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Gene: VPS13C |
Gene summary for VPS13C |
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Gene information | Species | Human | Gene symbol | VPS13C | Gene ID | 54832 |
Gene name | vacuolar protein sorting 13 homolog C | |
Gene Alias | PARK23 | |
Cytomap | 15q22.2 | |
Gene Type | protein-coding | GO ID | GO:0000422 | UniProtAcc | Q709C8 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
54832 | VPS13C | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.38e-19 | -5.97e-01 | 0.0155 |
54832 | VPS13C | HTA11_2487_2000001011 | Human | Colorectum | SER | 2.34e-05 | -4.92e-01 | -0.1808 |
54832 | VPS13C | HTA11_2951_2000001011 | Human | Colorectum | AD | 5.38e-03 | -6.95e-01 | 0.0216 |
54832 | VPS13C | HTA11_3361_2000001011 | Human | Colorectum | AD | 1.01e-09 | -6.50e-01 | -0.1207 |
54832 | VPS13C | HTA11_83_2000001011 | Human | Colorectum | SER | 3.20e-03 | -4.07e-01 | -0.1526 |
54832 | VPS13C | HTA11_696_2000001011 | Human | Colorectum | AD | 3.05e-10 | -4.73e-01 | -0.1464 |
54832 | VPS13C | HTA11_866_2000001011 | Human | Colorectum | AD | 7.23e-07 | -4.28e-01 | -0.1001 |
54832 | VPS13C | HTA11_5212_2000001011 | Human | Colorectum | AD | 3.82e-04 | -6.80e-01 | -0.2061 |
54832 | VPS13C | HTA11_5216_2000001011 | Human | Colorectum | SER | 7.67e-04 | -7.86e-01 | -0.1462 |
54832 | VPS13C | HTA11_546_2000001011 | Human | Colorectum | AD | 2.91e-02 | -4.50e-01 | -0.0842 |
54832 | VPS13C | HTA11_866_3004761011 | Human | Colorectum | AD | 7.63e-04 | -3.24e-01 | 0.096 |
54832 | VPS13C | HTA11_10711_2000001011 | Human | Colorectum | AD | 1.05e-12 | -6.06e-01 | 0.0338 |
54832 | VPS13C | HTA11_7696_3000711011 | Human | Colorectum | AD | 5.19e-06 | -4.05e-01 | 0.0674 |
54832 | VPS13C | HTA11_99999971662_82457 | Human | Colorectum | MSS | 4.17e-10 | -4.49e-01 | 0.3859 |
54832 | VPS13C | HTA11_99999973899_84307 | Human | Colorectum | MSS | 3.81e-04 | -4.70e-01 | 0.2585 |
54832 | VPS13C | HTA11_99999974143_84620 | Human | Colorectum | MSS | 1.47e-08 | -3.87e-01 | 0.3005 |
54832 | VPS13C | F007 | Human | Colorectum | FAP | 2.87e-03 | 1.69e-01 | 0.1176 |
54832 | VPS13C | A001-C-207 | Human | Colorectum | FAP | 2.50e-03 | 2.14e-01 | 0.1278 |
54832 | VPS13C | A015-C-203 | Human | Colorectum | FAP | 9.24e-30 | -2.13e-01 | -0.1294 |
54832 | VPS13C | A015-C-204 | Human | Colorectum | FAP | 3.22e-04 | -1.53e-01 | -0.0228 |
Page: 1 2 3 4 5 6 7 8 9 10 |
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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). |
Page: 1 2 3 4 5 6 7 8 9 |
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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:0072594 | Colorectum | AD | establishment of protein localization to organelle | 148/3918 | 422/18723 | 7.95e-12 | 1.04e-09 | 148 |
GO:0048193 | Colorectum | AD | Golgi vesicle transport | 109/3918 | 296/18723 | 1.80e-10 | 1.68e-08 | 109 |
GO:0022411 | Colorectum | AD | cellular component disassembly | 147/3918 | 443/18723 | 8.53e-10 | 6.76e-08 | 147 |
GO:0010506 | Colorectum | AD | regulation of autophagy | 111/3918 | 317/18723 | 3.57e-09 | 2.35e-07 | 111 |
GO:0016482 | Colorectum | AD | cytosolic transport | 68/3918 | 168/18723 | 6.00e-09 | 3.72e-07 | 68 |
GO:0016236 | Colorectum | AD | macroautophagy | 103/3918 | 291/18723 | 6.76e-09 | 4.15e-07 | 103 |
GO:0006605 | Colorectum | AD | protein targeting | 105/3918 | 314/18723 | 1.39e-07 | 6.44e-06 | 105 |
GO:0032868 | Colorectum | AD | response to insulin | 91/3918 | 264/18723 | 2.02e-07 | 8.48e-06 | 91 |
GO:0006892 | Colorectum | AD | post-Golgi vesicle-mediated transport | 45/3918 | 104/18723 | 2.22e-07 | 9.26e-06 | 45 |
GO:0010821 | Colorectum | AD | regulation of mitochondrion organization | 57/3918 | 144/18723 | 2.43e-07 | 9.92e-06 | 57 |
GO:0007034 | Colorectum | AD | vacuolar transport | 60/3918 | 157/18723 | 4.97e-07 | 1.85e-05 | 60 |
GO:1903008 | Colorectum | AD | organelle disassembly | 46/3918 | 114/18723 | 1.81e-06 | 5.48e-05 | 46 |
GO:0043434 | Colorectum | AD | response to peptide hormone | 126/3918 | 414/18723 | 2.70e-06 | 7.86e-05 | 126 |
GO:1903146 | Colorectum | AD | regulation of autophagy of mitochondrion | 19/3918 | 33/18723 | 4.52e-06 | 1.21e-04 | 19 |
GO:0000422 | Colorectum | AD | autophagy of mitochondrion | 35/3918 | 81/18723 | 4.94e-06 | 1.29e-04 | 35 |
GO:0061726 | Colorectum | AD | mitochondrion disassembly | 35/3918 | 81/18723 | 4.94e-06 | 1.29e-04 | 35 |
GO:0061912 | Colorectum | AD | selective autophagy | 29/3918 | 68/18723 | 4.20e-05 | 7.39e-04 | 29 |
GO:0016241 | Colorectum | AD | regulation of macroautophagy | 50/3918 | 141/18723 | 4.55e-05 | 7.92e-04 | 50 |
GO:0072665 | Colorectum | AD | protein localization to vacuole | 27/3918 | 67/18723 | 2.40e-04 | 3.04e-03 | 27 |
GO:0000423 | Colorectum | AD | mitophagy | 14/3918 | 28/18723 | 6.01e-04 | 6.33e-03 | 14 |
Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 |
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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 |
VPS13C | SNV | Missense_Mutation | rs560778934 | c.6881N>A | p.Arg2294Gln | p.R2294Q | Q709C8 | protein_coding | tolerated(0.05) | benign(0.055) | TCGA-BR-8680-01 | Stomach | stomach adenocarcinoma | Male | <65 | III/IV | Chemotherapy | oxaliplatin | CR |
VPS13C | SNV | Missense_Mutation | rs202047135 | c.229N>A | p.Glu77Lys | p.E77K | Q709C8 | protein_coding | deleterious(0.01) | possibly_damaging(0.755) | TCGA-BR-8680-01 | Stomach | stomach adenocarcinoma | Male | <65 | III/IV | Chemotherapy | oxaliplatin | CR |
VPS13C | SNV | Missense_Mutation | rs146858303 | c.6554N>T | p.Thr2185Met | p.T2185M | Q709C8 | protein_coding | tolerated(0.15) | benign(0.003) | TCGA-CG-4460-01 | Stomach | stomach adenocarcinoma | Female | >=65 | III/IV | Chemotherapy | capecitabine | PD |
VPS13C | SNV | Missense_Mutation | novel | c.2623N>C | p.Asp875His | p.D875H | Q709C8 | protein_coding | deleterious(0) | possibly_damaging(0.498) | TCGA-D7-A6EZ-01 | Stomach | stomach adenocarcinoma | Male | >=65 | III/IV | Unknown | Unknown | PD |
VPS13C | SNV | Missense_Mutation | c.2123N>C | p.His708Pro | p.H708P | Q709C8 | protein_coding | tolerated(0.21) | benign(0.105) | TCGA-EQ-8122-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Chemotherapy | 5-fluorouracil | SD | |
VPS13C | SNV | Missense_Mutation | c.10462N>T | p.Gly3488Cys | p.G3488C | Q709C8 | protein_coding | deleterious(0.01) | probably_damaging(1) | TCGA-F1-A448-01 | Stomach | stomach adenocarcinoma | Male | >=65 | III/IV | Chemotherapy | capecitabine | CR | |
VPS13C | SNV | Missense_Mutation | c.1990N>G | p.Leu664Val | p.L664V | Q709C8 | protein_coding | deleterious(0) | probably_damaging(0.956) | TCGA-HU-8602-01 | Stomach | stomach adenocarcinoma | Female | <65 | I/II | Chemotherapy | xeloda | CR | |
VPS13C | SNV | Missense_Mutation | rs775795504 | c.9196G>A | p.Asp3066Asn | p.D3066N | Q709C8 | protein_coding | deleterious(0) | benign(0.349) | TCGA-HU-A4H8-01 | Stomach | stomach adenocarcinoma | Male | >=65 | I/II | Chemotherapy | didox | PD |
VPS13C | SNV | Missense_Mutation | novel | c.6385N>G | p.Thr2129Ala | p.T2129A | Q709C8 | protein_coding | tolerated(0.05) | benign(0.041) | TCGA-MX-A663-01 | Stomach | stomach adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
VPS13C | SNV | Missense_Mutation | novel | c.8804N>T | p.Asn2935Ile | p.N2935I | Q709C8 | protein_coding | deleterious(0) | benign(0.217) | TCGA-R5-A7ZI-01 | Stomach | stomach adenocarcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 |
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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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