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Gene: SH3RF3 |
Gene summary for SH3RF3 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | SH3RF3 | Gene ID | 344558 |
| Gene name | SH3 domain containing ring finger 3 | |
| Gene Alias | POSH2 | |
| Cytomap | 2q13 | |
| Gene Type | protein-coding | GO ID | GO:0000165 | UniProtAcc | Q8TEJ3 |
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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 |
| 344558 | SH3RF3 | C43 | Human | Oral cavity | OSCC | 7.87e-03 | -1.68e-01 | 0.1704 |
| 344558 | SH3RF3 | C46 | Human | Oral cavity | OSCC | 9.50e-03 | -1.68e-01 | 0.1673 |
| 344558 | SH3RF3 | C08 | Human | Oral cavity | OSCC | 7.87e-03 | -1.63e-01 | 0.1919 |
| 344558 | SH3RF3 | EOLP-1 | Human | Oral cavity | EOLP | 2.90e-20 | 5.89e-01 | -0.0202 |
| 344558 | SH3RF3 | EOLP-2 | Human | Oral cavity | EOLP | 1.09e-02 | 2.90e-01 | -0.0203 |
| 344558 | SH3RF3 | NEOLP-1 | Human | Oral cavity | NEOLP | 1.21e-12 | 5.91e-01 | -0.0194 |
| 344558 | SH3RF3 | NEOLP-2 | Human | Oral cavity | NEOLP | 4.12e-12 | 4.27e-01 | -0.0196 |
| 344558 | SH3RF3 | NEOLP-3 | Human | Oral cavity | NEOLP | 5.82e-13 | 4.81e-01 | -0.0191 |
| 344558 | SH3RF3 | SYSMH1 | Human | Oral cavity | OSCC | 3.94e-04 | -1.61e-01 | 0.1127 |
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| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma |
| ∗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). |
| Page: 1 2 3 4 5 6 7 8 9 |
| Enriched GO biological processes. |
| GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
| GO:003109816 | Oral cavity | OSCC | stress-activated protein kinase signaling cascade | 141/7305 | 247/18723 | 5.74e-09 | 1.25e-07 | 141 |
| GO:005140316 | Oral cavity | OSCC | stress-activated MAPK cascade | 134/7305 | 239/18723 | 6.02e-08 | 1.09e-06 | 134 |
| GO:007030210 | Oral cavity | OSCC | regulation of stress-activated protein kinase signaling cascade | 111/7305 | 195/18723 | 2.82e-07 | 4.34e-06 | 111 |
| GO:003287210 | Oral cavity | OSCC | regulation of stress-activated MAPK cascade | 108/7305 | 192/18723 | 8.97e-07 | 1.22e-05 | 108 |
| GO:00072548 | Oral cavity | OSCC | JNK cascade | 90/7305 | 167/18723 | 6.49e-05 | 5.26e-04 | 90 |
| GO:00463288 | Oral cavity | OSCC | regulation of JNK cascade | 74/7305 | 133/18723 | 7.22e-05 | 5.69e-04 | 74 |
| GO:00703045 | Oral cavity | OSCC | positive regulation of stress-activated protein kinase signaling cascade | 66/7305 | 128/18723 | 2.58e-03 | 1.13e-02 | 66 |
| GO:00518657 | Oral cavity | OSCC | protein autoubiquitination | 40/7305 | 73/18723 | 4.45e-03 | 1.79e-02 | 40 |
| GO:00328744 | Oral cavity | OSCC | positive regulation of stress-activated MAPK cascade | 64/7305 | 126/18723 | 4.67e-03 | 1.87e-02 | 64 |
| GO:00434107 | Oral cavity | OSCC | positive regulation of MAPK cascade | 213/7305 | 480/18723 | 8.71e-03 | 3.16e-02 | 213 |
| GO:00463301 | Oral cavity | OSCC | positive regulation of JNK cascade | 46/7305 | 89/18723 | 1.01e-02 | 3.50e-02 | 46 |
| GO:003109824 | Oral cavity | EOLP | stress-activated protein kinase signaling cascade | 49/2218 | 247/18723 | 1.89e-04 | 1.94e-03 | 49 |
| GO:005140324 | Oral cavity | EOLP | stress-activated MAPK cascade | 47/2218 | 239/18723 | 3.11e-04 | 2.91e-03 | 47 |
| GO:007030224 | Oral cavity | EOLP | regulation of stress-activated protein kinase signaling cascade | 39/2218 | 195/18723 | 6.89e-04 | 5.70e-03 | 39 |
| GO:003287224 | Oral cavity | EOLP | regulation of stress-activated MAPK cascade | 37/2218 | 192/18723 | 1.87e-03 | 1.21e-02 | 37 |
| GO:004632814 | Oral cavity | EOLP | regulation of JNK cascade | 27/2218 | 133/18723 | 3.44e-03 | 1.98e-02 | 27 |
| GO:005186521 | Oral cavity | EOLP | protein autoubiquitination | 17/2218 | 73/18723 | 4.43e-03 | 2.41e-02 | 17 |
| GO:000725416 | Oral cavity | EOLP | JNK cascade | 31/2218 | 167/18723 | 7.30e-03 | 3.54e-02 | 31 |
| GO:005140332 | Oral cavity | NEOLP | stress-activated MAPK cascade | 45/2005 | 239/18723 | 1.18e-04 | 1.41e-03 | 45 |
| GO:003109832 | Oral cavity | NEOLP | stress-activated protein kinase signaling cascade | 46/2005 | 247/18723 | 1.30e-04 | 1.52e-03 | 46 |
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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 |
| SH3RF3 | SNV | Missense_Mutation | c.2486N>A | p.Arg829His | p.R829H | Q8TEJ3 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-D8-A1JF-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD | |
| SH3RF3 | deletion | Frame_Shift_Del | novel | c.988delT | p.Cys330AlafsTer28 | p.C330Afs*28 | Q8TEJ3 | protein_coding | TCGA-D8-A27V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD | ||
| SH3RF3 | SNV | Missense_Mutation | c.2486G>A | p.Arg829His | p.R829H | Q8TEJ3 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AA-3710-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| SH3RF3 | SNV | Missense_Mutation | c.763N>T | p.Pro255Ser | p.P255S | Q8TEJ3 | protein_coding | tolerated(0.15) | benign(0.14) | TCGA-AA-A010-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Chemotherapy | folinic | CR | |
| SH3RF3 | SNV | Missense_Mutation | rs771919611 | c.670N>T | p.Arg224Trp | p.R224W | Q8TEJ3 | protein_coding | deleterious(0) | probably_damaging(0.969) | TCGA-AA-A01R-01 | Colorectum | colon adenocarcinoma | Male | <65 | III/IV | Chemotherapy | 5-fluorouracil | PD |
| SH3RF3 | SNV | Missense_Mutation | c.674G>A | p.Arg225His | p.R225H | Q8TEJ3 | protein_coding | deleterious(0.05) | possibly_damaging(0.693) | TCGA-AD-5900-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
| SH3RF3 | SNV | Missense_Mutation | c.193G>A | p.Asp65Asn | p.D65N | Q8TEJ3 | protein_coding | deleterious(0) | probably_damaging(0.99) | TCGA-AD-6964-01 | Colorectum | colon adenocarcinoma | Male | <65 | III/IV | Chemotherapy | folfox | PD | |
| SH3RF3 | SNV | Missense_Mutation | rs779988605 | c.1483G>A | p.Glu495Lys | p.E495K | Q8TEJ3 | protein_coding | deleterious(0) | probably_damaging(0.995) | TCGA-AM-5821-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| SH3RF3 | SNV | Missense_Mutation | novel | c.2065N>C | p.Ala689Pro | p.A689P | Q8TEJ3 | protein_coding | tolerated(0.52) | benign(0.005) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | CR |
| SH3RF3 | SNV | Missense_Mutation | rs753317886 | c.1135C>T | p.Arg379Cys | p.R379C | Q8TEJ3 | protein_coding | deleterious(0.02) | probably_damaging(0.962) | TCGA-DM-A1D9-01 | 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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