723 | 2.29e-07 | 1.93e-05 | 23 |
GO:19021753 | Colorectum | MSI-H | regulation of oxidative stress-induced intrinsic apoptotic signaling pathway | 12/1319 | 29/18723 | 2.39e-07 | 1.95e-05 | 12 |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa05012 | Colorectum | AD | Parkinson disease | 147/2092 | 266/8465 | 2.53e-27 | 8.48e-25 | 5.41e-25 | 147 |
hsa05014 | Colorectum | AD | Amyotrophic lateral sclerosis | 164/2092 | 364/8465 | 4.28e-18 | 1.27e-16 | 8.09e-17 | 164 |
hsa05022 | Colorectum | AD | Pathways of neurodegeneration - multiple diseases | 201/2092 | 476/8465 | 4.54e-18 | 1.27e-16 | 8.09e-17 | 201 |
hsa04141 | Colorectum | AD | Protein processing in endoplasmic reticulum | 80/2092 | 174/8465 | 5.96e-10 | 1.25e-08 | 7.96e-09 | 80 |
hsa04120 | Colorectum | AD | Ubiquitin mediated proteolysis | 58/2092 | 142/8465 | 1.46e-05 | 1.53e-04 | 9.76e-05 | 58 |
hsa04137 | Colorectum | AD | Mitophagy - animal | 29/2092 | 72/8465 | 2.49e-03 | 1.35e-02 | 8.59e-03 | 29 |
hsa050121 | Colorectum | AD | Parkinson disease | 147/2092 | 266/8465 | 2.53e-27 | 8.48e-25 | 5.41e-25 | 147 |
hsa050141 | Colorectum | AD | Amyotrophic lateral sclerosis | 164/2092 | 364/8465 | 4.28e-18 | 1.27e-16 | 8.09e-17 | 164 |
hsa050221 | Colorectum | AD | Pathways of neurodegeneration - multiple diseases | 201/2092 | 476/8465 | 4.54e-18 | 1.27e-16 | 8.09e-17 | 201 |
hsa041411 | Colorectum | AD | Protein processing in endoplasmic reticulum | 80/2092 | 174/8465 | 5.96e-10 | 1.25e-08 | 7.96e-09 | 80 |
hsa041201 | Colorectum | AD | Ubiquitin mediated proteolysis | 58/2092 | 142/8465 | 1.46e-05 | 1.53e-04 | 9.76e-05 | 58 |
hsa041371 | Colorectum | AD | Mitophagy - animal | 29/2092 | 72/8465 | 2.49e-03 | 1.35e-02 | 8.59e-03 | 29 |
hsa050222 | Colorectum | SER | Pathways of neurodegeneration - multiple diseases | 168/1580 | 476/8465 | 6.23e-19 | 2.07e-17 | 1.50e-17 | 168 |
hsa050142 | Colorectum | SER | Amyotrophic lateral sclerosis | 138/1580 | 364/8465 | 9.89e-19 | 2.99e-17 | 2.17e-17 | 138 |
hsa041412 | Colorectum | SER | Protein processing in endoplasmic reticulum | 60/1580 | 174/8465 | 4.20e-07 | 7.33e-06 | 5.32e-06 | 60 |
hsa041202 | Colorectum | SER | Ubiquitin mediated proteolysis | 39/1580 | 142/8465 | 6.18e-03 | 3.66e-02 | 2.66e-02 | 39 |
hsa050223 | Colorectum | SER | Pathways of neurodegeneration - multiple diseases | 168/1580 | 476/8465 | 6.23e-19 | 2.07e-17 | 1.50e-17 | 168 |
hsa050143 | Colorectum | SER | Amyotrophic lateral sclerosis | 138/1580 | 364/8465 | 9.89e-19 | 2.99e-17 | 2.17e-17 | 138 |
hsa041413 | Colorectum | SER | Protein processing in endoplasmic reticulum | 60/1580 | 174/8465 | 4.20e-07 | 7.33e-06 | 5.32e-06 | 60 |
hsa041203 | Colorectum | SER | Ubiquitin mediated proteolysis | 39/1580 | 142/8465 | 6.18e-03 | 3.66e-02 | 2.66e-02 | 39 |