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Gene: LSM14B |
Gene summary for LSM14B |
Gene summary. |
Gene information | Species | Human | Gene symbol | LSM14B | Gene ID | 149986 |
Gene name | LSM family member 14B | |
Gene Alias | C20orf40 | |
Cytomap | 20q13.33 | |
Gene Type | protein-coding | GO ID | GO:0006412 | UniProtAcc | Q9BX40 |
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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 |
149986 | LSM14B | LZE2T | Human | Esophagus | ESCC | 1.47e-04 | 3.17e-01 | 0.082 |
149986 | LSM14B | LZE7T | Human | Esophagus | ESCC | 5.57e-03 | 9.39e-02 | 0.0667 |
149986 | LSM14B | LZE24T | Human | Esophagus | ESCC | 3.18e-07 | 5.35e-02 | 0.0596 |
149986 | LSM14B | P2T-E | Human | Esophagus | ESCC | 1.89e-09 | 1.50e-01 | 0.1177 |
149986 | LSM14B | P4T-E | Human | Esophagus | ESCC | 9.63e-11 | 1.24e-01 | 0.1323 |
149986 | LSM14B | P5T-E | Human | Esophagus | ESCC | 2.61e-06 | 1.04e-01 | 0.1327 |
149986 | LSM14B | P8T-E | Human | Esophagus | ESCC | 1.53e-07 | 6.05e-02 | 0.0889 |
149986 | LSM14B | P9T-E | Human | Esophagus | ESCC | 2.25e-06 | 4.15e-02 | 0.1131 |
149986 | LSM14B | P10T-E | Human | Esophagus | ESCC | 2.37e-14 | 1.94e-01 | 0.116 |
149986 | LSM14B | P11T-E | Human | Esophagus | ESCC | 1.29e-10 | 1.77e-01 | 0.1426 |
149986 | LSM14B | P12T-E | Human | Esophagus | ESCC | 9.20e-10 | 2.06e-01 | 0.1122 |
149986 | LSM14B | P15T-E | Human | Esophagus | ESCC | 5.98e-10 | 1.18e-01 | 0.1149 |
149986 | LSM14B | P16T-E | Human | Esophagus | ESCC | 1.29e-18 | 1.58e-01 | 0.1153 |
149986 | LSM14B | P17T-E | Human | Esophagus | ESCC | 6.01e-03 | 7.85e-02 | 0.1278 |
149986 | LSM14B | P20T-E | Human | Esophagus | ESCC | 8.07e-15 | 2.05e-01 | 0.1124 |
149986 | LSM14B | P21T-E | Human | Esophagus | ESCC | 2.52e-11 | 1.18e-01 | 0.1617 |
149986 | LSM14B | P22T-E | Human | Esophagus | ESCC | 1.06e-05 | 7.81e-02 | 0.1236 |
149986 | LSM14B | P23T-E | Human | Esophagus | ESCC | 1.94e-16 | 1.61e-01 | 0.108 |
149986 | LSM14B | P24T-E | Human | Esophagus | ESCC | 1.06e-03 | 1.20e-01 | 0.1287 |
149986 | LSM14B | P26T-E | Human | Esophagus | ESCC | 5.57e-10 | 1.28e-01 | 0.1276 |
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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). |
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Enriched GO biological processes. |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:0006417111 | Esophagus | ESCC | regulation of translation | 304/8552 | 468/18723 | 1.53e-17 | 1.33e-15 | 304 |
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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 |
LSM14B | SNV | Missense_Mutation | rs757010057 | c.1060C>T | p.Arg354Cys | p.R354C | Q9BX40 | protein_coding | deleterious(0.01) | probably_damaging(0.996) | TCGA-FI-A2D5-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | carboplatinum | PD |
LSM14B | SNV | Missense_Mutation | c.313G>T | p.Ala105Ser | p.A105S | Q9BX40 | protein_coding | tolerated(0.98) | benign(0.003) | TCGA-43-6143-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Other, specify in notesVaccine | recmage3-as+as15 | SD | |
LSM14B | SNV | Missense_Mutation | novel | c.94N>C | p.Asp32His | p.D32H | Q9BX40 | protein_coding | deleterious(0) | possibly_damaging(0.743) | TCGA-56-7221-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
LSM14B | SNV | Missense_Mutation | rs754027553 | c.892N>A | p.Glu298Lys | p.E298K | Q9BX40 | protein_coding | deleterious(0.01) | benign(0.18) | TCGA-CV-6961-01 | Oral cavity | head & neck squamous cell carcinoma | Male | <65 | I/II | Unknown | Unknown | PD |
LSM14B | SNV | Missense_Mutation | novel | c.791N>A | p.Arg264Gln | p.R264Q | Q9BX40 | protein_coding | deleterious(0) | probably_damaging(0.994) | TCGA-QK-A8ZB-01 | Oral cavity | head & neck squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
LSM14B | insertion | Frame_Shift_Ins | novel | c.23dupC | p.Tyr9ValfsTer41 | p.Y9Vfs*41 | Q9BX40 | protein_coding | TCGA-CV-A461-01 | Oral cavity | head & neck squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | ||
LSM14B | SNV | Missense_Mutation | c.1148N>T | p.Gly383Val | p.G383V | Q9BX40 | protein_coding | deleterious_low_confidence(0) | possibly_damaging(0.723) | TCGA-HC-A4ZV-01 | Prostate | prostate adenocarcinoma | Male | <65 | 9 | Unknown | Unknown | SD | |
LSM14B | SNV | Missense_Mutation | novel | c.280N>A | p.Ala94Thr | p.A94T | Q9BX40 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-BR-4370-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
LSM14B | SNV | Missense_Mutation | c.317C>T | p.Ser106Leu | p.S106L | Q9BX40 | protein_coding | tolerated(0.21) | benign(0.026) | TCGA-CG-4306-01 | Stomach | stomach adenocarcinoma | Male | >=65 | III/IV | Unknown | Unknown | SD | |
LSM14B | SNV | Missense_Mutation | c.947A>C | p.Lys316Thr | p.K316T | Q9BX40 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-HU-A4GH-01 | Stomach | stomach adenocarcinoma | Male | >=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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