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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 | RNA-P8T2-P8T2-3 | Human | Lung | AIS | 2.67e-02 | 7.18e-01 | -0.1284 |
143187 | VTI1A | C04 | Human | Oral cavity | OSCC | 3.77e-06 | 3.34e-01 | 0.2633 |
143187 | VTI1A | C21 | Human | Oral cavity | OSCC | 7.02e-16 | 5.46e-01 | 0.2678 |
143187 | VTI1A | C30 | Human | Oral cavity | OSCC | 2.10e-23 | 9.59e-01 | 0.3055 |
143187 | VTI1A | C46 | Human | Oral cavity | OSCC | 4.42e-05 | 9.40e-02 | 0.1673 |
143187 | VTI1A | C57 | Human | Oral cavity | OSCC | 2.16e-02 | 2.15e-01 | 0.1679 |
143187 | VTI1A | C06 | Human | Oral cavity | OSCC | 9.58e-03 | 8.42e-01 | 0.2699 |
143187 | VTI1A | C08 | Human | Oral cavity | OSCC | 5.12e-04 | 1.20e-01 | 0.1919 |
143187 | VTI1A | C09 | Human | Oral cavity | OSCC | 1.23e-02 | 4.93e-02 | 0.1431 |
143187 | VTI1A | LN46 | Human | Oral cavity | OSCC | 2.18e-02 | 1.75e-01 | 0.1666 |
143187 | VTI1A | EOLP-1 | Human | Oral cavity | EOLP | 6.84e-22 | 5.31e-01 | -0.0202 |
143187 | VTI1A | EOLP-2 | Human | Oral cavity | EOLP | 3.66e-03 | 3.60e-01 | -0.0203 |
143187 | VTI1A | NEOLP-1 | Human | Oral cavity | NEOLP | 9.12e-06 | 4.10e-01 | -0.0194 |
143187 | VTI1A | NEOLP-2 | Human | Oral cavity | NEOLP | 2.29e-05 | 3.16e-01 | -0.0196 |
143187 | VTI1A | NEOLP-3 | Human | Oral cavity | NEOLP | 2.58e-03 | 2.80e-01 | -0.0191 |
143187 | VTI1A | SYSMH2 | Human | Oral cavity | OSCC | 9.09e-04 | 1.84e-01 | 0.2326 |
143187 | VTI1A | SYSMH3 | Human | Oral cavity | OSCC | 5.28e-08 | 2.46e-01 | 0.2442 |
143187 | VTI1A | HTA12-15-2 | Human | Pancreas | PDAC | 6.67e-03 | 4.33e-01 | 0.2315 |
143187 | VTI1A | HTA12-23-1 | Human | Pancreas | PDAC | 1.35e-08 | 9.41e-01 | 0.3405 |
143187 | VTI1A | HTA12-25-1 | Human | Pancreas | PDAC | 6.02e-11 | 9.58e-01 | 0.313 |
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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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