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Gene: RBMXL1 |
Gene summary for RBMXL1 |
Gene summary. |
Gene information | Species | Human | Gene symbol | RBMXL1 | Gene ID | 494115 |
Gene name | RBMX like 1 | |
Gene Alias | RBM1 | |
Cytomap | 1p22.2 | |
Gene Type | protein-coding | GO ID | GO:0000245 | UniProtAcc | Q96E39 |
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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 |
494115 | RBMXL1 | LZE4T | Human | Esophagus | ESCC | 1.27e-09 | 1.88e-01 | 0.0811 |
494115 | RBMXL1 | LZE7T | Human | Esophagus | ESCC | 4.16e-02 | 2.27e-01 | 0.0667 |
494115 | RBMXL1 | LZE8T | Human | Esophagus | ESCC | 1.65e-08 | 2.02e-01 | 0.067 |
494115 | RBMXL1 | LZE22T | Human | Esophagus | ESCC | 1.52e-02 | 1.49e-01 | 0.068 |
494115 | RBMXL1 | LZE24T | Human | Esophagus | ESCC | 3.04e-12 | 2.56e-01 | 0.0596 |
494115 | RBMXL1 | LZE6T | Human | Esophagus | ESCC | 2.56e-04 | 1.46e-01 | 0.0845 |
494115 | RBMXL1 | P1T-E | Human | Esophagus | ESCC | 3.79e-04 | 2.04e-01 | 0.0875 |
494115 | RBMXL1 | P2T-E | Human | Esophagus | ESCC | 7.15e-33 | 5.41e-01 | 0.1177 |
494115 | RBMXL1 | P4T-E | Human | Esophagus | ESCC | 6.84e-13 | 2.96e-01 | 0.1323 |
494115 | RBMXL1 | P5T-E | Human | Esophagus | ESCC | 2.02e-12 | 1.24e-01 | 0.1327 |
494115 | RBMXL1 | P8T-E | Human | Esophagus | ESCC | 2.59e-16 | 2.47e-01 | 0.0889 |
494115 | RBMXL1 | P9T-E | Human | Esophagus | ESCC | 1.23e-13 | 2.04e-01 | 0.1131 |
494115 | RBMXL1 | P10T-E | Human | Esophagus | ESCC | 3.79e-12 | 2.15e-01 | 0.116 |
494115 | RBMXL1 | P11T-E | Human | Esophagus | ESCC | 4.53e-07 | 2.07e-01 | 0.1426 |
494115 | RBMXL1 | P12T-E | Human | Esophagus | ESCC | 6.16e-67 | 1.22e+00 | 0.1122 |
494115 | RBMXL1 | P15T-E | Human | Esophagus | ESCC | 2.24e-14 | 2.26e-01 | 0.1149 |
494115 | RBMXL1 | P16T-E | Human | Esophagus | ESCC | 2.26e-16 | 1.91e-01 | 0.1153 |
494115 | RBMXL1 | P17T-E | Human | Esophagus | ESCC | 1.22e-02 | 1.49e-01 | 0.1278 |
494115 | RBMXL1 | P19T-E | Human | Esophagus | ESCC | 1.04e-03 | 3.02e-01 | 0.1662 |
494115 | RBMXL1 | P20T-E | Human | Esophagus | ESCC | 1.95e-12 | 3.22e-01 | 0.1124 |
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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. |
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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). |
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Enriched GO biological processes. |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:0022613111 | Esophagus | ESCC | ribonucleoprotein complex biogenesis | 365/8552 | 463/18723 | 1.74e-49 | 1.11e-45 | 365 |
GO:0008380111 | Esophagus | ESCC | RNA splicing | 336/8552 | 434/18723 | 1.74e-42 | 3.67e-39 | 336 |
GO:0000375111 | Esophagus | ESCC | RNA splicing, via transesterification reactions | 248/8552 | 324/18723 | 3.05e-30 | 1.49e-27 | 248 |
GO:0000377111 | Esophagus | ESCC | RNA splicing, via transesterification reactions with bulged adenosine as nucleophile | 244/8552 | 320/18723 | 2.52e-29 | 1.07e-26 | 244 |
GO:0000398111 | Esophagus | ESCC | mRNA splicing, via spliceosome | 244/8552 | 320/18723 | 2.52e-29 | 1.07e-26 | 244 |
GO:1903311110 | Esophagus | ESCC | regulation of mRNA metabolic process | 210/8552 | 288/18723 | 3.25e-21 | 5.56e-19 | 210 |
GO:0071826111 | Esophagus | ESCC | ribonucleoprotein complex subunit organization | 166/8552 | 227/18723 | 2.94e-17 | 2.42e-15 | 166 |
GO:0043484111 | Esophagus | ESCC | regulation of RNA splicing | 116/8552 | 148/18723 | 3.18e-16 | 2.38e-14 | 116 |
GO:0050684110 | Esophagus | ESCC | regulation of mRNA processing | 109/8552 | 137/18723 | 3.51e-16 | 2.59e-14 | 109 |
GO:0022618111 | Esophagus | ESCC | ribonucleoprotein complex assembly | 159/8552 | 220/18723 | 8.19e-16 | 5.71e-14 | 159 |
GO:0048024111 | Esophagus | ESCC | regulation of mRNA splicing, via spliceosome | 78/8552 | 101/18723 | 8.72e-11 | 2.66e-09 | 78 |
GO:190331316 | Esophagus | ESCC | positive regulation of mRNA metabolic process | 87/8552 | 118/18723 | 5.10e-10 | 1.32e-08 | 87 |
GO:0033120110 | Esophagus | ESCC | positive regulation of RNA splicing | 29/8552 | 37/18723 | 4.97e-05 | 3.86e-04 | 29 |
GO:005068514 | Esophagus | ESCC | positive regulation of mRNA processing | 25/8552 | 32/18723 | 1.84e-04 | 1.17e-03 | 25 |
GO:004802617 | Esophagus | ESCC | positive regulation of mRNA splicing, via spliceosome | 17/8552 | 22/18723 | 2.60e-03 | 1.11e-02 | 17 |
GO:000024514 | Esophagus | ESCC | spliceosomal complex assembly | 48/8552 | 79/18723 | 4.93e-03 | 1.89e-02 | 48 |
GO:002261320 | Oral cavity | OSCC | ribonucleoprotein complex biogenesis | 333/7305 | 463/18723 | 8.28e-48 | 5.24e-44 | 333 |
GO:000838020 | Oral cavity | OSCC | RNA splicing | 308/7305 | 434/18723 | 2.43e-42 | 7.70e-39 | 308 |
GO:000037519 | Oral cavity | OSCC | RNA splicing, via transesterification reactions | 225/7305 | 324/18723 | 5.20e-29 | 2.99e-26 | 225 |
GO:000037719 | Oral cavity | OSCC | RNA splicing, via transesterification reactions with bulged adenosine as nucleophile | 221/7305 | 320/18723 | 5.50e-28 | 2.18e-25 | 221 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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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 |
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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 |
∗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 |
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 |
RBMXL1 | SNV | Missense_Mutation | novel | c.148G>A | p.Gly50Arg | p.G50R | Q96E39 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-XK-AAIW-01 | Prostate | prostate adenocarcinoma | Male | >=65 | 9 | Unknown | Unknown | PD |
RBMXL1 | SNV | Missense_Mutation | novel | c.4G>C | p.Val2Leu | p.V2L | Q96E39 | protein_coding | deleterious(0.05) | benign(0.028) | TCGA-BR-8485-01 | Stomach | stomach adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
RBMXL1 | SNV | Missense_Mutation | rs768543094 | c.17N>A | p.Arg6His | p.R6H | Q96E39 | protein_coding | tolerated(0.31) | benign(0.006) | TCGA-CG-4460-01 | Stomach | stomach adenocarcinoma | Female | >=65 | III/IV | Chemotherapy | capecitabine | PD |
RBMXL1 | SNV | Missense_Mutation | c.514N>T | p.Arg172Cys | p.R172C | Q96E39 | protein_coding | deleterious(0.03) | benign(0.026) | TCGA-HF-A5NB-01 | Stomach | stomach adenocarcinoma | Female | >=65 | III/IV | Chemotherapy | fluorouracil | SD | |
RBMXL1 | insertion | In_Frame_Ins | novel | c.357_358insGAG | p.Thr119_Arg120insGlu | p.T119_R120insE | Q96E39 | protein_coding | TCGA-FY-A4B0-01 | Thyroid | thyroid carcinoma | Male | >=65 | I/II | Hormone Therapy | synthroid | SD | ||
RBMXL1 | insertion | Frame_Shift_Ins | novel | c.356_357insATCTCTA | p.Arg120SerfsTer14 | p.R120Sfs*14 | Q96E39 | protein_coding | TCGA-FY-A4B0-01 | Thyroid | thyroid carcinoma | Male | >=65 | I/II | Hormone Therapy | synthroid | SD |
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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 |
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