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Gene: RAB5B |
Gene summary for RAB5B |
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Gene information | Species | Human | Gene symbol | RAB5B | Gene ID | 5869 |
Gene name | RAB5B, member RAS oncogene family | |
Gene Alias | RAB5B | |
Cytomap | 12q13.2 | |
Gene Type | protein-coding | GO ID | GO:0002376 | UniProtAcc | A0A024RB09 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
5869 | RAB5B | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.69e-10 | 4.03e-01 | 0.0155 |
5869 | RAB5B | HTA11_2487_2000001011 | Human | Colorectum | SER | 3.61e-13 | 6.44e-01 | -0.1808 |
5869 | RAB5B | HTA11_1938_2000001011 | Human | Colorectum | AD | 7.68e-22 | 1.01e+00 | -0.0811 |
5869 | RAB5B | HTA11_78_2000001011 | Human | Colorectum | AD | 4.36e-10 | 5.38e-01 | -0.1088 |
5869 | RAB5B | HTA11_347_2000001011 | Human | Colorectum | AD | 4.39e-25 | 7.69e-01 | -0.1954 |
5869 | RAB5B | HTA11_411_2000001011 | Human | Colorectum | SER | 1.56e-07 | 1.18e+00 | -0.2602 |
5869 | RAB5B | HTA11_2112_2000001011 | Human | Colorectum | SER | 2.86e-03 | 7.15e-01 | -0.2196 |
5869 | RAB5B | HTA11_3361_2000001011 | Human | Colorectum | AD | 5.53e-08 | 6.52e-01 | -0.1207 |
5869 | RAB5B | HTA11_83_2000001011 | Human | Colorectum | SER | 4.72e-03 | 4.49e-01 | -0.1526 |
5869 | RAB5B | HTA11_696_2000001011 | Human | Colorectum | AD | 1.21e-20 | 7.23e-01 | -0.1464 |
5869 | RAB5B | HTA11_866_2000001011 | Human | Colorectum | AD | 1.29e-07 | 4.56e-01 | -0.1001 |
5869 | RAB5B | HTA11_1391_2000001011 | Human | Colorectum | AD | 5.71e-26 | 1.03e+00 | -0.059 |
5869 | RAB5B | HTA11_2992_2000001011 | Human | Colorectum | SER | 1.36e-06 | 8.07e-01 | -0.1706 |
5869 | RAB5B | HTA11_5212_2000001011 | Human | Colorectum | AD | 1.91e-13 | 8.92e-01 | -0.2061 |
5869 | RAB5B | HTA11_546_2000001011 | Human | Colorectum | AD | 6.81e-05 | 5.92e-01 | -0.0842 |
5869 | RAB5B | HTA11_866_3004761011 | Human | Colorectum | AD | 2.59e-20 | 6.74e-01 | 0.096 |
5869 | RAB5B | HTA11_4255_2000001011 | Human | Colorectum | SER | 2.07e-02 | 5.50e-01 | 0.0446 |
5869 | RAB5B | HTA11_8622_2000001021 | Human | Colorectum | SER | 2.18e-03 | 5.68e-01 | 0.0528 |
5869 | RAB5B | HTA11_7663_2000001011 | Human | Colorectum | SER | 2.27e-05 | 6.78e-01 | 0.0131 |
5869 | RAB5B | HTA11_6801_2000001011 | Human | Colorectum | SER | 2.42e-05 | 7.93e-01 | 0.0171 |
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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:003010020 | Thyroid | PTC | regulation of endocytosis | 108/5968 | 211/18723 | 3.92e-09 | 1.04e-07 | 108 |
GO:0019882112 | Thyroid | PTC | antigen processing and presentation | 57/5968 | 106/18723 | 2.40e-06 | 3.17e-05 | 57 |
GO:0030100111 | Thyroid | ATC | regulation of endocytosis | 113/6293 | 211/18723 | 1.71e-09 | 4.22e-08 | 113 |
GO:001988229 | Thyroid | ATC | antigen processing and presentation | 57/6293 | 106/18723 | 1.48e-05 | 1.39e-04 | 57 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa04144 | Colorectum | AD | Endocytosis | 111/2092 | 251/8465 | 5.95e-12 | 1.42e-10 | 9.08e-11 | 111 |
hsa05132 | Colorectum | AD | Salmonella infection | 102/2092 | 249/8465 | 7.65e-09 | 1.28e-07 | 8.17e-08 | 102 |
hsa04962 | Colorectum | AD | Vasopressin-regulated water reabsorption | 19/2092 | 44/8465 | 5.48e-03 | 2.48e-02 | 1.58e-02 | 19 |
hsa041441 | Colorectum | AD | Endocytosis | 111/2092 | 251/8465 | 5.95e-12 | 1.42e-10 | 9.08e-11 | 111 |
hsa051321 | Colorectum | AD | Salmonella infection | 102/2092 | 249/8465 | 7.65e-09 | 1.28e-07 | 8.17e-08 | 102 |
hsa049621 | Colorectum | AD | Vasopressin-regulated water reabsorption | 19/2092 | 44/8465 | 5.48e-03 | 2.48e-02 | 1.58e-02 | 19 |
hsa041442 | Colorectum | SER | Endocytosis | 81/1580 | 251/8465 | 1.14e-07 | 2.36e-06 | 1.71e-06 | 81 |
hsa051322 | Colorectum | SER | Salmonella infection | 77/1580 | 249/8465 | 1.56e-06 | 2.35e-05 | 1.71e-05 | 77 |
hsa041443 | Colorectum | SER | Endocytosis | 81/1580 | 251/8465 | 1.14e-07 | 2.36e-06 | 1.71e-06 | 81 |
hsa051323 | Colorectum | SER | Salmonella infection | 77/1580 | 249/8465 | 1.56e-06 | 2.35e-05 | 1.71e-05 | 77 |
hsa041444 | Colorectum | MSS | Endocytosis | 102/1875 | 251/8465 | 1.85e-11 | 4.43e-10 | 2.71e-10 | 102 |
hsa051324 | Colorectum | MSS | Salmonella infection | 92/1875 | 249/8465 | 5.23e-08 | 9.74e-07 | 5.97e-07 | 92 |
hsa049622 | Colorectum | MSS | Vasopressin-regulated water reabsorption | 17/1875 | 44/8465 | 9.76e-03 | 3.55e-02 | 2.18e-02 | 17 |
hsa041445 | Colorectum | MSS | Endocytosis | 102/1875 | 251/8465 | 1.85e-11 | 4.43e-10 | 2.71e-10 | 102 |
hsa051325 | Colorectum | MSS | Salmonella infection | 92/1875 | 249/8465 | 5.23e-08 | 9.74e-07 | 5.97e-07 | 92 |
hsa049623 | Colorectum | MSS | Vasopressin-regulated water reabsorption | 17/1875 | 44/8465 | 9.76e-03 | 3.55e-02 | 2.18e-02 | 17 |
hsa051326 | Colorectum | MSI-H | Salmonella infection | 43/797 | 249/8465 | 5.91e-05 | 8.33e-04 | 6.98e-04 | 43 |
hsa04145 | Colorectum | MSI-H | Phagosome | 27/797 | 152/8465 | 8.74e-04 | 1.01e-02 | 8.48e-03 | 27 |
hsa051327 | Colorectum | MSI-H | Salmonella infection | 43/797 | 249/8465 | 5.91e-05 | 8.33e-04 | 6.98e-04 | 43 |
hsa041451 | Colorectum | MSI-H | Phagosome | 27/797 | 152/8465 | 8.74e-04 | 1.01e-02 | 8.48e-03 | 27 |
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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 |
RAB5B | SNV | Missense_Mutation | novel | c.592G>T | p.Gly198Cys | p.G198C | P61020 | protein_coding | deleterious(0) | possibly_damaging(0.682) | TCGA-VS-A8EG-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
RAB5B | SNV | Missense_Mutation | c.242N>A | p.Arg81Gln | p.R81Q | P61020 | protein_coding | deleterious(0.03) | possibly_damaging(0.693) | TCGA-AF-2687-01 | Colorectum | rectum adenocarcinoma | Male | <65 | III/IV | Chemotherapy | xeloda | PD | |
RAB5B | SNV | Missense_Mutation | rs531655278 | c.184G>A | p.Val62Ile | p.V62I | P61020 | protein_coding | tolerated(0.43) | benign(0.014) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
RAB5B | SNV | Missense_Mutation | rs377046623 | c.589N>T | p.Arg197Trp | p.R197W | P61020 | protein_coding | deleterious(0) | possibly_damaging(0.586) | TCGA-AP-A059-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
RAB5B | SNV | Missense_Mutation | c.535N>G | p.Lys179Glu | p.K179E | P61020 | protein_coding | tolerated(0.12) | benign(0.021) | TCGA-AX-A0J0-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
RAB5B | SNV | Missense_Mutation | c.581N>A | p.Gly194Asp | p.G194D | P61020 | protein_coding | deleterious(0.04) | benign(0.067) | TCGA-D1-A17Q-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
RAB5B | SNV | Missense_Mutation | novel | c.418N>G | p.Lys140Glu | p.K140E | P61020 | protein_coding | tolerated(0.19) | benign(0.015) | TCGA-DI-A1BU-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Chemotherapy | paclitaxel | SD |
RAB5B | SNV | Missense_Mutation | novel | c.409N>A | p.Leu137Met | p.L137M | P61020 | protein_coding | deleterious(0.04) | possibly_damaging(0.62) | TCGA-EY-A1GU-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
RAB5B | SNV | Missense_Mutation | c.42N>T | p.Gln14His | p.Q14H | P61020 | protein_coding | tolerated(0.13) | benign(0.009) | TCGA-53-7813-01 | Lung | lung adenocarcinoma | Female | <65 | III/IV | Chemotherapy | cisplatin | SD | |
RAB5B | SNV | Missense_Mutation | c.424N>G | p.Met142Val | p.M142V | P61020 | protein_coding | tolerated(0.24) | benign(0) | TCGA-33-AASI-01 | Lung | lung squamous cell carcinoma | Female | >=65 | I/II | Chemotherapy | taxotere | 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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