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Gene: SNX2 |
Gene summary for SNX2 |
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Gene information | Species | Human | Gene symbol | SNX2 | Gene ID | 6643 |
Gene name | sorting nexin 2 | |
Gene Alias | TRG-9 | |
Cytomap | 5q23.2 | |
Gene Type | protein-coding | GO ID | GO:0000902 | UniProtAcc | O60749 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
6643 | SNX2 | LZE4T | Human | Esophagus | ESCC | 2.21e-14 | 3.32e-01 | 0.0811 |
6643 | SNX2 | LZE7T | Human | Esophagus | ESCC | 7.66e-06 | 2.73e-01 | 0.0667 |
6643 | SNX2 | LZE8T | Human | Esophagus | ESCC | 5.21e-13 | 4.43e-01 | 0.067 |
6643 | SNX2 | LZE24T | Human | Esophagus | ESCC | 8.35e-27 | 8.89e-01 | 0.0596 |
6643 | SNX2 | LZE21T | Human | Esophagus | ESCC | 3.09e-03 | 2.02e-01 | 0.0655 |
6643 | SNX2 | LZE6T | Human | Esophagus | ESCC | 2.33e-05 | 3.62e-01 | 0.0845 |
6643 | SNX2 | P1T-E | Human | Esophagus | ESCC | 1.89e-02 | 3.68e-01 | 0.0875 |
6643 | SNX2 | P2T-E | Human | Esophagus | ESCC | 7.36e-53 | 8.67e-01 | 0.1177 |
6643 | SNX2 | P4T-E | Human | Esophagus | ESCC | 3.36e-26 | 5.49e-01 | 0.1323 |
6643 | SNX2 | P5T-E | Human | Esophagus | ESCC | 1.46e-14 | 3.30e-01 | 0.1327 |
6643 | SNX2 | P8T-E | Human | Esophagus | ESCC | 2.35e-33 | 5.80e-01 | 0.0889 |
6643 | SNX2 | P9T-E | Human | Esophagus | ESCC | 1.54e-13 | 3.90e-01 | 0.1131 |
6643 | SNX2 | P10T-E | Human | Esophagus | ESCC | 1.18e-41 | 6.06e-01 | 0.116 |
6643 | SNX2 | P11T-E | Human | Esophagus | ESCC | 4.26e-16 | 5.10e-01 | 0.1426 |
6643 | SNX2 | P12T-E | Human | Esophagus | ESCC | 3.13e-41 | 8.88e-01 | 0.1122 |
6643 | SNX2 | P15T-E | Human | Esophagus | ESCC | 3.66e-37 | 9.18e-01 | 0.1149 |
6643 | SNX2 | P16T-E | Human | Esophagus | ESCC | 7.31e-27 | 5.60e-01 | 0.1153 |
6643 | SNX2 | P17T-E | Human | Esophagus | ESCC | 4.79e-05 | 4.18e-01 | 0.1278 |
6643 | SNX2 | P19T-E | Human | Esophagus | ESCC | 1.37e-10 | 8.39e-01 | 0.1662 |
6643 | SNX2 | P20T-E | Human | Esophagus | ESCC | 6.34e-36 | 9.40e-01 | 0.1124 |
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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:001056332 | Lung | MIAC | negative regulation of phosphorus metabolic process | 38/967 | 442/18723 | 1.50e-03 | 2.60e-02 | 38 |
GO:004232632 | Lung | MIAC | negative regulation of phosphorylation | 33/967 | 385/18723 | 3.11e-03 | 4.17e-02 | 33 |
GO:004819315 | Oral cavity | OSCC | Golgi vesicle transport | 209/7305 | 296/18723 | 1.39e-28 | 6.30e-26 | 209 |
GO:00161979 | Oral cavity | OSCC | endosomal transport | 141/7305 | 230/18723 | 5.40e-12 | 2.06e-10 | 141 |
GO:000703410 | Oral cavity | OSCC | vacuolar transport | 103/7305 | 157/18723 | 1.25e-11 | 4.44e-10 | 103 |
GO:00164829 | Oral cavity | OSCC | cytosolic transport | 106/7305 | 168/18723 | 2.08e-10 | 5.90e-09 | 106 |
GO:000716318 | Oral cavity | OSCC | establishment or maintenance of cell polarity | 129/7305 | 218/18723 | 1.16e-09 | 2.86e-08 | 129 |
GO:00070418 | Oral cavity | OSCC | lysosomal transport | 69/7305 | 114/18723 | 2.62e-06 | 3.26e-05 | 69 |
GO:00988769 | Oral cavity | OSCC | vesicle-mediated transport to the plasma membrane | 79/7305 | 136/18723 | 4.93e-06 | 5.58e-05 | 79 |
GO:003001016 | Oral cavity | OSCC | establishment of cell polarity | 82/7305 | 143/18723 | 6.56e-06 | 7.24e-05 | 82 |
GO:00421476 | Oral cavity | OSCC | retrograde transport, endosome to Golgi | 55/7305 | 91/18723 | 2.79e-05 | 2.59e-04 | 55 |
GO:009758110 | Oral cavity | OSCC | lamellipodium organization | 54/7305 | 90/18723 | 4.39e-05 | 3.76e-04 | 54 |
GO:00083332 | Oral cavity | OSCC | endosome to lysosome transport | 33/7305 | 55/18723 | 1.30e-03 | 6.46e-03 | 33 |
GO:00726734 | Oral cavity | OSCC | lamellipodium morphogenesis | 13/7305 | 17/18723 | 1.92e-03 | 8.94e-03 | 13 |
GO:0048193110 | Skin | cSCC | Golgi vesicle transport | 153/4864 | 296/18723 | 1.85e-21 | 3.41e-19 | 153 |
GO:000716327 | Skin | cSCC | establishment or maintenance of cell polarity | 103/4864 | 218/18723 | 9.44e-12 | 4.85e-10 | 103 |
GO:000703419 | Skin | cSCC | vacuolar transport | 74/4864 | 157/18723 | 8.60e-09 | 2.72e-07 | 74 |
GO:001619717 | Skin | cSCC | endosomal transport | 98/4864 | 230/18723 | 2.71e-08 | 7.41e-07 | 98 |
GO:003001025 | Skin | cSCC | establishment of cell polarity | 65/4864 | 143/18723 | 3.60e-07 | 7.18e-06 | 65 |
GO:001648216 | Skin | cSCC | cytosolic transport | 71/4864 | 168/18723 | 3.02e-06 | 4.72e-05 | 71 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa04144210 | Esophagus | ESCC | Endocytosis | 186/4205 | 251/8465 | 9.74e-16 | 4.66e-14 | 2.39e-14 | 186 |
hsa0414437 | Esophagus | ESCC | Endocytosis | 186/4205 | 251/8465 | 9.74e-16 | 4.66e-14 | 2.39e-14 | 186 |
hsa0414412 | Liver | Cirrhotic | Endocytosis | 119/2530 | 251/8465 | 2.33e-09 | 4.56e-08 | 2.81e-08 | 119 |
hsa0414413 | Liver | Cirrhotic | Endocytosis | 119/2530 | 251/8465 | 2.33e-09 | 4.56e-08 | 2.81e-08 | 119 |
hsa0414422 | Liver | HCC | Endocytosis | 178/4020 | 251/8465 | 2.03e-14 | 5.22e-13 | 2.91e-13 | 178 |
hsa0414432 | Liver | HCC | Endocytosis | 178/4020 | 251/8465 | 2.03e-14 | 5.22e-13 | 2.91e-13 | 178 |
hsa0414427 | Oral cavity | OSCC | Endocytosis | 174/3704 | 251/8465 | 9.42e-17 | 4.51e-15 | 2.29e-15 | 174 |
hsa04144112 | Oral cavity | OSCC | Endocytosis | 174/3704 | 251/8465 | 9.42e-17 | 4.51e-15 | 2.29e-15 | 174 |
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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 |
SNX2 | SNV | Missense_Mutation | novel | c.440N>T | p.Ser147Leu | p.S147L | O60749 | protein_coding | deleterious(0.02) | benign(0.243) | TCGA-3C-AALI-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unspecific | Poly E | Complete Response |
SNX2 | SNV | Missense_Mutation | c.1114G>C | p.Glu372Gln | p.E372Q | O60749 | protein_coding | deleterious(0) | benign(0.392) | TCGA-AN-A0XW-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD | |
SNX2 | SNV | Missense_Mutation | c.971N>C | p.His324Pro | p.H324P | O60749 | protein_coding | deleterious(0) | possibly_damaging(0.88) | TCGA-C8-A274-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD | |
SNX2 | SNV | Missense_Mutation | novel | c.1111G>A | p.Glu371Lys | p.E371K | O60749 | protein_coding | deleterious(0.01) | benign(0.324) | TCGA-VS-A94Z-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
SNX2 | SNV | Missense_Mutation | c.354G>A | p.Met118Ile | p.M118I | O60749 | protein_coding | tolerated(0.55) | benign(0) | TCGA-A6-6781-01 | Colorectum | colon adenocarcinoma | Male | <65 | III/IV | Chemotherapy | oxaliplatin | SD | |
SNX2 | SNV | Missense_Mutation | novel | c.857N>C | p.Asn286Thr | p.N286T | O60749 | protein_coding | tolerated(0.06) | benign(0.223) | TCGA-AA-3688-01 | Colorectum | colon adenocarcinoma | Male | >=65 | III/IV | Unknown | Unknown | SD |
SNX2 | SNV | Missense_Mutation | rs138514194 | c.364N>A | p.Val122Met | p.V122M | O60749 | protein_coding | tolerated(0.11) | possibly_damaging(0.631) | TCGA-AA-3811-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD |
SNX2 | SNV | Missense_Mutation | c.633N>T | p.Lys211Asn | p.K211N | O60749 | protein_coding | deleterious(0) | probably_damaging(0.977) | TCGA-AA-A010-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Chemotherapy | folinic | CR | |
SNX2 | SNV | Missense_Mutation | rs760493667 | c.1465G>A | p.Val489Ile | p.V489I | O60749 | protein_coding | tolerated(0.46) | benign(0.001) | TCGA-AA-A02H-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD |
SNX2 | SNV | Missense_Mutation | c.240N>T | p.Glu80Asp | p.E80D | O60749 | protein_coding | tolerated(0.13) | possibly_damaging(0.887) | TCGA-AZ-6608-01 | Colorectum | colon adenocarcinoma | Female | <65 | III/IV | 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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