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Gene: LARP1B |
Gene summary for LARP1B |
Gene summary. |
Gene information | Species | Human | Gene symbol | LARP1B | Gene ID | 55132 |
Gene name | La ribonucleoprotein 1B | |
Gene Alias | LARP2 | |
Cytomap | 4q28.2 | |
Gene Type | protein-coding | GO ID | GO:0005575 | UniProtAcc | Q659C4 |
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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 |
55132 | LARP1B | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.86e-13 | -5.64e-01 | 0.0155 |
55132 | LARP1B | HTA11_347_2000001011 | Human | Colorectum | AD | 2.82e-04 | 4.11e-01 | -0.1954 |
55132 | LARP1B | HTA11_3361_2000001011 | Human | Colorectum | AD | 1.73e-03 | -4.69e-01 | -0.1207 |
55132 | LARP1B | HTA11_7862_2000001011 | Human | Colorectum | AD | 3.77e-03 | -5.66e-01 | -0.0179 |
55132 | LARP1B | HTA11_866_3004761011 | Human | Colorectum | AD | 9.94e-11 | -6.00e-01 | 0.096 |
55132 | LARP1B | HTA11_10711_2000001011 | Human | Colorectum | AD | 1.30e-05 | -4.79e-01 | 0.0338 |
55132 | LARP1B | HTA11_99999970781_79442 | Human | Colorectum | MSS | 1.82e-08 | -4.22e-01 | 0.294 |
55132 | LARP1B | HTA11_99999974143_84620 | Human | Colorectum | MSS | 9.37e-12 | -5.38e-01 | 0.3005 |
55132 | LARP1B | F007 | Human | Colorectum | FAP | 6.83e-05 | -4.12e-01 | 0.1176 |
55132 | LARP1B | A001-C-207 | Human | Colorectum | FAP | 1.05e-05 | -3.49e-01 | 0.1278 |
55132 | LARP1B | A015-C-203 | Human | Colorectum | FAP | 3.05e-31 | -6.23e-01 | -0.1294 |
55132 | LARP1B | A015-C-204 | Human | Colorectum | FAP | 2.53e-06 | -3.31e-01 | -0.0228 |
55132 | LARP1B | A014-C-040 | Human | Colorectum | FAP | 2.89e-06 | -5.14e-01 | -0.1184 |
55132 | LARP1B | A002-C-201 | Human | Colorectum | FAP | 1.08e-16 | -4.35e-01 | 0.0324 |
55132 | LARP1B | A001-C-119 | Human | Colorectum | FAP | 5.18e-10 | -5.26e-01 | -0.1557 |
55132 | LARP1B | A001-C-108 | Human | Colorectum | FAP | 2.43e-12 | -2.70e-01 | -0.0272 |
55132 | LARP1B | A002-C-205 | Human | Colorectum | FAP | 1.61e-24 | -3.60e-01 | -0.1236 |
55132 | LARP1B | A015-C-005 | Human | Colorectum | FAP | 2.16e-04 | -3.44e-01 | -0.0336 |
55132 | LARP1B | A015-C-006 | Human | Colorectum | FAP | 2.15e-14 | -2.54e-01 | -0.0994 |
55132 | LARP1B | A015-C-106 | Human | Colorectum | FAP | 8.52e-16 | -4.37e-01 | -0.0511 |
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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 |
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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 |
LARP1B | SNV | Missense_Mutation | c.244C>T | p.His82Tyr | p.H82Y | Q659C4 | protein_coding | deleterious(0.02) | possibly_damaging(0.521) | TCGA-GM-A2D9-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | arimidex | SD | |
LARP1B | deletion | Frame_Shift_Del | novel | c.501delN | p.Leu168Ter | p.L168* | Q659C4 | protein_coding | TCGA-EW-A2FV-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | docetaxel | SD | ||
LARP1B | SNV | Missense_Mutation | c.1988N>C | p.Gly663Ala | p.G663A | Q659C4 | protein_coding | deleterious(0.01) | benign(0) | TCGA-C5-A1MH-01 | Cervix | cervical & endocervical cancer | Female | >=65 | III/IV | Chemotherapy | cisplatin | PD | |
LARP1B | SNV | Missense_Mutation | rs201885302 | c.2146C>T | p.Arg716Cys | p.R716C | Q659C4 | protein_coding | deleterious(0) | probably_damaging(0.932) | TCGA-MA-AA42-01 | Cervix | cervical & endocervical cancer | Female | >=65 | I/II | Unknown | Unknown | SD |
LARP1B | SNV | Missense_Mutation | novel | c.1172N>G | p.Ser391Cys | p.S391C | Q659C4 | protein_coding | deleterious(0.03) | benign(0.375) | TCGA-VS-A94Z-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
LARP1B | SNV | Missense_Mutation | c.2129N>C | p.Gln710Pro | p.Q710P | Q659C4 | protein_coding | deleterious(0) | possibly_damaging(0.898) | TCGA-A6-6780-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
LARP1B | SNV | Missense_Mutation | c.1418G>T | p.Arg473Leu | p.R473L | Q659C4 | protein_coding | deleterious(0) | possibly_damaging(0.491) | TCGA-AA-3850-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD | |
LARP1B | SNV | Missense_Mutation | rs187112542 | c.907C>T | p.Arg303Cys | p.R303C | Q659C4 | protein_coding | tolerated(0.09) | benign(0.006) | TCGA-AA-3966-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
LARP1B | SNV | Missense_Mutation | rs369019229 | c.1817N>A | p.Arg606Gln | p.R606Q | Q659C4 | protein_coding | deleterious(0.03) | benign(0.135) | TCGA-AA-A010-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Chemotherapy | folinic | CR |
LARP1B | SNV | Missense_Mutation | rs767497573 | c.1397N>A | p.Arg466Gln | p.R466Q | Q659C4 | protein_coding | deleterious(0.02) | benign(0.048) | TCGA-AZ-4315-01 | Colorectum | colon 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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