|
Gene: RAB2A |
Gene summary for RAB2A |
Gene summary. |
Gene information | Species | Human | Gene symbol | RAB2A | Gene ID | 5862 |
Gene name | RAB2A, member RAS oncogene family | |
Gene Alias | LHX | |
Cytomap | 8q12.1-q12.2 | |
Gene Type | protein-coding | GO ID | GO:0006810 | UniProtAcc | P61019 |
Top |
Malignant transformation analysis |
Identification of the aberrant gene expression in precancerous and cancerous lesions by comparing the gene expression of stem-like cells in diseased tissues with normal stem cells |
Malignant transformation involving gene list. |
Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
5862 | RAB2A | A002-C-010 | Human | Colorectum | FAP | 1.20e-02 | -2.01e-01 | 0.242 |
5862 | RAB2A | A001-C-207 | Human | Colorectum | FAP | 2.81e-03 | -1.98e-01 | 0.1278 |
5862 | RAB2A | A015-C-203 | Human | Colorectum | FAP | 5.00e-36 | -5.87e-01 | -0.1294 |
5862 | RAB2A | A015-C-204 | Human | Colorectum | FAP | 1.12e-07 | -3.85e-01 | -0.0228 |
5862 | RAB2A | A014-C-040 | Human | Colorectum | FAP | 1.40e-05 | -5.12e-01 | -0.1184 |
5862 | RAB2A | A002-C-201 | Human | Colorectum | FAP | 5.02e-16 | -4.45e-01 | 0.0324 |
5862 | RAB2A | A002-C-203 | Human | Colorectum | FAP | 3.61e-07 | -2.24e-01 | 0.2786 |
5862 | RAB2A | A001-C-119 | Human | Colorectum | FAP | 1.46e-10 | -5.39e-01 | -0.1557 |
5862 | RAB2A | A001-C-108 | Human | Colorectum | FAP | 9.64e-23 | -4.05e-01 | -0.0272 |
5862 | RAB2A | A002-C-205 | Human | Colorectum | FAP | 4.02e-26 | -5.27e-01 | -0.1236 |
5862 | RAB2A | A001-C-104 | Human | Colorectum | FAP | 1.90e-04 | -2.04e-01 | 0.0184 |
5862 | RAB2A | A015-C-005 | Human | Colorectum | FAP | 5.67e-03 | -7.86e-02 | -0.0336 |
5862 | RAB2A | A015-C-006 | Human | Colorectum | FAP | 5.75e-20 | -4.36e-01 | -0.0994 |
5862 | RAB2A | A015-C-106 | Human | Colorectum | FAP | 1.47e-17 | -3.47e-01 | -0.0511 |
5862 | RAB2A | A002-C-114 | Human | Colorectum | FAP | 1.17e-23 | -5.94e-01 | -0.1561 |
5862 | RAB2A | A015-C-104 | Human | Colorectum | FAP | 7.56e-43 | -6.89e-01 | -0.1899 |
5862 | RAB2A | A001-C-014 | Human | Colorectum | FAP | 1.80e-21 | -3.31e-01 | 0.0135 |
5862 | RAB2A | A002-C-016 | Human | Colorectum | FAP | 2.07e-27 | -4.22e-01 | 0.0521 |
5862 | RAB2A | A015-C-002 | Human | Colorectum | FAP | 9.24e-15 | -4.22e-01 | -0.0763 |
5862 | RAB2A | A001-C-203 | Human | Colorectum | FAP | 7.98e-13 | -2.61e-01 | -0.0481 |
Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 |
Transcriptomic changes along malignancy continuum. |
∗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. |
Top |
Malignant transformation related pathway analysis |
Find out the enriched GO biological processes and KEGG pathways involved in transition from healthy to precancer to cancer |
Figure of enriched GO biological processes. |
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 |
Enriched GO biological processes. |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:00070308 | Esophagus | ESCC | Golgi organization | 101/8552 | 157/18723 | 1.78e-06 | 2.10e-05 | 101 |
GO:00070301 | Liver | Cirrhotic | Golgi organization | 68/4634 | 157/18723 | 2.57e-07 | 6.41e-06 | 68 |
GO:00070302 | Liver | HCC | Golgi organization | 99/7958 | 157/18723 | 1.54e-07 | 2.85e-06 | 99 |
GO:00070303 | Lung | IAC | Golgi organization | 32/2061 | 157/18723 | 4.13e-04 | 6.22e-03 | 32 |
GO:000703011 | Lung | AIS | Golgi organization | 30/1849 | 157/18723 | 3.09e-04 | 5.63e-03 | 30 |
GO:000703021 | Lung | MIAC | Golgi organization | 18/967 | 157/18723 | 1.27e-03 | 2.37e-02 | 18 |
GO:00070307 | Oral cavity | OSCC | Golgi organization | 92/7305 | 157/18723 | 4.96e-07 | 7.27e-06 | 92 |
GO:000703014 | Oral cavity | EOLP | Golgi organization | 37/2218 | 157/18723 | 2.83e-05 | 4.12e-04 | 37 |
GO:000703022 | Oral cavity | NEOLP | Golgi organization | 29/2005 | 157/18723 | 2.40e-03 | 1.53e-02 | 29 |
GO:00070306 | Prostate | BPH | Golgi organization | 39/3107 | 157/18723 | 5.20e-03 | 2.43e-02 | 39 |
GO:000703013 | Prostate | Tumor | Golgi organization | 40/3246 | 157/18723 | 6.33e-03 | 2.90e-02 | 40 |
GO:00070309 | Skin | cSCC | Golgi organization | 64/4864 | 157/18723 | 3.53e-05 | 3.83e-04 | 64 |
GO:000703010 | Thyroid | PTC | Golgi organization | 79/5968 | 157/18723 | 1.11e-06 | 1.64e-05 | 79 |
GO:000703015 | Thyroid | ATC | Golgi organization | 79/6293 | 157/18723 | 1.07e-05 | 1.05e-04 | 79 |
Page: 1 |
Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa04152 | Colorectum | AD | AMPK signaling pathway | 47/2092 | 121/8465 | 3.74e-04 | 2.82e-03 | 1.80e-03 | 47 |
hsa041521 | Colorectum | AD | AMPK signaling pathway | 47/2092 | 121/8465 | 3.74e-04 | 2.82e-03 | 1.80e-03 | 47 |
hsa041522 | Colorectum | MSS | AMPK signaling pathway | 41/1875 | 121/8465 | 1.91e-03 | 9.83e-03 | 6.03e-03 | 41 |
hsa041523 | Colorectum | MSS | AMPK signaling pathway | 41/1875 | 121/8465 | 1.91e-03 | 9.83e-03 | 6.03e-03 | 41 |
hsa041524 | Colorectum | FAP | AMPK signaling pathway | 37/1404 | 121/8465 | 8.97e-05 | 8.56e-04 | 5.21e-04 | 37 |
hsa041525 | Colorectum | FAP | AMPK signaling pathway | 37/1404 | 121/8465 | 8.97e-05 | 8.56e-04 | 5.21e-04 | 37 |
hsa041526 | Colorectum | CRC | AMPK signaling pathway | 31/1091 | 121/8465 | 1.04e-04 | 1.57e-03 | 1.07e-03 | 31 |
hsa041527 | Colorectum | CRC | AMPK signaling pathway | 31/1091 | 121/8465 | 1.04e-04 | 1.57e-03 | 1.07e-03 | 31 |
hsa0415210 | Esophagus | ESCC | AMPK signaling pathway | 80/4205 | 121/8465 | 1.73e-04 | 6.67e-04 | 3.42e-04 | 80 |
hsa0415213 | Esophagus | ESCC | AMPK signaling pathway | 80/4205 | 121/8465 | 1.73e-04 | 6.67e-04 | 3.42e-04 | 80 |
hsa0415221 | Liver | Cirrhotic | AMPK signaling pathway | 49/2530 | 121/8465 | 7.90e-03 | 2.74e-02 | 1.69e-02 | 49 |
hsa0415231 | Liver | Cirrhotic | AMPK signaling pathway | 49/2530 | 121/8465 | 7.90e-03 | 2.74e-02 | 1.69e-02 | 49 |
hsa0415241 | Liver | HCC | AMPK signaling pathway | 77/4020 | 121/8465 | 2.32e-04 | 1.11e-03 | 6.18e-04 | 77 |
hsa0415251 | Liver | HCC | AMPK signaling pathway | 77/4020 | 121/8465 | 2.32e-04 | 1.11e-03 | 6.18e-04 | 77 |
hsa041529 | Oral cavity | OSCC | AMPK signaling pathway | 71/3704 | 121/8465 | 6.29e-04 | 1.86e-03 | 9.49e-04 | 71 |
hsa0415212 | Oral cavity | OSCC | AMPK signaling pathway | 71/3704 | 121/8465 | 6.29e-04 | 1.86e-03 | 9.49e-04 | 71 |
Page: 1 |
Top |
Cell-cell communication analysis |
Identification of potential cell-cell interactions between two cell types and their ligand-receptor pairs for different disease states |
Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
Page: 1 |
Top |
Single-cell gene regulatory network inference analysis |
Find out the significant the regulons (TFs) and the target genes of each regulon across cell types for different disease states |
TF | Cell Type | Tissue | Disease Stage | Target Gene | RSS | Regulon Activity |
RAB2A | FIB | Stomach | SIM | HEYL,THEM6,AGTRAP, etc. | 4.00e-02 |
∗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. |
Page: 1 |
Top |
Somatic mutation of malignant transformation related genes |
Annotation of somatic variants for genes involved in malignant transformation |
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 |
RAB2A | SNV | Missense_Mutation | novel | c.127N>C | p.Phe43Leu | p.F43L | P61019 | protein_coding | deleterious(0.01) | probably_damaging(0.982) | TCGA-A7-A0CD-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | arimidex | SD |
RAB2A | SNV | Missense_Mutation | novel | c.545C>T | p.Ala182Val | p.A182V | P61019 | protein_coding | tolerated(0.24) | benign(0) | TCGA-AC-A3QP-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | femara | SD |
RAB2A | SNV | Missense_Mutation | c.380N>A | p.Arg127Lys | p.R127K | P61019 | protein_coding | deleterious(0) | probably_damaging(0.945) | TCGA-EA-A439-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | PD | |
RAB2A | SNV | Missense_Mutation | novel | c.461N>T | p.Ser154Phe | p.S154F | P61019 | protein_coding | tolerated(0.13) | benign(0.005) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | CR |
RAB2A | SNV | Missense_Mutation | c.535N>G | p.Asn179Asp | p.N179D | P61019 | protein_coding | tolerated(0.35) | benign(0) | TCGA-G4-6302-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
RAB2A | SNV | Missense_Mutation | novel | c.501N>G | p.Ile167Met | p.I167M | P61019 | protein_coding | deleterious(0) | probably_damaging(0.991) | TCGA-AP-A1E0-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | paclitaxel | SD |
RAB2A | SNV | Missense_Mutation | novel | c.218G>T | p.Arg73Met | p.R73M | P61019 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-AX-A2HD-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
RAB2A | SNV | Missense_Mutation | c.539N>C | p.Asn180Thr | p.N180T | P61019 | protein_coding | tolerated(0.08) | benign(0.133) | TCGA-B5-A11E-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
RAB2A | SNV | Missense_Mutation | novel | c.479T>G | p.Phe160Cys | p.F160C | P61019 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-B5-A1MR-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
RAB2A | SNV | Missense_Mutation | c.455N>G | p.Thr152Ser | p.T152S | P61019 | protein_coding | tolerated(0.17) | benign(0.124) | TCGA-D1-A17H-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
Page: 1 2 |
Top |
Related drugs of malignant transformation related genes |
Identification of chemicals and drugs interact with genes involved in malignant transfromation |
(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
Page: 1 |