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/SFN_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/SFN_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/SFN_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/SFN_pca_on_diff_genes.png) | AD: Adenomas |
SER: Sessile serrated lesions |
MSI-H: Microsatellite-high colorectal cancer |
MSS: Microsatellite stable colorectal 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/SFN_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/SFN_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/SFN_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/SFN_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/SFN_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/SFN_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/SFN_pca_on_diff_genes.png) | AK: Actinic keratosis |
cSCC: Cutaneous squamous cell carcinoma |
SCCIS:squamous cell carcinoma in situ |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:000183614 | Cervix | HSIL_HPV | release of cytochrome c from mitochondria | 8/737 | 59/18723 | 2.08e-03 | 2.15e-02 | 8 |
GO:005122214 | Cervix | HSIL_HPV | positive regulation of protein transport | 23/737 | 303/18723 | 2.11e-03 | 2.17e-02 | 23 |
GO:001083713 | Cervix | HSIL_HPV | regulation of keratinocyte proliferation | 6/737 | 35/18723 | 2.23e-03 | 2.25e-02 | 6 |
GO:001604914 | Cervix | HSIL_HPV | cell growth | 32/737 | 482/18723 | 2.87e-03 | 2.70e-02 | 32 |
GO:000863714 | Cervix | HSIL_HPV | apoptotic mitochondrial changes | 11/737 | 107/18723 | 3.27e-03 | 2.97e-02 | 11 |
GO:00301041 | Cervix | HSIL_HPV | water homeostasis | 8/737 | 64/18723 | 3.51e-03 | 3.15e-02 | 8 |
GO:190495114 | Cervix | HSIL_HPV | positive regulation of establishment of protein localization | 23/737 | 319/18723 | 4.01e-03 | 3.45e-02 | 23 |
GO:003030713 | Cervix | HSIL_HPV | positive regulation of cell growth | 14/737 | 166/18723 | 6.04e-03 | 4.75e-02 | 14 |
GO:009719325 | Cervix | N_HPV | intrinsic apoptotic signaling pathway | 31/534 | 288/18723 | 2.39e-10 | 2.17e-07 | 31 |
GO:005254824 | Cervix | N_HPV | regulation of endopeptidase activity | 36/534 | 432/18723 | 9.74e-09 | 1.72e-06 | 36 |
GO:005254724 | Cervix | N_HPV | regulation of peptidase activity | 36/534 | 461/18723 | 5.15e-08 | 5.59e-06 | 36 |
GO:004586124 | Cervix | N_HPV | negative regulation of proteolysis | 27/534 | 351/18723 | 3.27e-06 | 1.36e-04 | 27 |
GO:001095123 | Cervix | N_HPV | negative regulation of endopeptidase activity | 21/534 | 252/18723 | 1.21e-05 | 4.05e-04 | 21 |
GO:001046623 | Cervix | N_HPV | negative regulation of peptidase activity | 21/534 | 262/18723 | 2.18e-05 | 6.16e-04 | 21 |
GO:005134624 | Cervix | N_HPV | negative regulation of hydrolase activity | 25/534 | 379/18723 | 9.66e-05 | 1.97e-03 | 25 |
GO:000854423 | Cervix | N_HPV | epidermis development | 21/534 | 324/18723 | 4.32e-04 | 6.01e-03 | 21 |
GO:200011624 | Cervix | N_HPV | regulation of cysteine-type endopeptidase activity | 17/534 | 235/18723 | 4.36e-04 | 6.01e-03 | 17 |
GO:004358821 | Cervix | N_HPV | skin development | 18/534 | 263/18723 | 5.79e-04 | 7.67e-03 | 18 |
GO:000863723 | Cervix | N_HPV | apoptotic mitochondrial changes | 10/534 | 107/18723 | 9.68e-04 | 1.15e-02 | 10 |
GO:005122224 | Cervix | N_HPV | positive regulation of protein transport | 19/534 | 303/18723 | 1.18e-03 | 1.33e-02 | 19 |
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 |
SFN | SNV | Missense_Mutation | | c.369G>T | p.Met123Ile | p.M123I | P31947 | protein_coding | deleterious_low_confidence(0) | probably_damaging(1) | TCGA-AC-A23H-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
SFN | SNV | Missense_Mutation | rs753008567 | c.721N>A | p.Glu241Lys | p.E241K | P31947 | protein_coding | deleterious_low_confidence(0.03) | benign(0.369) | TCGA-C5-A1MK-01 | Cervix | cervical & endocervical cancer | Female | >=65 | III/IV | Chemotherapy | carboplatin | PD |
SFN | SNV | Missense_Mutation | novel | c.177G>C | p.Trp59Cys | p.W59C | P31947 | protein_coding | deleterious_low_confidence(0) | probably_damaging(1) | TCGA-VS-A953-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | PD |
SFN | SNV | Missense_Mutation | | c.515T>A | p.Leu172Gln | p.L172Q | P31947 | protein_coding | deleterious_low_confidence(0) | probably_damaging(0.999) | TCGA-A6-5665-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
SFN | SNV | Missense_Mutation | rs532069878 | c.289N>A | p.Asp97Asn | p.D97N | P31947 | protein_coding | tolerated_low_confidence(1) | benign(0) | TCGA-AG-4021-01 | Colorectum | rectum adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD |
SFN | SNV | Missense_Mutation | novel | c.47C>T | p.Ala16Val | p.A16V | P31947 | protein_coding | deleterious_low_confidence(0.02) | possibly_damaging(0.899) | TCGA-AJ-A3EK-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Chemotherapy | carboplatin | CR |
SFN | deletion | In_Frame_Del | novel | c.110_112delCCT | p.Ser37del | p.S37del | P31947 | protein_coding | | | TCGA-AJ-A3BH-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | Unknown | I/II | Unknown | Unknown | SD |
SFN | SNV | Missense_Mutation | | c.610N>A | p.Asp204Asn | p.D204N | P31947 | protein_coding | deleterious_low_confidence(0) | benign(0.044) | TCGA-21-5782-01 | Lung | lung squamous cell carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
SFN | SNV | Missense_Mutation | | c.147G>C | p.Lys49Asn | p.K49N | P31947 | protein_coding | deleterious_low_confidence(0) | probably_damaging(1) | TCGA-60-2698-01 | Lung | lung squamous cell carcinoma | Male | <65 | I/II | Chemotherapy | mithramycin | PD |
SFN | SNV | Missense_Mutation | novel | c.79A>G | p.Lys27Glu | p.K27E | P31947 | protein_coding | tolerated_low_confidence(0.14) | benign(0.027) | TCGA-BA-4077-01 | Oral cavity | head & neck squamous cell carcinoma | Female | <65 | I/II | Chemotherapy | cetuximab | PD |