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Gene: RAB3D |
Gene summary for RAB3D |
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Gene information | Species | Human | Gene symbol | RAB3D | Gene ID | 9545 |
Gene name | RAB3D, member RAS oncogene family | |
Gene Alias | D2-2 | |
Cytomap | 19p13.2 | |
Gene Type | protein-coding | GO ID | GO:0001894 | UniProtAcc | A0A024R7G2 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
9545 | RAB3D | LZE8T | Human | Esophagus | ESCC | 1.30e-02 | 8.73e-02 | 0.067 |
9545 | RAB3D | LZE24T | Human | Esophagus | ESCC | 2.24e-06 | 2.23e-01 | 0.0596 |
9545 | RAB3D | P2T-E | Human | Esophagus | ESCC | 5.96e-09 | 1.32e-01 | 0.1177 |
9545 | RAB3D | P4T-E | Human | Esophagus | ESCC | 1.66e-19 | 2.47e-01 | 0.1323 |
9545 | RAB3D | P5T-E | Human | Esophagus | ESCC | 1.27e-07 | 7.12e-02 | 0.1327 |
9545 | RAB3D | P8T-E | Human | Esophagus | ESCC | 2.36e-10 | 3.17e-01 | 0.0889 |
9545 | RAB3D | P9T-E | Human | Esophagus | ESCC | 1.42e-05 | 8.72e-02 | 0.1131 |
9545 | RAB3D | P10T-E | Human | Esophagus | ESCC | 4.51e-11 | 1.02e-01 | 0.116 |
9545 | RAB3D | P12T-E | Human | Esophagus | ESCC | 8.66e-20 | 3.04e-01 | 0.1122 |
9545 | RAB3D | P15T-E | Human | Esophagus | ESCC | 2.70e-08 | 2.73e-01 | 0.1149 |
9545 | RAB3D | P16T-E | Human | Esophagus | ESCC | 3.51e-22 | 3.43e-01 | 0.1153 |
9545 | RAB3D | P19T-E | Human | Esophagus | ESCC | 9.49e-06 | 3.94e-01 | 0.1662 |
9545 | RAB3D | P20T-E | Human | Esophagus | ESCC | 4.03e-10 | 2.73e-01 | 0.1124 |
9545 | RAB3D | P21T-E | Human | Esophagus | ESCC | 1.87e-17 | 3.61e-01 | 0.1617 |
9545 | RAB3D | P22T-E | Human | Esophagus | ESCC | 9.11e-18 | 2.52e-01 | 0.1236 |
9545 | RAB3D | P23T-E | Human | Esophagus | ESCC | 5.18e-17 | 3.87e-01 | 0.108 |
9545 | RAB3D | P24T-E | Human | Esophagus | ESCC | 5.09e-06 | 1.98e-01 | 0.1287 |
9545 | RAB3D | P26T-E | Human | Esophagus | ESCC | 1.79e-07 | 1.36e-01 | 0.1276 |
9545 | RAB3D | P27T-E | Human | Esophagus | ESCC | 6.17e-14 | 3.03e-01 | 0.1055 |
9545 | RAB3D | P28T-E | Human | Esophagus | ESCC | 6.89e-26 | 5.39e-01 | 0.1149 |
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∗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 |
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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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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:0072659110 | Esophagus | ESCC | protein localization to plasma membrane | 193/8552 | 284/18723 | 1.95e-14 | 1.03e-12 | 193 |
GO:199077819 | Esophagus | ESCC | protein localization to cell periphery | 217/8552 | 333/18723 | 4.08e-13 | 1.88e-11 | 217 |
GO:00434143 | Esophagus | ESCC | macromolecule methylation | 199/8552 | 316/18723 | 3.44e-10 | 9.57e-09 | 199 |
GO:00322592 | Esophagus | ESCC | methylation | 222/8552 | 364/18723 | 2.26e-09 | 5.09e-08 | 222 |
GO:00224069 | Esophagus | ESCC | membrane docking | 62/8552 | 86/18723 | 5.93e-07 | 7.79e-06 | 62 |
GO:000647914 | Esophagus | ESCC | protein methylation | 115/8552 | 181/18723 | 9.07e-07 | 1.16e-05 | 115 |
GO:000821314 | Esophagus | ESCC | protein alkylation | 115/8552 | 181/18723 | 9.07e-07 | 1.16e-05 | 115 |
GO:01400567 | Esophagus | ESCC | organelle localization by membrane tethering | 53/8552 | 77/18723 | 3.33e-05 | 2.74e-04 | 53 |
GO:00482781 | Esophagus | ESCC | vesicle docking | 38/8552 | 59/18723 | 2.86e-03 | 1.21e-02 | 38 |
GO:000930617 | Esophagus | ESCC | protein secretion | 190/8552 | 359/18723 | 3.22e-03 | 1.34e-02 | 190 |
GO:003559217 | Esophagus | ESCC | establishment of protein localization to extracellular region | 190/8552 | 360/18723 | 3.77e-03 | 1.53e-02 | 190 |
GO:007169210 | Esophagus | ESCC | protein localization to extracellular region | 193/8552 | 368/18723 | 5.01e-03 | 1.92e-02 | 193 |
GO:007265918 | Oral cavity | OSCC | protein localization to plasma membrane | 169/7305 | 284/18723 | 1.69e-12 | 7.21e-11 | 169 |
GO:199077816 | Oral cavity | OSCC | protein localization to cell periphery | 190/7305 | 333/18723 | 1.46e-11 | 5.13e-10 | 190 |
GO:00224068 | Oral cavity | OSCC | membrane docking | 52/7305 | 86/18723 | 4.50e-05 | 3.84e-04 | 52 |
GO:00064797 | Oral cavity | OSCC | protein methylation | 92/7305 | 181/18723 | 7.86e-04 | 4.26e-03 | 92 |
GO:00082137 | Oral cavity | OSCC | protein alkylation | 92/7305 | 181/18723 | 7.86e-04 | 4.26e-03 | 92 |
GO:000930610 | Oral cavity | OSCC | protein secretion | 169/7305 | 359/18723 | 1.04e-03 | 5.34e-03 | 169 |
GO:003559210 | Oral cavity | OSCC | establishment of protein localization to extracellular region | 169/7305 | 360/18723 | 1.21e-03 | 6.08e-03 | 169 |
GO:00716929 | Oral cavity | OSCC | protein localization to extracellular region | 172/7305 | 368/18723 | 1.40e-03 | 6.79e-03 | 172 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
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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 |
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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 |
RAB3D | SNV | Missense_Mutation | rs750538732 | c.532N>T | p.Arg178Cys | p.R178C | O95716 | protein_coding | deleterious(0.04) | benign(0.068) | TCGA-D5-6928-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
RAB3D | SNV | Missense_Mutation | c.203N>G | p.Asp68Gly | p.D68G | O95716 | protein_coding | tolerated(1) | possibly_damaging(0.699) | TCGA-A5-A0GP-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
RAB3D | SNV | Missense_Mutation | rs112584280 | c.128C>T | p.Ala43Val | p.A43V | O95716 | protein_coding | tolerated(0.08) | possibly_damaging(0.897) | TCGA-AJ-A3EK-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Chemotherapy | carboplatin | CR |
RAB3D | SNV | Missense_Mutation | rs144965675 | c.58G>A | p.Asp20Asn | p.D20N | O95716 | protein_coding | deleterious(0.01) | probably_damaging(0.952) | TCGA-D1-A15X-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
RAB3D | SNV | Missense_Mutation | c.335N>T | p.Ala112Val | p.A112V | O95716 | protein_coding | deleterious(0.01) | probably_damaging(0.974) | TCGA-D1-A17D-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Chemotherapy | carboplatin | SD | |
RAB3D | SNV | Missense_Mutation | novel | c.146C>T | p.Pro49Leu | p.P49L | O95716 | protein_coding | deleterious(0.01) | possibly_damaging(0.681) | TCGA-CC-A5UD-01 | Liver | liver hepatocellular carcinoma | Male | <65 | III/IV | Unknown | Unknown | PD |
RAB3D | SNV | Missense_Mutation | novel | c.277N>G | p.Arg93Gly | p.R93G | O95716 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-CC-A8HV-01 | Liver | liver hepatocellular carcinoma | Female | <65 | I/II | Targeted Molecular therapy | sorafenib | PD |
RAB3D | SNV | Missense_Mutation | c.430N>T | p.Val144Phe | p.V144F | O95716 | protein_coding | deleterious(0.04) | possibly_damaging(0.582) | TCGA-46-6025-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Chemotherapy | cisplatin | SD | |
RAB3D | SNV | Missense_Mutation | novel | c.413N>C | p.Asp138Ala | p.D138A | O95716 | protein_coding | deleterious(0) | probably_damaging(0.956) | TCGA-CG-5723-01 | Stomach | stomach adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
RAB3D | SNV | Missense_Mutation | rs112584280 | c.128C>T | p.Ala43Val | p.A43V | O95716 | protein_coding | tolerated(0.08) | possibly_damaging(0.897) | TCGA-VQ-A8PM-01 | Stomach | stomach adenocarcinoma | Male | <65 | III/IV | Unknown | Unknown | PD |
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Related drugs of malignant transformation related genes |
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(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
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