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Gene: L3MBTL4 |
Gene summary for L3MBTL4 |
Gene summary. |
Gene information | Species | Human | Gene symbol | L3MBTL4 | Gene ID | 91133 |
Gene name | L3MBTL histone methyl-lysine binding protein 4 | |
Gene Alias | HsT1031 | |
Cytomap | 18p11.31 | |
Gene Type | protein-coding | GO ID | GO:0006139 | UniProtAcc | F8W9S8 |
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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 |
91133 | L3MBTL4 | HTA11_3410_2000001011 | Human | Colorectum | AD | 2.24e-13 | -5.78e-01 | 0.0155 |
91133 | L3MBTL4 | HTA11_2487_2000001011 | Human | Colorectum | SER | 2.95e-08 | -6.38e-01 | -0.1808 |
91133 | L3MBTL4 | HTA11_347_2000001011 | Human | Colorectum | AD | 1.77e-02 | -4.33e-01 | -0.1954 |
91133 | L3MBTL4 | HTA11_3361_2000001011 | Human | Colorectum | AD | 1.80e-05 | -6.36e-01 | -0.1207 |
91133 | L3MBTL4 | HTA11_83_2000001011 | Human | Colorectum | SER | 1.64e-02 | -5.50e-01 | -0.1526 |
91133 | L3MBTL4 | HTA11_696_2000001011 | Human | Colorectum | AD | 1.65e-17 | -5.69e-01 | -0.1464 |
91133 | L3MBTL4 | HTA11_866_2000001011 | Human | Colorectum | AD | 4.17e-08 | -4.33e-01 | -0.1001 |
91133 | L3MBTL4 | HTA11_1391_2000001011 | Human | Colorectum | AD | 2.95e-06 | -5.62e-01 | -0.059 |
91133 | L3MBTL4 | HTA11_5212_2000001011 | Human | Colorectum | AD | 3.48e-02 | -6.82e-01 | -0.2061 |
91133 | L3MBTL4 | HTA11_7862_2000001011 | Human | Colorectum | AD | 1.41e-03 | -6.79e-01 | -0.0179 |
91133 | L3MBTL4 | HTA11_866_3004761011 | Human | Colorectum | AD | 2.53e-07 | -5.59e-01 | 0.096 |
91133 | L3MBTL4 | HTA11_8622_2000001021 | Human | Colorectum | SER | 1.93e-02 | -6.64e-01 | 0.0528 |
91133 | L3MBTL4 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 2.02e-02 | -2.63e-01 | 0.294 |
91133 | L3MBTL4 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 8.35e-04 | -5.79e-01 | 0.281 |
91133 | L3MBTL4 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 1.63e-09 | -4.34e-01 | 0.3859 |
91133 | L3MBTL4 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 4.54e-11 | -4.27e-01 | 0.3005 |
91133 | L3MBTL4 | A015-C-203 | Human | Colorectum | FAP | 3.54e-19 | -1.18e-01 | -0.1294 |
91133 | L3MBTL4 | A015-C-204 | Human | Colorectum | FAP | 2.65e-03 | 1.35e-01 | -0.0228 |
91133 | L3MBTL4 | A014-C-040 | Human | Colorectum | FAP | 3.17e-07 | -7.35e-01 | -0.1184 |
91133 | L3MBTL4 | A002-C-201 | Human | Colorectum | FAP | 4.04e-10 | -2.50e-01 | 0.0324 |
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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:0006325 | Colorectum | AD | chromatin organization | 119/3918 | 409/18723 | 4.85e-05 | 8.33e-04 | 119 |
GO:00063251 | Colorectum | SER | chromatin organization | 89/2897 | 409/18723 | 4.15e-04 | 6.17e-03 | 89 |
GO:00063252 | Colorectum | MSS | chromatin organization | 107/3467 | 409/18723 | 7.22e-05 | 1.21e-03 | 107 |
GO:00063253 | Colorectum | FAP | chromatin organization | 84/2622 | 409/18723 | 1.62e-04 | 2.47e-03 | 84 |
GO:00063254 | Colorectum | CRC | chromatin organization | 74/2078 | 409/18723 | 1.48e-05 | 4.61e-04 | 74 |
GO:00063258 | Endometrium | AEH | chromatin organization | 64/2100 | 409/18723 | 3.69e-03 | 2.52e-02 | 64 |
GO:000632513 | Endometrium | EEC | chromatin organization | 65/2168 | 409/18723 | 4.98e-03 | 3.14e-02 | 65 |
GO:00063255 | Liver | NAFLD | chromatin organization | 64/1882 | 409/18723 | 2.31e-04 | 3.89e-03 | 64 |
GO:000632511 | Liver | HCC | chromatin organization | 206/7958 | 409/18723 | 7.23e-04 | 4.41e-03 | 206 |
GO:00063256 | Lung | IAC | chromatin organization | 69/2061 | 409/18723 | 2.01e-04 | 3.53e-03 | 69 |
GO:000632512 | Lung | AIS | chromatin organization | 62/1849 | 409/18723 | 4.24e-04 | 7.29e-03 | 62 |
GO:00063259 | Prostate | BPH | chromatin organization | 101/3107 | 409/18723 | 1.52e-05 | 1.94e-04 | 101 |
GO:000632518 | Skin | AK | chromatin organization | 73/1910 | 409/18723 | 1.40e-06 | 4.26e-05 | 73 |
GO:000632519 | Skin | cSCC | chromatin organization | 147/4864 | 409/18723 | 4.41e-06 | 6.52e-05 | 147 |
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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 |
L3MBTL4 | SNV | Missense_Mutation | rs761891239 | c.661C>T | p.Arg221Cys | p.R221C | Q8NA19 | protein_coding | deleterious(0.01) | probably_damaging(0.976) | TCGA-DM-A28F-01 | Colorectum | colon adenocarcinoma | Male | >=65 | III/IV | Unknown | Unknown | SD |
L3MBTL4 | SNV | Missense_Mutation | c.1669G>A | p.Gly557Ser | p.G557S | Q8NA19 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-G4-6317-01 | Colorectum | colon adenocarcinoma | Female | <65 | III/IV | Chemotherapy | fluorouracil | PD | |
L3MBTL4 | SNV | Missense_Mutation | rs756896807 | c.635C>T | p.Ala212Val | p.A212V | Q8NA19 | protein_coding | deleterious(0.02) | probably_damaging(0.982) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
L3MBTL4 | SNV | Missense_Mutation | c.172N>G | p.Leu58Val | p.L58V | Q8NA19 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-AG-A026-01 | Colorectum | rectum adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD | |
L3MBTL4 | SNV | Missense_Mutation | rs749722357 | c.1258N>T | p.Arg420Cys | p.R420C | Q8NA19 | protein_coding | deleterious(0.02) | benign(0.341) | TCGA-F5-6814-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
L3MBTL4 | SNV | Missense_Mutation | novel | c.151N>A | p.Ala51Thr | p.A51T | Q8NA19 | protein_coding | tolerated(0.37) | benign(0.003) | TCGA-F5-6814-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
L3MBTL4 | deletion | Frame_Shift_Del | c.1545delN | p.Arg516GlyfsTer63 | p.R516Gfs*63 | Q8NA19 | protein_coding | TCGA-CK-5916-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | PD | |||
L3MBTL4 | SNV | Missense_Mutation | rs758794589 | c.1100N>T | p.Thr367Met | p.T367M | Q8NA19 | protein_coding | deleterious(0.01) | possibly_damaging(0.505) | TCGA-A5-A0G1-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
L3MBTL4 | SNV | Missense_Mutation | novel | c.193N>A | p.Ala65Thr | p.A65T | Q8NA19 | protein_coding | tolerated(0.14) | probably_damaging(0.99) | TCGA-A5-A1OF-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
L3MBTL4 | SNV | Missense_Mutation | rs368389000 | c.1517C>T | p.Ser506Phe | p.S506F | Q8NA19 | protein_coding | tolerated(1) | benign(0) | TCGA-A5-A2K5-01 | Endometrium | uterine corpus endometrioid carcinoma | 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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