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Gene: RIC3 |
Gene summary for RIC3 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | RIC3 | Gene ID | 79608 |
| Gene name | RIC3 acetylcholine receptor chaperone | |
| Gene Alias | AYST720 | |
| Cytomap | 11p15.4 | |
| Gene Type | protein-coding | GO ID | GO:0006457 | UniProtAcc | A0A0S2Z6D3 |
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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 |
| 79608 | RIC3 | LZE24T | Human | Esophagus | ESCC | 7.61e-03 | 1.43e-01 | 0.0596 |
| 79608 | RIC3 | P1T-E | Human | Esophagus | ESCC | 5.05e-04 | 2.51e-01 | 0.0875 |
| 79608 | RIC3 | P2T-E | Human | Esophagus | ESCC | 4.62e-07 | 1.54e-01 | 0.1177 |
| 79608 | RIC3 | P10T-E | Human | Esophagus | ESCC | 4.99e-53 | 9.39e-01 | 0.116 |
| 79608 | RIC3 | P16T-E | Human | Esophagus | ESCC | 2.17e-21 | 3.23e-01 | 0.1153 |
| 79608 | RIC3 | P17T-E | Human | Esophagus | ESCC | 4.66e-02 | 3.25e-01 | 0.1278 |
| 79608 | RIC3 | P20T-E | Human | Esophagus | ESCC | 1.04e-16 | 3.18e-01 | 0.1124 |
| 79608 | RIC3 | P23T-E | Human | Esophagus | ESCC | 1.07e-04 | 8.68e-02 | 0.108 |
| 79608 | RIC3 | P27T-E | Human | Esophagus | ESCC | 2.60e-03 | 1.53e-01 | 0.1055 |
| 79608 | RIC3 | P28T-E | Human | Esophagus | ESCC | 1.57e-14 | 2.51e-01 | 0.1149 |
| 79608 | RIC3 | P44T-E | Human | Esophagus | ESCC | 3.44e-02 | 1.28e-01 | 0.1096 |
| 79608 | RIC3 | P47T-E | Human | Esophagus | ESCC | 7.96e-04 | 3.60e-02 | 0.1067 |
| 79608 | RIC3 | P56T-E | Human | Esophagus | ESCC | 5.46e-05 | 6.75e-01 | 0.1613 |
| 79608 | RIC3 | P57T-E | Human | Esophagus | ESCC | 2.95e-34 | 5.68e-01 | 0.0926 |
| 79608 | RIC3 | P61T-E | Human | Esophagus | ESCC | 2.22e-12 | 3.77e-01 | 0.099 |
| 79608 | RIC3 | P74T-E | Human | Esophagus | ESCC | 2.59e-44 | 1.22e+00 | 0.1479 |
| 79608 | RIC3 | P75T-E | Human | Esophagus | ESCC | 3.58e-18 | 2.73e-01 | 0.1125 |
| 79608 | RIC3 | P76T-E | Human | Esophagus | ESCC | 1.11e-02 | 1.29e-01 | 0.1207 |
| 79608 | RIC3 | P80T-E | Human | Esophagus | ESCC | 2.13e-30 | 7.87e-01 | 0.155 |
| 79608 | RIC3 | C38 | Human | Oral cavity | OSCC | 2.44e-11 | 1.19e+00 | 0.172 |
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| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma | ||
| Skin |  | AK: Actinic keratosis |
| cSCC: Cutaneous squamous cell carcinoma | ||
| SCCIS:squamous cell carcinoma in situ | ||
| Thyroid |  | ATC: Anaplastic thyroid cancer |
| HT: Hashimoto's thyroiditis | ||
| PTC: Papillary thyroid cancer |
| ∗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:0006457110 | Esophagus | ESCC | protein folding | 163/8552 | 212/18723 | 1.13e-20 | 1.74e-18 | 163 |
| GO:1903829111 | Esophagus | ESCC | positive regulation of cellular protein localization | 199/8552 | 276/18723 | 2.99e-19 | 3.45e-17 | 199 |
| GO:000645718 | Oral cavity | OSCC | protein folding | 154/7305 | 212/18723 | 1.89e-23 | 4.60e-21 | 154 |
| GO:190382920 | Oral cavity | OSCC | positive regulation of cellular protein localization | 179/7305 | 276/18723 | 2.20e-18 | 2.41e-16 | 179 |
| GO:190382927 | Skin | AK | positive regulation of cellular protein localization | 64/1910 | 276/18723 | 2.23e-10 | 3.00e-08 | 64 |
| GO:000645726 | Skin | AK | protein folding | 44/1910 | 212/18723 | 3.54e-06 | 8.91e-05 | 44 |
| GO:0006457111 | Skin | cSCC | protein folding | 131/4864 | 212/18723 | 2.96e-28 | 1.32e-25 | 131 |
| GO:190382928 | Skin | cSCC | positive regulation of cellular protein localization | 129/4864 | 276/18723 | 6.43e-14 | 4.09e-12 | 129 |
| GO:0006457112 | Thyroid | PTC | protein folding | 137/5968 | 212/18723 | 8.29e-23 | 2.01e-20 | 137 |
| GO:1903829113 | Thyroid | PTC | positive regulation of cellular protein localization | 162/5968 | 276/18723 | 2.40e-20 | 3.52e-18 | 162 |
| GO:000645733 | Thyroid | ATC | protein folding | 140/6293 | 212/18723 | 3.46e-22 | 8.09e-20 | 140 |
| GO:1903829210 | Thyroid | ATC | positive regulation of cellular protein localization | 167/6293 | 276/18723 | 3.32e-20 | 5.38e-18 | 167 |
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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 |
| RIC3 | SNV | Missense_Mutation | novel | c.544N>A | p.Asp182Asn | p.D182N | Q7Z5B4 | protein_coding | deleterious(0.03) | benign(0.147) | TCGA-A7-A4SE-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | CR |
| RIC3 | SNV | Missense_Mutation | c.628N>C | p.Glu210Gln | p.E210Q | Q7Z5B4 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-D8-A27G-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| RIC3 | SNV | Missense_Mutation | c.917N>C | p.Cys306Ser | p.C306S | Q7Z5B4 | protein_coding | tolerated(0.07) | benign(0.109) | TCGA-A6-4105-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD | |
| RIC3 | SNV | Missense_Mutation | rs754549385 | c.959C>T | p.Ala320Val | p.A320V | Q7Z5B4 | protein_coding | tolerated(0.1) | possibly_damaging(0.572) | TCGA-AA-3509-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| RIC3 | SNV | Missense_Mutation | novel | c.1049G>A | p.Ser350Asn | p.S350N | Q7Z5B4 | protein_coding | tolerated_low_confidence(0.21) | benign(0.051) | TCGA-AA-3947-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| RIC3 | SNV | Missense_Mutation | c.28G>A | p.Ala10Thr | p.A10T | Q7Z5B4 | protein_coding | tolerated(0.73) | possibly_damaging(0.895) | TCGA-AA-A00N-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD | |
| RIC3 | SNV | Missense_Mutation | c.791N>T | p.Arg264Ile | p.R264I | Q7Z5B4 | protein_coding | deleterious(0) | possibly_damaging(0.549) | TCGA-AA-A010-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Chemotherapy | folinic | CR | |
| RIC3 | SNV | Missense_Mutation | c.176N>G | p.Asp59Gly | p.D59G | Q7Z5B4 | protein_coding | tolerated(0.1) | benign(0.439) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | CR | |
| RIC3 | SNV | Missense_Mutation | c.97C>T | p.Arg33Trp | p.R33W | Q7Z5B4 | protein_coding | deleterious(0) | benign(0.011) | TCGA-CM-6678-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Chemotherapy | fluorouracil | SD | |
| RIC3 | SNV | Missense_Mutation | c.1087C>T | p.Arg363Cys | p.R363C | Q7Z5B4 | protein_coding | deleterious_low_confidence(0) | probably_damaging(0.999) | TCGA-D5-6931-01 | Colorectum | colon adenocarcinoma | Male | >=65 | III/IV | Unknown | Unknown | SD |
| Page: 1 2 3 4 5 |
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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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