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Gene: PHRF1 |
Gene summary for PHRF1 |
Gene summary. |
Gene information | Species | Human | Gene symbol | PHRF1 | Gene ID | 57661 |
Gene name | PHD and ring finger domains 1 | |
Gene Alias | PPP1R125 | |
Cytomap | 11p15.5 | |
Gene Type | protein-coding | GO ID | GO:0006139 | UniProtAcc | A0A024RCA1 |
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Malignant transformation analysis |
Identification of the aberrant gene expression in precancerous and cancerous lesions by comparing the gene expression of stem-like cells in diseased tissues with normal stem cells |
Malignant transformation involving gene list. |
Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
57661 | PHRF1 | LZE7T | Human | Esophagus | ESCC | 1.36e-02 | 1.72e-01 | 0.0667 |
57661 | PHRF1 | LZE24T | Human | Esophagus | ESCC | 5.48e-06 | 1.80e-01 | 0.0596 |
57661 | PHRF1 | P1T-E | Human | Esophagus | ESCC | 1.95e-09 | 3.06e-01 | 0.0875 |
57661 | PHRF1 | P2T-E | Human | Esophagus | ESCC | 1.19e-15 | 2.03e-01 | 0.1177 |
57661 | PHRF1 | P4T-E | Human | Esophagus | ESCC | 8.81e-07 | 8.40e-02 | 0.1323 |
57661 | PHRF1 | P5T-E | Human | Esophagus | ESCC | 7.93e-05 | 8.74e-02 | 0.1327 |
57661 | PHRF1 | P8T-E | Human | Esophagus | ESCC | 3.86e-05 | 9.63e-02 | 0.0889 |
57661 | PHRF1 | P9T-E | Human | Esophagus | ESCC | 6.30e-16 | 2.85e-01 | 0.1131 |
57661 | PHRF1 | P10T-E | Human | Esophagus | ESCC | 1.71e-11 | 1.97e-01 | 0.116 |
57661 | PHRF1 | P11T-E | Human | Esophagus | ESCC | 9.96e-12 | 3.17e-01 | 0.1426 |
57661 | PHRF1 | P12T-E | Human | Esophagus | ESCC | 1.53e-07 | 1.50e-01 | 0.1122 |
57661 | PHRF1 | P15T-E | Human | Esophagus | ESCC | 1.83e-06 | 1.16e-01 | 0.1149 |
57661 | PHRF1 | P16T-E | Human | Esophagus | ESCC | 4.98e-07 | 8.32e-02 | 0.1153 |
57661 | PHRF1 | P17T-E | Human | Esophagus | ESCC | 2.57e-04 | 2.70e-01 | 0.1278 |
57661 | PHRF1 | P20T-E | Human | Esophagus | ESCC | 7.24e-12 | 2.32e-01 | 0.1124 |
57661 | PHRF1 | P21T-E | Human | Esophagus | ESCC | 3.52e-08 | 1.60e-01 | 0.1617 |
57661 | PHRF1 | P22T-E | Human | Esophagus | ESCC | 9.37e-09 | 1.15e-01 | 0.1236 |
57661 | PHRF1 | P23T-E | Human | Esophagus | ESCC | 4.67e-07 | 1.76e-01 | 0.108 |
57661 | PHRF1 | P24T-E | Human | Esophagus | ESCC | 5.30e-05 | 5.37e-02 | 0.1287 |
57661 | PHRF1 | P26T-E | Human | Esophagus | ESCC | 3.42e-09 | 1.73e-01 | 0.1276 |
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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. |
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Malignant transformation related pathway analysis |
Find out the enriched GO biological processes and KEGG pathways involved in transition from healthy to precancer to cancer |
Figure of enriched GO biological processes. |
Tissue | Disease Stage | Enriched GO biological Processes |
Colorectum | AD | |
Colorectum | SER | |
Colorectum | MSS | |
Colorectum | MSI-H | |
Colorectum | FAP |
∗Top 15 enriched GO BP terms are showed in the bar plot of each disease state in each tissue. Each row represents a significant GO biological process which is colored according to the -log10(p.adjust). |
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Enriched GO biological processes. |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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Cell-cell communication analysis |
Identification of potential cell-cell interactions between two cell types and their ligand-receptor pairs for different disease states |
Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
Find out the significant the regulons (TFs) and the target genes of each regulon across cell types for different disease states |
TF | Cell Type | Tissue | Disease Stage | Target Gene | RSS | Regulon Activity |
∗The dot plots of a searched regulon are shown for all cell subpopulations in each disease state of each tissue based on the regulon specific score inferred using pySCENIC and by calculating the average expression. |
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Somatic mutation of malignant transformation related genes |
Annotation of somatic variants for genes involved in malignant transformation |
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 |
PHRF1 | SNV | Missense_Mutation | c.4231G>C | p.Glu1411Gln | p.E1411Q | Q9P1Y6 | protein_coding | tolerated(0.08) | possibly_damaging(0.69) | TCGA-AC-A23H-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD | |
PHRF1 | SNV | Missense_Mutation | c.2482G>A | p.Glu828Lys | p.E828K | Q9P1Y6 | protein_coding | deleterious(0) | probably_damaging(0.912) | TCGA-AC-A5XS-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | femara | SD | |
PHRF1 | SNV | Missense_Mutation | rs114010389 | c.473N>A | p.Arg158Gln | p.R158Q | Q9P1Y6 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
PHRF1 | SNV | Missense_Mutation | rs748153685 | c.2669N>T | p.Thr890Ile | p.T890I | Q9P1Y6 | protein_coding | deleterious(0.04) | benign(0.01) | TCGA-AN-A0FX-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
PHRF1 | SNV | Missense_Mutation | c.4317N>C | p.Glu1439Asp | p.E1439D | Q9P1Y6 | protein_coding | tolerated(0.11) | benign(0.068) | TCGA-AR-A24M-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Hormone Therapy | tamoxiphen | SD | |
PHRF1 | SNV | Missense_Mutation | novel | c.442N>A | p.Asp148Asn | p.D148N | Q9P1Y6 | protein_coding | deleterious(0.02) | probably_damaging(1) | TCGA-BH-A0B6-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
PHRF1 | SNV | Missense_Mutation | c.3863N>G | p.Ser1288Trp | p.S1288W | Q9P1Y6 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-EW-A1P3-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | fluorouracil | SD | |
PHRF1 | insertion | Frame_Shift_Ins | novel | c.1942_1943insTGCTGGGCAGC | p.Lys648MetfsTer24 | p.K648Mfs*24 | Q9P1Y6 | protein_coding | TCGA-A8-A0A6-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | epirubicin | CR | ||
PHRF1 | deletion | Frame_Shift_Del | novel | c.4920delN | p.Glu1641SerfsTer78 | p.E1641Sfs*78 | Q9P1Y6 | protein_coding | TCGA-D8-A27V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD | ||
PHRF1 | SNV | Missense_Mutation | c.4717N>A | p.Glu1573Lys | p.E1573K | Q9P1Y6 | protein_coding | deleterious(0) | probably_damaging(0.996) | TCGA-C5-A1BL-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
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Related drugs of malignant transformation related genes |
Identification of chemicals and drugs interact with genes involved in malignant transfromation |
(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
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