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Gene: PRDM8 |
Gene summary for PRDM8 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | PRDM8 | Gene ID | 56978 |
| Gene name | PR/SET domain 8 | |
| Gene Alias | EPM10 | |
| Cytomap | 4q21.21 | |
| Gene Type | protein-coding | GO ID | GO:0006139 | UniProtAcc | A0A024RDC4 |
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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 |
| 56978 | PRDM8 | GSM5353223_PA_PB2B_Pool_2_S26_L001 | Human | Prostate | Tumor | 4.96e-02 | 3.17e-01 | 0.1604 |
| 56978 | PRDM8 | GSM5353236_PA_PR5251_T1_S7_L001 | Human | Prostate | Tumor | 6.63e-04 | 5.33e-01 | 0.1608 |
| 56978 | PRDM8 | GSM5353237_PA_PR5251_T2_S8_L001 | Human | Prostate | Tumor | 2.80e-04 | 6.35e-01 | 0.1622 |
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| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Prostate |  | BPH: Benign Prostatic Hyperplasia |
| ∗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 |
| GO:004206312 | Prostate | Tumor | gliogenesis | 73/3246 | 301/18723 | 1.35e-03 | 8.46e-03 | 73 |
| GO:00100014 | Prostate | Tumor | glial cell differentiation | 55/3246 | 225/18723 | 4.13e-03 | 2.08e-02 | 55 |
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| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| Page: 1 |
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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 |
| Page: 1 |
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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. |
| Page: 1 |
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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 |
| PRDM8 | SNV | Missense_Mutation | novel | c.589N>A | p.Val197Met | p.V197M | Q9NQV8 | protein_coding | tolerated_low_confidence(0.13) | benign(0.036) | TCGA-A8-A081-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| PRDM8 | SNV | Missense_Mutation | c.556N>A | p.Asp186Asn | p.D186N | Q9NQV8 | protein_coding | tolerated_low_confidence(0.17) | benign(0.247) | TCGA-AC-A23H-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD | |
| PRDM8 | SNV | Missense_Mutation | c.2032N>G | p.Arg678Gly | p.R678G | Q9NQV8 | protein_coding | deleterious(0) | probably_damaging(0.98) | TCGA-BH-A0EB-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | arimidex | SD | |
| PRDM8 | SNV | Missense_Mutation | c.397N>C | p.Glu133Gln | p.E133Q | Q9NQV8 | protein_coding | deleterious(0) | possibly_damaging(0.522) | TCGA-JW-A5VJ-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | PD | |
| PRDM8 | SNV | Missense_Mutation | c.367N>T | p.Asp123Tyr | p.D123Y | Q9NQV8 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-AA-3977-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
| PRDM8 | SNV | Missense_Mutation | rs773276254 | c.475N>A | p.Glu159Lys | p.E159K | Q9NQV8 | protein_coding | tolerated(0.11) | benign(0.003) | TCGA-AA-A00N-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
| PRDM8 | SNV | Missense_Mutation | novel | c.2055N>T | p.Met685Ile | p.M685I | Q9NQV8 | protein_coding | deleterious(0) | probably_damaging(0.936) | TCGA-AA-A00N-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
| PRDM8 | SNV | Missense_Mutation | novel | c.125N>C | p.Gly42Ala | p.G42A | Q9NQV8 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-AA-A01K-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Chemotherapy | folinic | CR |
| PRDM8 | SNV | Missense_Mutation | novel | c.431N>T | p.Arg144Ile | p.R144I | Q9NQV8 | protein_coding | deleterious(0) | possibly_damaging(0.71) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | CR |
| PRDM8 | deletion | Frame_Shift_Del | c.321delN | p.Asn109ThrfsTer19 | p.N109Tfs*19 | Q9NQV8 | protein_coding | TCGA-AZ-6598-01 | Colorectum | colon adenocarcinoma | 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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