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/PHIP_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/PHIP_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/PHIP_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/PHIP_pca_on_diff_genes.png) | ESCC: Esophageal squamous cell carcinoma |
HGIN: High-grade intraepithelial neoplasias |
LGIN: Low-grade intraepithelial neoplasias |
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/PHIP_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/PHIP_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/PHIP_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/PHIP_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/PHIP_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/PHIP_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:000836023 | Lung | AAH | regulation of cell shape | 16/613 | 154/18723 | 4.67e-05 | 5.22e-03 | 16 |
GO:000828621 | Lung | AAH | insulin receptor signaling pathway | 13/613 | 116/18723 | 1.10e-04 | 7.39e-03 | 13 |
GO:190165322 | Lung | AAH | cellular response to peptide | 24/613 | 359/18723 | 8.02e-04 | 2.72e-02 | 24 |
GO:003286822 | Lung | AAH | response to insulin | 19/613 | 264/18723 | 1.17e-03 | 3.33e-02 | 19 |
GO:200123423 | Lung | AAH | negative regulation of apoptotic signaling pathway | 17/613 | 224/18723 | 1.17e-03 | 3.33e-02 | 17 |
GO:007137522 | Lung | AAH | cellular response to peptide hormone stimulus | 20/613 | 290/18723 | 1.47e-03 | 3.76e-02 | 20 |
GO:002260432 | Lung | MIAC | regulation of cell morphogenesis | 38/967 | 309/18723 | 6.47e-07 | 9.76e-05 | 38 |
GO:200123333 | Lung | MIAC | regulation of apoptotic signaling pathway | 38/967 | 356/18723 | 1.88e-05 | 1.27e-03 | 38 |
GO:000836032 | Lung | MIAC | regulation of cell shape | 20/967 | 154/18723 | 1.34e-04 | 5.35e-03 | 20 |
GO:200123432 | Lung | MIAC | negative regulation of apoptotic signaling pathway | 25/967 | 224/18723 | 2.45e-04 | 8.13e-03 | 25 |
GO:200123722 | Lung | MIAC | negative regulation of extrinsic apoptotic signaling pathway | 14/967 | 97/18723 | 4.47e-04 | 1.25e-02 | 14 |
GO:200123622 | Lung | MIAC | regulation of extrinsic apoptotic signaling pathway | 17/967 | 151/18723 | 2.08e-03 | 3.26e-02 | 17 |
GO:003286831 | Lung | MIAC | response to insulin | 25/967 | 264/18723 | 2.62e-03 | 3.71e-02 | 25 |
GO:009006811 | Lung | MIAC | positive regulation of cell cycle process | 23/967 | 236/18723 | 2.65e-03 | 3.71e-02 | 23 |
GO:004343423 | Lung | MIAC | response to peptide hormone | 35/967 | 414/18723 | 2.97e-03 | 4.00e-02 | 35 |
GO:004578712 | Lung | MIAC | positive regulation of cell cycle | 28/967 | 313/18723 | 3.42e-03 | 4.43e-02 | 28 |
GO:200123320 | Oral cavity | OSCC | regulation of apoptotic signaling pathway | 242/7305 | 356/18723 | 6.66e-29 | 3.24e-26 | 242 |
GO:01400145 | Oral cavity | OSCC | mitotic nuclear division | 191/7305 | 287/18723 | 1.99e-21 | 3.70e-19 | 191 |
GO:00073469 | Oral cavity | OSCC | regulation of mitotic cell cycle | 266/7305 | 457/18723 | 3.87e-17 | 3.41e-15 | 266 |
GO:200123420 | Oral cavity | OSCC | negative regulation of apoptotic signaling pathway | 148/7305 | 224/18723 | 1.71e-16 | 1.36e-14 | 148 |
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 |
PHIP | SNV | Missense_Mutation | novel | c.4808N>T | p.Ser1603Leu | p.S1603L | Q8WWQ0 | protein_coding | tolerated_low_confidence(0.27) | benign(0.154) | TCGA-AO-A03P-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | letrozole | PD |
PHIP | SNV | Missense_Mutation | rs200729688 | c.4529N>A | p.Arg1510Gln | p.R1510Q | Q8WWQ0 | protein_coding | tolerated_low_confidence(0.08) | benign(0.388) | TCGA-AO-A0J5-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Other, specify in notesBisphosphonate | zoledronic | PD |
PHIP | SNV | Missense_Mutation | rs754515374 | c.4120N>G | p.Asn1374Asp | p.N1374D | Q8WWQ0 | protein_coding | deleterious(0.03) | benign(0.003) | TCGA-B6-A1KF-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
PHIP | SNV | Missense_Mutation | | c.3457N>A | p.Asp1153Asn | p.D1153N | Q8WWQ0 | protein_coding | deleterious(0.04) | benign(0.321) | TCGA-BH-A0HP-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Chemotherapy | doxorubicin | SD |
PHIP | SNV | Missense_Mutation | | c.2326N>A | p.Ala776Thr | p.A776T | Q8WWQ0 | protein_coding | tolerated(0.63) | benign(0) | TCGA-BH-A18G-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
PHIP | SNV | Missense_Mutation | | c.3929G>A | p.Arg1310His | p.R1310H | Q8WWQ0 | protein_coding | deleterious(0.01) | probably_damaging(0.987) | TCGA-BH-A5IZ-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | CR |
PHIP | SNV | Missense_Mutation | | c.3754N>A | p.Val1252Met | p.V1252M | Q8WWQ0 | protein_coding | deleterious(0) | probably_damaging(0.994) | TCGA-BH-A6R8-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
PHIP | SNV | Missense_Mutation | | c.2887N>A | p.Glu963Lys | p.E963K | Q8WWQ0 | protein_coding | deleterious(0) | benign(0.07) | TCGA-C8-A12T-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
PHIP | SNV | Missense_Mutation | | c.1292N>A | p.Ala431Asp | p.A431D | Q8WWQ0 | protein_coding | deleterious(0) | possibly_damaging(0.908) | TCGA-E9-A1RF-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Hormone Therapy | tamoxiphen | SD |
PHIP | SNV | Missense_Mutation | | c.4031N>G | p.Pro1344Arg | p.P1344R | Q8WWQ0 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-GM-A2DH-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | taxol | CR |