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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 | P54T-E | Human | Esophagus | ESCC | 2.59e-13 | 2.50e-01 | 0.0975 |
| 494115 | RBMXL1 | P56T-E | Human | Esophagus | ESCC | 5.52e-04 | 6.95e-01 | 0.1613 |
| 494115 | RBMXL1 | P57T-E | Human | Esophagus | ESCC | 3.91e-11 | 2.14e-01 | 0.0926 |
| 494115 | RBMXL1 | P61T-E | Human | Esophagus | ESCC | 2.89e-10 | 1.60e-01 | 0.099 |
| 494115 | RBMXL1 | P62T-E | Human | Esophagus | ESCC | 7.07e-42 | 7.35e-01 | 0.1302 |
| 494115 | RBMXL1 | P65T-E | Human | Esophagus | ESCC | 5.72e-11 | 2.26e-01 | 0.0978 |
| 494115 | RBMXL1 | P74T-E | Human | Esophagus | ESCC | 3.41e-19 | 4.10e-01 | 0.1479 |
| 494115 | RBMXL1 | P75T-E | Human | Esophagus | ESCC | 8.49e-24 | 4.71e-01 | 0.1125 |
| 494115 | RBMXL1 | P76T-E | Human | Esophagus | ESCC | 5.94e-15 | 2.44e-01 | 0.1207 |
| 494115 | RBMXL1 | P79T-E | Human | Esophagus | ESCC | 4.39e-19 | 2.54e-01 | 0.1154 |
| 494115 | RBMXL1 | P80T-E | Human | Esophagus | ESCC | 6.53e-26 | 7.76e-01 | 0.155 |
| 494115 | RBMXL1 | P82T-E | Human | Esophagus | ESCC | 6.10e-03 | 2.26e-01 | 0.1072 |
| 494115 | RBMXL1 | P83T-E | Human | Esophagus | ESCC | 5.62e-17 | 4.63e-01 | 0.1738 |
| 494115 | RBMXL1 | P89T-E | Human | Esophagus | ESCC | 1.31e-06 | 4.50e-01 | 0.1752 |
| 494115 | RBMXL1 | P91T-E | Human | Esophagus | ESCC | 1.13e-06 | 4.41e-01 | 0.1828 |
| 494115 | RBMXL1 | P104T-E | Human | Esophagus | ESCC | 1.32e-02 | 9.39e-02 | 0.0931 |
| 494115 | RBMXL1 | P107T-E | Human | Esophagus | ESCC | 1.99e-14 | 2.32e-01 | 0.171 |
| 494115 | RBMXL1 | P126T-E | Human | Esophagus | ESCC | 1.40e-03 | 4.60e-01 | 0.1125 |
| 494115 | RBMXL1 | P127T-E | Human | Esophagus | ESCC | 1.74e-21 | 3.94e-01 | 0.0826 |
| 494115 | RBMXL1 | P128T-E | Human | Esophagus | ESCC | 4.36e-18 | 5.37e-01 | 0.1241 |
| Page: 1 2 3 4 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma | ||
| Skin |  | AK: Actinic keratosis |
| cSCC: Cutaneous squamous cell carcinoma | ||
| SCCIS:squamous cell carcinoma in situ |
| ∗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). |
| 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: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 |
| Page: 1 |
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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 |
| Page: 1 |
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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. |
| Page: 1 |
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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 | c.479C>G | p.Pro160Arg | p.P160R | Q96E39 | protein_coding | deleterious(0) | probably_damaging(0.913) | TCGA-3C-AALK-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | docetaxel | SD | |
| RBMXL1 | SNV | Missense_Mutation | novel | c.417N>G | p.Asn139Lys | p.N139K | Q96E39 | protein_coding | tolerated(0.43) | benign(0.01) | TCGA-S3-AA10-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | cytoxan | CR |
| RBMXL1 | SNV | Missense_Mutation | rs199719717 | c.925C>T | p.Arg309Cys | p.R309C | Q96E39 | protein_coding | tolerated(0.12) | possibly_damaging(0.68) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| RBMXL1 | SNV | Missense_Mutation | novel | c.1133N>A | p.Gly378Glu | p.G378E | Q96E39 | protein_coding | tolerated(0.27) | possibly_damaging(0.861) | TCGA-IR-A3LA-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| RBMXL1 | SNV | Missense_Mutation | novel | c.668N>C | p.Arg223Thr | p.R223T | Q96E39 | protein_coding | deleterious(0) | benign(0.33) | TCGA-JW-A5VL-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
| RBMXL1 | SNV | Missense_Mutation | novel | c.77C>T | p.Thr26Ile | p.T26I | Q96E39 | protein_coding | deleterious(0) | benign(0.026) | TCGA-VS-A953-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | PD |
| RBMXL1 | SNV | Missense_Mutation | rs748002776 | c.716N>A | p.Arg239Gln | p.R239Q | Q96E39 | protein_coding | deleterious(0.02) | possibly_damaging(0.73) | TCGA-ZJ-AAXT-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Unknown | Unknown | SD |
| RBMXL1 | SNV | Missense_Mutation | rs549912567 | c.992N>A | p.Arg331Gln | p.R331Q | Q96E39 | protein_coding | tolerated(0.16) | benign(0.313) | TCGA-AA-A010-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Chemotherapy | folinic | CR |
| RBMXL1 | SNV | Missense_Mutation | rs374309282 | c.754N>T | p.Arg252Cys | p.R252C | Q96E39 | protein_coding | deleterious(0) | probably_damaging(0.912) | TCGA-AY-6197-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
| RBMXL1 | SNV | Missense_Mutation | rs549912567 | c.992G>A | p.Arg331Gln | p.R331Q | Q96E39 | protein_coding | tolerated(0.16) | benign(0.313) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
| Page: 1 2 3 4 5 |
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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 |
| Page: 1 |
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