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Gene: RGMB |
Gene summary for RGMB |
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Gene information | Species | Human | Gene symbol | RGMB | Gene ID | 285704 |
Gene name | repulsive guidance molecule BMP co-receptor b | |
Gene Alias | DRAGON | |
Cytomap | 5q15 | |
Gene Type | protein-coding | GO ID | GO:0006139 | UniProtAcc | J3KNF6 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
285704 | RGMB | A002-C-203 | Human | Colorectum | FAP | 9.77e-07 | -3.41e-01 | 0.2786 |
285704 | RGMB | A001-C-108 | Human | Colorectum | FAP | 1.48e-11 | -4.50e-01 | -0.0272 |
285704 | RGMB | A002-C-021 | Human | Colorectum | FAP | 2.14e-09 | 5.26e-01 | 0.1171 |
285704 | RGMB | A002-C-205 | Human | Colorectum | FAP | 4.40e-08 | -2.49e-01 | -0.1236 |
285704 | RGMB | A015-C-006 | Human | Colorectum | FAP | 2.41e-04 | -1.21e-01 | -0.0994 |
285704 | RGMB | A002-C-114 | Human | Colorectum | FAP | 2.15e-04 | -7.49e-02 | -0.1561 |
285704 | RGMB | A015-C-104 | Human | Colorectum | FAP | 4.72e-11 | 1.81e-01 | -0.1899 |
285704 | RGMB | A001-C-014 | Human | Colorectum | FAP | 2.06e-07 | -3.44e-01 | 0.0135 |
285704 | RGMB | A002-C-016 | Human | Colorectum | FAP | 1.15e-05 | -1.16e-01 | 0.0521 |
285704 | RGMB | A015-C-002 | Human | Colorectum | FAP | 1.28e-04 | -2.16e-01 | -0.0763 |
285704 | RGMB | A002-C-116 | Human | Colorectum | FAP | 2.03e-10 | -1.87e-01 | -0.0452 |
285704 | RGMB | A014-C-008 | Human | Colorectum | FAP | 2.21e-02 | 2.47e-02 | -0.191 |
285704 | RGMB | A018-E-020 | Human | Colorectum | FAP | 1.93e-07 | 2.59e-01 | -0.2034 |
285704 | RGMB | F034 | Human | Colorectum | FAP | 9.09e-06 | -9.83e-02 | -0.0665 |
285704 | RGMB | F072B | Human | Colorectum | FAP | 4.59e-20 | -5.68e-01 | 0.257 |
285704 | RGMB | CRC-1-8810 | Human | Colorectum | CRC | 2.71e-19 | -6.18e-01 | 0.6257 |
285704 | RGMB | LZE4T | Human | Esophagus | ESCC | 1.66e-02 | 3.42e-02 | 0.0811 |
285704 | RGMB | LZE20T | Human | Esophagus | ESCC | 1.41e-03 | 2.70e-02 | 0.0662 |
285704 | RGMB | LZE24T | Human | Esophagus | ESCC | 4.91e-07 | 1.81e-01 | 0.0596 |
285704 | RGMB | LZE21T | Human | Esophagus | ESCC | 1.99e-03 | 5.80e-02 | 0.0655 |
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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:0007178 | Colorectum | AD | transmembrane receptor protein serine/threonine kinase signaling pathway | 99/3918 | 355/18723 | 9.92e-04 | 9.28e-03 | 99 |
GO:00071781 | Colorectum | MSS | transmembrane receptor protein serine/threonine kinase signaling pathway | 86/3467 | 355/18723 | 4.04e-03 | 2.95e-02 | 86 |
GO:00071782 | Colorectum | FAP | transmembrane receptor protein serine/threonine kinase signaling pathway | 81/2622 | 355/18723 | 4.28e-06 | 1.46e-04 | 81 |
GO:0071772 | Colorectum | FAP | response to BMP | 37/2622 | 165/18723 | 2.20e-03 | 1.80e-02 | 37 |
GO:0071773 | Colorectum | FAP | cellular response to BMP stimulus | 37/2622 | 165/18723 | 2.20e-03 | 1.80e-02 | 37 |
GO:0030509 | Colorectum | FAP | BMP signaling pathway | 34/2622 | 152/18723 | 3.38e-03 | 2.47e-02 | 34 |
GO:00071783 | Colorectum | CRC | transmembrane receptor protein serine/threonine kinase signaling pathway | 66/2078 | 355/18723 | 1.74e-05 | 5.28e-04 | 66 |
GO:00305091 | Colorectum | CRC | BMP signaling pathway | 31/2078 | 152/18723 | 5.73e-04 | 7.89e-03 | 31 |
GO:00717721 | Colorectum | CRC | response to BMP | 32/2078 | 165/18723 | 1.16e-03 | 1.33e-02 | 32 |
GO:00717731 | Colorectum | CRC | cellular response to BMP stimulus | 32/2078 | 165/18723 | 1.16e-03 | 1.33e-02 | 32 |
GO:000717810 | Esophagus | ESCC | transmembrane receptor protein serine/threonine kinase signaling pathway | 195/8552 | 355/18723 | 2.58e-04 | 1.58e-03 | 195 |
GO:000717818 | Thyroid | HT | transmembrane receptor protein serine/threonine kinase signaling pathway | 42/1272 | 355/18723 | 3.21e-04 | 4.20e-03 | 42 |
GO:000717819 | Thyroid | PTC | transmembrane receptor protein serine/threonine kinase signaling pathway | 156/5968 | 355/18723 | 1.02e-06 | 1.51e-05 | 156 |
GO:000717823 | Thyroid | ATC | transmembrane receptor protein serine/threonine kinase signaling pathway | 170/6293 | 355/18723 | 1.40e-08 | 2.87e-07 | 170 |
GO:00717726 | Thyroid | ATC | response to BMP | 72/6293 | 165/18723 | 4.50e-03 | 1.86e-02 | 72 |
GO:00717736 | Thyroid | ATC | cellular response to BMP stimulus | 72/6293 | 165/18723 | 4.50e-03 | 1.86e-02 | 72 |
GO:00305095 | Thyroid | ATC | BMP signaling pathway | 66/6293 | 152/18723 | 7.23e-03 | 2.85e-02 | 66 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa04350 | Colorectum | SER | TGF-beta signaling pathway | 31/1580 | 108/8465 | 7.00e-03 | 3.77e-02 | 2.74e-02 | 31 |
hsa043501 | Colorectum | SER | TGF-beta signaling pathway | 31/1580 | 108/8465 | 7.00e-03 | 3.77e-02 | 2.74e-02 | 31 |
hsa043507 | Esophagus | ESCC | TGF-beta signaling pathway | 69/4205 | 108/8465 | 1.92e-03 | 5.54e-03 | 2.84e-03 | 69 |
hsa0435014 | Esophagus | ESCC | TGF-beta signaling pathway | 69/4205 | 108/8465 | 1.92e-03 | 5.54e-03 | 2.84e-03 | 69 |
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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 |
RGMB | SNV | Missense_Mutation | rs554337453 | c.1373G>A | p.Arg458His | p.R458H | protein_coding | tolerated(0.14) | benign(0) | TCGA-5L-AAT0-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD | |
RGMB | SNV | Missense_Mutation | novel | c.645N>A | p.Phe215Leu | p.F215L | protein_coding | deleterious(0) | probably_damaging(0.994) | TCGA-AC-A3TM-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | cytoxan | CR | |
RGMB | SNV | Missense_Mutation | c.904G>T | p.Val302Leu | p.V302L | protein_coding | tolerated(0.54) | benign(0.003) | TCGA-AA-3715-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD | ||
RGMB | SNV | Missense_Mutation | novel | c.863N>T | p.Thr288Ile | p.T288I | protein_coding | deleterious(0) | possibly_damaging(0.51) | TCGA-AA-3811-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD | |
RGMB | SNV | Missense_Mutation | c.1313N>T | p.Ala438Val | p.A438V | protein_coding | tolerated(0.21) | benign(0.031) | TCGA-AA-3811-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD | ||
RGMB | SNV | Missense_Mutation | novel | c.863N>T | p.Thr288Ile | p.T288I | protein_coding | deleterious(0) | possibly_damaging(0.51) | TCGA-AA-3877-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
RGMB | SNV | Missense_Mutation | rs527774662 | c.1139N>A | p.Arg380His | p.R380H | protein_coding | tolerated(0.22) | benign(0.001) | TCGA-AD-6964-01 | Colorectum | colon adenocarcinoma | Male | <65 | III/IV | Chemotherapy | folfox | PD | |
RGMB | SNV | Missense_Mutation | rs550569565 | c.1282N>A | p.Ala428Thr | p.A428T | protein_coding | deleterious(0) | benign(0.209) | TCGA-F5-6814-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
RGMB | insertion | Frame_Shift_Ins | novel | c.775_776insT | p.Ile260TyrfsTer7 | p.I260Yfs*7 | protein_coding | TCGA-A6-6140-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | SD | |||
RGMB | insertion | Frame_Shift_Ins | novel | c.1298_1299insG | p.Glu434GlyfsTer29 | p.E434Gfs*29 | protein_coding | TCGA-AA-A01C-01 | Colorectum | colon adenocarcinoma | Male | >=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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