Tissue | Expression Dynamics | Abbreviation |
Breast | ![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/Breast/SQSTM1_pca_on_diff_genes.png) | IDC: Invasive ductal carcinoma |
DCIS: Ductal carcinoma in situ |
Precancer(BRCA1-mut): Precancerous lesion from BRCA1 mutation carriers |
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/SQSTM1_pca_on_diff_genes.png) | CC: Cervix cancer |
HSIL_HPV: HPV-infected high-grade squamous intraepithelial lesions |
N_HPV: HPV-infected normal cervix |
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/SQSTM1_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/SQSTM1_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/SQSTM1_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/SQSTM1_pca_on_diff_genes.png) | HCC: Hepatocellular carcinoma |
NAFLD: Non-alcoholic fatty liver disease |
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/SQSTM1_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/SQSTM1_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/SQSTM1_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/SQSTM1_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:19033209 | Breast | Precancer | regulation of protein modification by small protein conjugation or removal | 38/1080 | 242/18723 | 1.71e-08 | 1.17e-06 | 38 |
GO:19033219 | Breast | Precancer | negative regulation of protein modification by small protein conjugation or removal | 21/1080 | 95/18723 | 8.09e-08 | 4.61e-06 | 21 |
GO:00313969 | Breast | Precancer | regulation of protein ubiquitination | 33/1080 | 210/18723 | 1.45e-07 | 7.82e-06 | 33 |
GO:00313979 | Breast | Precancer | negative regulation of protein ubiquitination | 19/1080 | 83/18723 | 1.85e-07 | 9.54e-06 | 19 |
GO:0002931 | Breast | Precancer | response to ischemia | 12/1080 | 58/18723 | 9.65e-05 | 1.80e-03 | 12 |
GO:00004226 | Breast | Precancer | autophagy of mitochondrion | 14/1080 | 81/18723 | 2.01e-04 | 3.16e-03 | 14 |
GO:00617266 | Breast | Precancer | mitochondrion disassembly | 14/1080 | 81/18723 | 2.01e-04 | 3.16e-03 | 14 |
GO:00224119 | Breast | Precancer | cellular component disassembly | 44/1080 | 443/18723 | 3.17e-04 | 4.51e-03 | 44 |
GO:00108217 | Breast | Precancer | regulation of mitochondrion organization | 19/1080 | 144/18723 | 6.26e-04 | 7.78e-03 | 19 |
GO:19038299 | Breast | Precancer | positive regulation of cellular protein localization | 30/1080 | 276/18723 | 6.48e-04 | 7.99e-03 | 30 |
GO:19030085 | Breast | Precancer | organelle disassembly | 15/1080 | 114/18723 | 2.31e-03 | 2.15e-02 | 15 |
GO:19054777 | Breast | Precancer | positive regulation of protein localization to membrane | 14/1080 | 106/18723 | 3.07e-03 | 2.62e-02 | 14 |
GO:19043757 | Breast | Precancer | regulation of protein localization to cell periphery | 15/1080 | 125/18723 | 5.58e-03 | 4.07e-02 | 15 |
GO:19054757 | Breast | Precancer | regulation of protein localization to membrane | 19/1080 | 175/18723 | 5.98e-03 | 4.22e-02 | 19 |
GO:19043778 | Breast | Precancer | positive regulation of protein localization to cell periphery | 10/1080 | 69/18723 | 5.98e-03 | 4.22e-02 | 10 |
GO:00072496 | Breast | Precancer | I-kappaB kinase/NF-kappaB signaling | 27/1080 | 281/18723 | 6.58e-03 | 4.53e-02 | 27 |
GO:19030767 | Breast | Precancer | regulation of protein localization to plasma membrane | 13/1080 | 104/18723 | 6.79e-03 | 4.65e-02 | 13 |
GO:190332014 | Breast | IDC | regulation of protein modification by small protein conjugation or removal | 43/1434 | 242/18723 | 1.71e-07 | 9.16e-06 | 43 |
GO:003139614 | Breast | IDC | regulation of protein ubiquitination | 37/1434 | 210/18723 | 1.50e-06 | 6.36e-05 | 37 |
GO:190332114 | Breast | IDC | negative regulation of protein modification by small protein conjugation or removal | 22/1434 | 95/18723 | 2.16e-06 | 8.69e-05 | 22 |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0414033 | Prostate | Tumor | Autophagy - animal | 44/1791 | 141/8465 | 3.16e-03 | 1.15e-02 | 7.12e-03 | 44 |
hsa0421731 | Prostate | Tumor | Necroptosis | 46/1791 | 159/8465 | 1.20e-02 | 3.68e-02 | 2.28e-02 | 46 |
hsa0501412 | Stomach | GC | Amyotrophic lateral sclerosis | 75/708 | 364/8465 | 6.67e-14 | 2.37e-12 | 1.67e-12 | 75 |
hsa0502212 | Stomach | GC | Pathways of neurodegeneration - multiple diseases | 82/708 | 476/8465 | 9.16e-11 | 2.09e-09 | 1.47e-09 | 82 |
hsa0541812 | Stomach | GC | Fluid shear stress and atherosclerosis | 29/708 | 139/8465 | 3.05e-06 | 4.65e-05 | 3.28e-05 | 29 |
hsa0513112 | Stomach | GC | Shigellosis | 36/708 | 247/8465 | 6.74e-04 | 5.42e-03 | 3.82e-03 | 36 |
hsa042186 | Stomach | GC | Cellular senescence | 25/708 | 156/8465 | 1.13e-03 | 7.72e-03 | 5.43e-03 | 25 |
hsa0501413 | Stomach | GC | Amyotrophic lateral sclerosis | 75/708 | 364/8465 | 6.67e-14 | 2.37e-12 | 1.67e-12 | 75 |
hsa0502213 | Stomach | GC | Pathways of neurodegeneration - multiple diseases | 82/708 | 476/8465 | 9.16e-11 | 2.09e-09 | 1.47e-09 | 82 |
hsa0541813 | Stomach | GC | Fluid shear stress and atherosclerosis | 29/708 | 139/8465 | 3.05e-06 | 4.65e-05 | 3.28e-05 | 29 |
hsa0513113 | Stomach | GC | Shigellosis | 36/708 | 247/8465 | 6.74e-04 | 5.42e-03 | 3.82e-03 | 36 |
hsa0421811 | Stomach | GC | Cellular senescence | 25/708 | 156/8465 | 1.13e-03 | 7.72e-03 | 5.43e-03 | 25 |
hsa0501421 | Stomach | CAG with IM | Amyotrophic lateral sclerosis | 75/640 | 364/8465 | 2.71e-16 | 9.58e-15 | 6.72e-15 | 75 |
hsa0502221 | Stomach | CAG with IM | Pathways of neurodegeneration - multiple diseases | 82/640 | 476/8465 | 4.27e-13 | 1.24e-11 | 8.67e-12 | 82 |
hsa0541821 | Stomach | CAG with IM | Fluid shear stress and atherosclerosis | 29/640 | 139/8465 | 3.84e-07 | 7.19e-06 | 5.05e-06 | 29 |
hsa0421821 | Stomach | CAG with IM | Cellular senescence | 24/640 | 156/8465 | 6.19e-04 | 5.05e-03 | 3.54e-03 | 24 |
hsa0513121 | Stomach | CAG with IM | Shigellosis | 33/640 | 247/8465 | 9.05e-04 | 6.85e-03 | 4.81e-03 | 33 |
hsa0421710 | Stomach | CAG with IM | Necroptosis | 21/640 | 159/8465 | 8.37e-03 | 4.59e-02 | 3.22e-02 | 21 |
hsa0501431 | Stomach | CAG with IM | Amyotrophic lateral sclerosis | 75/640 | 364/8465 | 2.71e-16 | 9.58e-15 | 6.72e-15 | 75 |
hsa0502231 | Stomach | CAG with IM | Pathways of neurodegeneration - multiple diseases | 82/640 | 476/8465 | 4.27e-13 | 1.24e-11 | 8.67e-12 | 82 |
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 |
SQSTM1 | SNV | Missense_Mutation | novel | c.1260N>T | p.Lys420Asn | p.K420N | Q13501 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
SQSTM1 | SNV | Missense_Mutation | novel | c.465G>T | p.Glu155Asp | p.E155D | Q13501 | protein_coding | deleterious(0.01) | probably_damaging(0.952) | TCGA-AN-A0AK-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
SQSTM1 | SNV | Missense_Mutation | | c.494N>G | p.Lys165Arg | p.K165R | Q13501 | protein_coding | tolerated(0.15) | benign(0.425) | TCGA-B6-A0IJ-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
SQSTM1 | SNV | Missense_Mutation | rs772889843 | c.1043N>T | p.Pro348Leu | p.P348L | Q13501 | protein_coding | deleterious(0) | probably_damaging(0.981) | TCGA-BH-A0HA-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
SQSTM1 | deletion | Frame_Shift_Del | novel | c.321_328delNNNNNNNN | p.Asp108ProfsTer42 | p.D108Pfs*42 | Q13501 | protein_coding | | | TCGA-AN-A03X-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
SQSTM1 | insertion | Nonsense_Mutation | novel | c.1211_1212insTGAGCACTGAGTGAACCAGACTCCGTCTGCAATCCC | p.Met404delinsIleGluHisTerValAsnGlnThrProSerAlaIlePro | p.M404delinsIEH*VNQTPSAIP | Q13501 | protein_coding | | | TCGA-AR-A0TY-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unspecific | Paclitaxel | PD |
SQSTM1 | SNV | Missense_Mutation | | c.1099C>G | p.Leu367Val | p.L367V | Q13501 | protein_coding | tolerated(0.11) | benign(0.007) | TCGA-FU-A5XV-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Unknown | Unknown | SD |
SQSTM1 | SNV | Missense_Mutation | | c.850T>G | p.Ser284Ala | p.S284A | Q13501 | protein_coding | tolerated(0.42) | benign(0) | TCGA-AA-3492-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
SQSTM1 | SNV | Missense_Mutation | rs758625124 | c.481N>T | p.Arg161Trp | p.R161W | Q13501 | protein_coding | deleterious(0) | possibly_damaging(0.67) | TCGA-AA-3819-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
SQSTM1 | SNV | Missense_Mutation | rs200551825 | c.1178N>A | p.Arg393Gln | p.R393Q | Q13501 | protein_coding | deleterious(0.01) | possibly_damaging(0.56) | TCGA-WS-AB45-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |