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Gene: VANGL2 |
Gene summary for VANGL2 |
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Gene information | Species | Human | Gene symbol | VANGL2 | Gene ID | 57216 |
Gene name | VANGL planar cell polarity protein 2 | |
Gene Alias | LPP1 | |
Cytomap | 1q23.2 | |
Gene Type | protein-coding | GO ID | GO:0001655 | UniProtAcc | A8K4L6 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
57216 | VANGL2 | LZE2T | Human | Esophagus | ESCC | 2.72e-02 | 2.73e-01 | 0.082 |
57216 | VANGL2 | LZE7T | Human | Esophagus | ESCC | 1.46e-08 | 3.15e-01 | 0.0667 |
57216 | VANGL2 | LZE24T | Human | Esophagus | ESCC | 1.19e-06 | 1.90e-01 | 0.0596 |
57216 | VANGL2 | P2T-E | Human | Esophagus | ESCC | 2.39e-14 | 3.05e-01 | 0.1177 |
57216 | VANGL2 | P4T-E | Human | Esophagus | ESCC | 1.20e-12 | 2.68e-01 | 0.1323 |
57216 | VANGL2 | P5T-E | Human | Esophagus | ESCC | 1.46e-10 | 9.78e-02 | 0.1327 |
57216 | VANGL2 | P8T-E | Human | Esophagus | ESCC | 8.86e-05 | 5.45e-02 | 0.0889 |
57216 | VANGL2 | P9T-E | Human | Esophagus | ESCC | 9.40e-05 | 1.13e-01 | 0.1131 |
57216 | VANGL2 | P10T-E | Human | Esophagus | ESCC | 2.30e-10 | 2.35e-01 | 0.116 |
57216 | VANGL2 | P12T-E | Human | Esophagus | ESCC | 2.14e-05 | 1.23e-01 | 0.1122 |
57216 | VANGL2 | P15T-E | Human | Esophagus | ESCC | 3.66e-08 | 2.06e-01 | 0.1149 |
57216 | VANGL2 | P20T-E | Human | Esophagus | ESCC | 4.22e-06 | 1.91e-01 | 0.1124 |
57216 | VANGL2 | P21T-E | Human | Esophagus | ESCC | 5.05e-12 | 2.25e-01 | 0.1617 |
57216 | VANGL2 | P22T-E | Human | Esophagus | ESCC | 3.85e-12 | 2.25e-01 | 0.1236 |
57216 | VANGL2 | P23T-E | Human | Esophagus | ESCC | 6.35e-05 | 1.50e-01 | 0.108 |
57216 | VANGL2 | P26T-E | Human | Esophagus | ESCC | 4.67e-10 | 2.33e-01 | 0.1276 |
57216 | VANGL2 | P27T-E | Human | Esophagus | ESCC | 2.84e-04 | 1.18e-01 | 0.1055 |
57216 | VANGL2 | P28T-E | Human | Esophagus | ESCC | 2.50e-15 | 2.67e-01 | 0.1149 |
57216 | VANGL2 | P30T-E | Human | Esophagus | ESCC | 3.46e-13 | 5.02e-01 | 0.137 |
57216 | VANGL2 | P31T-E | Human | Esophagus | ESCC | 2.01e-07 | 1.31e-01 | 0.1251 |
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Tissue | Expression Dynamics | Abbreviation |
Esophagus | ![]() | ESCC: Esophageal squamous cell carcinoma |
HGIN: High-grade intraepithelial neoplasias | ||
LGIN: Low-grade intraepithelial neoplasias |
∗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:001605517 | Esophagus | ESCC | Wnt signaling pathway | 268/8552 | 444/18723 | 2.32e-10 | 6.58e-09 | 268 |
GO:019873817 | Esophagus | ESCC | cell-cell signaling by wnt | 269/8552 | 446/18723 | 2.41e-10 | 6.79e-09 | 269 |
GO:000184115 | Esophagus | ESCC | neural tube formation | 75/8552 | 102/18723 | 9.68e-09 | 1.95e-07 | 75 |
GO:000184314 | Esophagus | ESCC | neural tube closure | 66/8552 | 88/18723 | 1.98e-08 | 3.82e-07 | 66 |
GO:001402014 | Esophagus | ESCC | primary neural tube formation | 69/8552 | 94/18723 | 4.22e-08 | 7.76e-07 | 69 |
GO:006060614 | Esophagus | ESCC | tube closure | 66/8552 | 89/18723 | 4.24e-08 | 7.76e-07 | 66 |
GO:00219159 | Esophagus | ESCC | neural tube development | 101/8552 | 152/18723 | 1.78e-07 | 2.79e-06 | 101 |
GO:00163316 | Esophagus | ESCC | morphogenesis of embryonic epithelium | 98/8552 | 147/18723 | 2.12e-07 | 3.27e-06 | 98 |
GO:000183814 | Esophagus | ESCC | embryonic epithelial tube formation | 83/8552 | 121/18723 | 2.78e-07 | 4.08e-06 | 83 |
GO:003514815 | Esophagus | ESCC | tube formation | 96/8552 | 148/18723 | 1.86e-06 | 2.16e-05 | 96 |
GO:00721759 | Esophagus | ESCC | epithelial tube formation | 86/8552 | 132/18723 | 4.81e-06 | 5.10e-05 | 86 |
GO:006056210 | Esophagus | ESCC | epithelial tube morphogenesis | 187/8552 | 325/18723 | 9.95e-06 | 9.44e-05 | 187 |
GO:00017387 | Esophagus | ESCC | morphogenesis of a polarized epithelium | 63/8552 | 94/18723 | 2.34e-05 | 2.00e-04 | 63 |
GO:00600714 | Esophagus | ESCC | Wnt signaling pathway, planar cell polarity pathway | 36/8552 | 52/18723 | 5.05e-04 | 2.79e-03 | 36 |
GO:00485687 | Esophagus | ESCC | embryonic organ development | 228/8552 | 427/18723 | 7.28e-04 | 3.79e-03 | 228 |
GO:00901753 | Esophagus | ESCC | regulation of establishment of planar polarity | 37/8552 | 56/18723 | 1.65e-03 | 7.65e-03 | 37 |
GO:00017361 | Esophagus | ESCC | establishment of planar polarity | 45/8552 | 72/18723 | 2.97e-03 | 1.24e-02 | 45 |
GO:00071641 | Esophagus | ESCC | establishment of tissue polarity | 45/8552 | 72/18723 | 2.97e-03 | 1.24e-02 | 45 |
GO:00355671 | Esophagus | ESCC | non-canonical Wnt signaling pathway | 45/8552 | 72/18723 | 2.97e-03 | 1.24e-02 | 45 |
GO:19055153 | Esophagus | ESCC | non-motile cilium assembly | 39/8552 | 61/18723 | 3.08e-03 | 1.28e-02 | 39 |
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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 |
VANGL2 | SNV | Missense_Mutation | c.370N>G | p.Leu124Val | p.L124V | Q9ULK5 | protein_coding | tolerated(0.37) | benign(0.214) | TCGA-93-8067-01 | Lung | lung adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
VANGL2 | SNV | Missense_Mutation | novel | c.430N>T | p.Ala144Ser | p.A144S | Q9ULK5 | protein_coding | tolerated(0.5) | benign(0.093) | TCGA-97-8172-01 | Lung | lung adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
VANGL2 | SNV | Missense_Mutation | c.1261N>A | p.Leu421Met | p.L421M | Q9ULK5 | protein_coding | tolerated(0.07) | possibly_damaging(0.521) | TCGA-MP-A4SV-01 | Lung | lung adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
VANGL2 | SNV | Missense_Mutation | c.889N>T | p.Val297Phe | p.V297F | Q9ULK5 | protein_coding | tolerated(0.38) | possibly_damaging(0.585) | TCGA-NJ-A4YP-01 | Lung | lung adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
VANGL2 | SNV | Missense_Mutation | novel | c.335G>T | p.Gly112Val | p.G112V | Q9ULK5 | protein_coding | tolerated(0.06) | possibly_damaging(0.5) | TCGA-37-4130-01 | Lung | lung squamous cell carcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
VANGL2 | SNV | Missense_Mutation | novel | c.148N>T | p.Gly50Trp | p.G50W | Q9ULK5 | protein_coding | tolerated(0.06) | probably_damaging(0.996) | TCGA-56-6546-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
VANGL2 | SNV | Missense_Mutation | novel | c.243N>G | p.His81Gln | p.H81Q | Q9ULK5 | protein_coding | tolerated(0.48) | benign(0.303) | TCGA-58-A46N-01 | Lung | lung squamous cell carcinoma | Male | <65 | I/II | Unknown | Unknown | PD |
VANGL2 | SNV | Missense_Mutation | c.1440N>C | p.Leu480Phe | p.L480F | Q9ULK5 | protein_coding | deleterious(0) | probably_damaging(0.996) | TCGA-66-2789-01 | Lung | lung squamous cell carcinoma | Male | >=65 | III/IV | Unknown | Unknown | SD | |
VANGL2 | SNV | Missense_Mutation | novel | c.814G>C | p.Ala272Pro | p.A272P | Q9ULK5 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-85-8580-01 | Lung | lung squamous cell carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
VANGL2 | SNV | Missense_Mutation | novel | c.545G>C | p.Arg182Pro | p.R182P | Q9ULK5 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-85-8582-01 | Lung | lung squamous cell carcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
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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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