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Gene: TMEM59L |
Gene summary for TMEM59L |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | TMEM59L | Gene ID | 25789 |
| Gene name | transmembrane protein 59 like | |
| Gene Alias | BSMAP | |
| Cytomap | 19p13.11 | |
| Gene Type | protein-coding | GO ID | GO:0000139 | UniProtAcc | A0A024R7L4 |
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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 |
| 25789 | TMEM59L | P2T-E | Human | Esophagus | ESCC | 8.40e-04 | 1.21e-01 | 0.1177 |
| 25789 | TMEM59L | P10T-E | Human | Esophagus | ESCC | 8.40e-04 | 1.50e-01 | 0.116 |
| 25789 | TMEM59L | P11T-E | Human | Esophagus | ESCC | 6.27e-12 | 8.16e-01 | 0.1426 |
| 25789 | TMEM59L | P16T-E | Human | Esophagus | ESCC | 1.00e-24 | 4.59e-01 | 0.1153 |
| 25789 | TMEM59L | P19T-E | Human | Esophagus | ESCC | 2.95e-08 | 8.55e-01 | 0.1662 |
| 25789 | TMEM59L | P24T-E | Human | Esophagus | ESCC | 1.96e-05 | 2.77e-01 | 0.1287 |
| 25789 | TMEM59L | P28T-E | Human | Esophagus | ESCC | 3.97e-04 | 1.31e-01 | 0.1149 |
| 25789 | TMEM59L | P32T-E | Human | Esophagus | ESCC | 9.02e-11 | 5.53e-01 | 0.1666 |
| 25789 | TMEM59L | P44T-E | Human | Esophagus | ESCC | 2.47e-02 | 2.22e-01 | 0.1096 |
| 25789 | TMEM59L | P56T-E | Human | Esophagus | ESCC | 2.17e-07 | 7.36e-01 | 0.1613 |
| 25789 | TMEM59L | P57T-E | Human | Esophagus | ESCC | 4.41e-07 | 3.36e-01 | 0.0926 |
| 25789 | TMEM59L | P61T-E | Human | Esophagus | ESCC | 3.94e-04 | 1.54e-01 | 0.099 |
| 25789 | TMEM59L | P74T-E | Human | Esophagus | ESCC | 1.42e-04 | 1.69e-01 | 0.1479 |
| 25789 | TMEM59L | P76T-E | Human | Esophagus | ESCC | 1.35e-23 | 5.10e-01 | 0.1207 |
| 25789 | TMEM59L | P79T-E | Human | Esophagus | ESCC | 1.76e-12 | 2.55e-01 | 0.1154 |
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| 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 |
| ∗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 |
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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 |
| TMEM59L | SNV | Missense_Mutation | c.812C>A | p.Ala271Asp | p.A271D | Q9UK28 | protein_coding | deleterious(0) | probably_damaging(0.965) | TCGA-AO-A128-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | SD | |
| TMEM59L | SNV | Missense_Mutation | rs752463223 | c.943N>A | p.Asp315Asn | p.D315N | Q9UK28 | protein_coding | tolerated(0.15) | benign(0) | TCGA-BH-A0DZ-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | docetaxel | SD |
| TMEM59L | SNV | Missense_Mutation | novel | c.890N>A | p.Leu297His | p.L297H | Q9UK28 | protein_coding | deleterious(0) | probably_damaging(0.944) | TCGA-BH-A8FZ-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| TMEM59L | SNV | Missense_Mutation | c.740N>T | p.Ser247Phe | p.S247F | Q9UK28 | protein_coding | deleterious(0.04) | possibly_damaging(0.461) | TCGA-C8-A1HM-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | doxorubicin | CR | |
| TMEM59L | SNV | Missense_Mutation | c.415N>T | p.Val139Phe | p.V139F | Q9UK28 | protein_coding | deleterious(0.04) | possibly_damaging(0.652) | TCGA-C8-A274-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD | |
| TMEM59L | deletion | Frame_Shift_Del | novel | c.815delN | p.Cys272SerfsTer9 | p.C272Sfs*9 | Q9UK28 | protein_coding | TCGA-EW-A2FV-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | docetaxel | SD | ||
| TMEM59L | SNV | Missense_Mutation | rs756648449 | c.661G>A | p.Val221Met | p.V221M | Q9UK28 | protein_coding | tolerated(0.38) | benign(0.039) | TCGA-AA-3672-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
| TMEM59L | SNV | Missense_Mutation | rs559064692 | c.245G>A | p.Arg82His | p.R82H | Q9UK28 | protein_coding | deleterious(0.01) | probably_damaging(0.999) | TCGA-AD-6895-01 | Colorectum | colon adenocarcinoma | Male | >=65 | III/IV | Unknown | Unknown | SD |
| TMEM59L | SNV | Missense_Mutation | c.719N>A | p.Ser240Asn | p.S240N | Q9UK28 | protein_coding | tolerated(0.47) | possibly_damaging(0.557) | TCGA-G4-6320-01 | Colorectum | colon adenocarcinoma | Male | >=65 | III/IV | Chemotherapy | oxaliplatin | SD | |
| TMEM59L | SNV | Missense_Mutation | novel | c.967N>C | p.Ser323Pro | p.S323P | Q9UK28 | protein_coding | tolerated(0.22) | benign(0) | TCGA-WS-AB45-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | 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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