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Gene: VTI1A |
Gene summary for VTI1A |
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Gene information | Species | Human | Gene symbol | VTI1A | Gene ID | 143187 |
Gene name | vesicle transport through interaction with t-SNAREs 1A | |
Gene Alias | MMDS3 | |
Cytomap | 10q25.2 | |
Gene Type | protein-coding | GO ID | GO:0003008 | UniProtAcc | Q96AJ9 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
143187 | VTI1A | P65T-E | Human | Esophagus | ESCC | 2.04e-09 | 1.39e-01 | 0.0978 |
143187 | VTI1A | P74T-E | Human | Esophagus | ESCC | 5.53e-09 | 1.68e-01 | 0.1479 |
143187 | VTI1A | P75T-E | Human | Esophagus | ESCC | 3.15e-17 | 2.86e-01 | 0.1125 |
143187 | VTI1A | P76T-E | Human | Esophagus | ESCC | 4.85e-19 | 2.46e-01 | 0.1207 |
143187 | VTI1A | P79T-E | Human | Esophagus | ESCC | 6.97e-16 | 2.65e-01 | 0.1154 |
143187 | VTI1A | P80T-E | Human | Esophagus | ESCC | 1.33e-22 | 5.54e-01 | 0.155 |
143187 | VTI1A | P82T-E | Human | Esophagus | ESCC | 3.63e-03 | 2.86e-01 | 0.1072 |
143187 | VTI1A | P83T-E | Human | Esophagus | ESCC | 9.48e-23 | 5.13e-01 | 0.1738 |
143187 | VTI1A | P89T-E | Human | Esophagus | ESCC | 9.80e-12 | 7.59e-01 | 0.1752 |
143187 | VTI1A | P91T-E | Human | Esophagus | ESCC | 2.14e-06 | 6.21e-01 | 0.1828 |
143187 | VTI1A | P94T-E | Human | Esophagus | ESCC | 8.36e-03 | 3.17e-01 | 0.0879 |
143187 | VTI1A | P107T-E | Human | Esophagus | ESCC | 1.31e-58 | 9.59e-01 | 0.171 |
143187 | VTI1A | P126T-E | Human | Esophagus | ESCC | 1.21e-05 | 5.28e-01 | 0.1125 |
143187 | VTI1A | P127T-E | Human | Esophagus | ESCC | 2.06e-12 | 1.97e-01 | 0.0826 |
143187 | VTI1A | P128T-E | Human | Esophagus | ESCC | 6.65e-04 | 2.70e-01 | 0.1241 |
143187 | VTI1A | P130T-E | Human | Esophagus | ESCC | 1.12e-27 | 4.55e-01 | 0.1676 |
143187 | VTI1A | NAFLD1 | Human | Liver | NAFLD | 1.11e-07 | 9.24e-01 | -0.04 |
143187 | VTI1A | HCC1_Meng | Human | Liver | HCC | 3.33e-16 | -1.63e-01 | 0.0246 |
143187 | VTI1A | HCC2_Meng | Human | Liver | HCC | 8.12e-11 | -8.48e-02 | 0.0107 |
143187 | VTI1A | HCC1 | Human | Liver | HCC | 4.31e-09 | 4.22e+00 | 0.5336 |
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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:00068927 | Cervix | CC | post-Golgi vesicle-mediated transport | 28/2311 | 104/18723 | 4.31e-05 | 6.61e-04 | 28 |
GO:00162367 | Cervix | CC | macroautophagy | 58/2311 | 291/18723 | 1.40e-04 | 1.70e-03 | 58 |
GO:00161977 | Cervix | CC | endosomal transport | 48/2311 | 230/18723 | 1.65e-04 | 1.97e-03 | 48 |
GO:00481938 | Cervix | CC | Golgi vesicle transport | 58/2311 | 296/18723 | 2.24e-04 | 2.54e-03 | 58 |
GO:00070347 | Cervix | CC | vacuolar transport | 34/2311 | 157/18723 | 7.03e-04 | 6.40e-03 | 34 |
GO:00160506 | Cervix | CC | vesicle organization | 54/2311 | 300/18723 | 2.71e-03 | 1.85e-02 | 54 |
GO:00070304 | Cervix | CC | Golgi organization | 32/2311 | 157/18723 | 2.78e-03 | 1.87e-02 | 32 |
GO:00164827 | Cervix | CC | cytosolic transport | 33/2311 | 168/18723 | 4.43e-03 | 2.70e-02 | 33 |
GO:0048193 | Colorectum | AD | Golgi vesicle transport | 109/3918 | 296/18723 | 1.80e-10 | 1.68e-08 | 109 |
GO:0016197 | Colorectum | AD | endosomal transport | 90/3918 | 230/18723 | 1.88e-10 | 1.73e-08 | 90 |
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:0016050 | Colorectum | AD | vesicle organization | 101/3918 | 300/18723 | 1.65e-07 | 7.17e-06 | 101 |
GO:0006892 | Colorectum | AD | post-Golgi vesicle-mediated transport | 45/3918 | 104/18723 | 2.22e-07 | 9.26e-06 | 45 |
GO:0007034 | Colorectum | AD | vacuolar transport | 60/3918 | 157/18723 | 4.97e-07 | 1.85e-05 | 60 |
GO:0042147 | Colorectum | AD | retrograde transport, endosome to Golgi | 37/3918 | 91/18723 | 1.46e-05 | 3.14e-04 | 37 |
GO:0006888 | Colorectum | AD | endoplasmic reticulum to Golgi vesicle-mediated transport | 44/3918 | 130/18723 | 4.13e-04 | 4.68e-03 | 44 |
GO:0048284 | Colorectum | AD | organelle fusion | 42/3918 | 141/18723 | 8.04e-03 | 4.73e-02 | 42 |
GO:00162361 | Colorectum | SER | macroautophagy | 79/2897 | 291/18723 | 1.97e-07 | 1.10e-05 | 79 |
GO:00481931 | Colorectum | SER | Golgi vesicle transport | 79/2897 | 296/18723 | 4.20e-07 | 2.15e-05 | 79 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa041305 | Esophagus | ESCC | SNARE interactions in vesicular transport | 28/4205 | 33/8465 | 2.75e-05 | 1.32e-04 | 6.75e-05 | 28 |
hsa0413012 | Esophagus | ESCC | SNARE interactions in vesicular transport | 28/4205 | 33/8465 | 2.75e-05 | 1.32e-04 | 6.75e-05 | 28 |
hsa041302 | Liver | HCC | SNARE interactions in vesicular transport | 25/4020 | 33/8465 | 8.78e-04 | 3.38e-03 | 1.88e-03 | 25 |
hsa041303 | Liver | HCC | SNARE interactions in vesicular transport | 25/4020 | 33/8465 | 8.78e-04 | 3.38e-03 | 1.88e-03 | 25 |
hsa041304 | Oral cavity | OSCC | SNARE interactions in vesicular transport | 28/3704 | 33/8465 | 1.31e-06 | 7.18e-06 | 3.66e-06 | 28 |
hsa0413011 | Oral cavity | OSCC | SNARE interactions in vesicular transport | 28/3704 | 33/8465 | 1.31e-06 | 7.18e-06 | 3.66e-06 | 28 |
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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 |
VTI1A | SNV | Missense_Mutation | c.548N>T | p.Gly183Val | p.G183V | Q96AJ9 | protein_coding | deleterious(0.01) | benign(0.288) | TCGA-A6-2672-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD | |
VTI1A | SNV | Missense_Mutation | rs746061602 | c.586G>A | p.Val196Ile | p.V196I | Q96AJ9 | protein_coding | tolerated(0.52) | benign(0.043) | TCGA-AY-6197-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
VTI1A | SNV | Missense_Mutation | novel | c.205A>G | p.Met69Val | p.M69V | Q96AJ9 | protein_coding | tolerated(0.06) | benign(0.049) | TCGA-AZ-4315-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
VTI1A | SNV | Missense_Mutation | rs148949614 | c.389N>A | p.Arg130Gln | p.R130Q | Q96AJ9 | protein_coding | tolerated(0.06) | possibly_damaging(0.64) | TCGA-D5-6530-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
VTI1A | SNV | Missense_Mutation | c.548G>T | p.Gly183Val | p.G183V | Q96AJ9 | protein_coding | deleterious(0.01) | benign(0.288) | TCGA-WS-AB45-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
VTI1A | SNV | Missense_Mutation | rs770821310 | c.280N>A | p.Ala94Thr | p.A94T | Q96AJ9 | protein_coding | deleterious(0.05) | benign(0.061) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
VTI1A | SNV | Missense_Mutation | rs770821310 | c.280N>A | p.Ala94Thr | p.A94T | Q96AJ9 | protein_coding | deleterious(0.05) | benign(0.061) | TCGA-AX-A0J1-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
VTI1A | SNV | Missense_Mutation | novel | c.648N>C | p.Arg216Ser | p.R216S | Q96AJ9 | protein_coding | tolerated(0.05) | benign(0.001) | TCGA-AX-A1CE-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unspecific | Paclitaxel | SD |
VTI1A | SNV | Missense_Mutation | novel | c.350N>T | p.His117Leu | p.H117L | Q96AJ9 | protein_coding | deleterious(0.02) | benign(0.011) | TCGA-5R-AAAM-01 | Liver | liver hepatocellular carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
VTI1A | SNV | Missense_Mutation | c.479N>A | p.Ile160Lys | p.I160K | Q96AJ9 | protein_coding | deleterious(0) | probably_damaging(0.996) | TCGA-55-1592-01 | Lung | lung adenocarcinoma | Male | >=65 | I/II | 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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