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23 results for “loss of heterozygosity”
Data from: Loss-of-heterozygosity facilitates a fitness valley crossing in experimentally evolved multicellular yeast
<p>These data sets are generated to investigate a simple evolutionary landscape that arises from underdominance at a single locus where the fitness valley consists of only one less-fit genotype. We make use of an experimental system previous evolved in the laboratory, the S<em>accharomyces cerevisiae</em> snowflake system. This system was experimentally selected resulting in a significant evolutionary shift, the transition from uni-to-multicellularity in asexual diploid populations. We carried out the phenotypic and fitness characterization of the strains. Additionally, we observed a rapid loss of heterozygosity (LOH) events in the heterozygote strains. Experimental evolution starting with the heterozygote strains suggests that LOH is common both under selection and without selection. LOH event drive adaptation that may enable rapid evolution in diploid yeast. </p>
Phase III Trial of Anaplastic Glioma Without 1p/19q Loss of Heterozygosity (LOH)
ClinicalTrials.gov study NCT00626990. IPD Sharing: Not stated. Countries: 12. Publications: 4.
Data from: Loss-of-heterozygosity facilitates a fitness valley crossing in experimentally evolved multicellular yeast
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Data from: Heterogeneous patterns of heterozygosity loss in isolated populations of the threatened eastern barred bandicoot (Perameles gunnii)
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Solid Tumor Analysis for HLA Loss of Heterozygosity (LOH) and Apheresis for CAR T- Cell Manufacturing
ClinicalTrials.gov study NCT04981119. IPD Sharing: NO. Countries: 1. Publications: 6.
Alu-Mediated MEN1 Gene Deletion and Loss of Heterozygosity in a Patient with Multiple Endocrine Neoplasia Type 1
<p>Multiple endocrine neoplasia type 1 (MEN1) is an autosomal dominant disorder caused by mutations of the tumor suppressor gene <i>MEN1</i>. Most of the germline <i>MEN1</i> gene mutations have been small mutations, and the whole gene deletion is rarely observed. In the present study, we revealed <i>Alu </i>retrotransposon-mediated <i>de novo</i> germline deletion of the whole <i>MEN1</i> gene and somatic copy-neutral loss of heterozygosity (LOH) in a patient with MEN1. The patient is a 39-year-old woman who was referred to our department for the management of prolactinoma. She was also diagnosed with primary hyperparathyroidism and suspected of MEN1. Although nucleotide sequencing did not detect any <i>MEN1</i> gene mutations, multiplex ligation-dependent probe amplification (MLPA) revealed a large germline deletion of the <i>MEN1</i> gene. Subsequent quantitative polymerase chain reaction (qPCR)-based copy number mapping showed a monoallelic loss of approximately 18.5-kilobase region containing the whole <i>MEN1</i> gene. Intriguingly, the two breakpoints were flanked by <i>Alu</i> repetitive elements, suggesting the contribution of <i>Alu</i>/<i>Alu</i>-mediated rearrangements to the whole <i>MEN1 </i>gene deletion. Furthermore, copy number mapping using MLPA and qPCR in combination with single nucleotide polymorphism analysis revealed copy-neutral LOH as a somatic event for parathyroid tumorigenesis. In conclusion, copy number mapping revealed a novel combination of <i>Alu</i>/<i>Alu</i>-mediated <i>de novo</i> germline deletion of the <i>MEN1</i> gene and somatic copy-neutral LOH as a cytogenetic basis for the MEN1 pathogenesis. Moreover, subsequent <i>in silico</i> analysis highlighted the possible predisposition of the <i>MEN1 </i>gene to <i>Alu </i>retrotransposon-mediated genomic deletion.</p>
Data from: How clonal are clones? A quest for loss of heterozygosity during asexual reproduction in Daphnia magna
Due to the lack of recombination, asexual organisms are predicted to accumulate mutations and show high levels of within-individual allelic divergence (heterozygosity) however, empirical evidence for this prediction is largely missing. Instead, evidence of genome homogenization during asexual reproduction is accumulating. Ameiotic crossover recombination is a mechanism that could lead to long genomic stretches of loss of heterozygosity (LOH) and unmasking of mutations that have little or no effect in heterozygous state. Therefore, LOH might be an important force for inducing variation among asexual offspring and may contribute to the limited longevity of asexual lineages. To investigate the genetic consequences of asexuality, here we used high-throughput sequencing of Daphnia magna for assessing the rate of LOH over a single generation of asexual reproduction. Comparing parthenogenetic daughters with their mothers at several thousand genetic markers generated by Restriction site Associated DNA (RAD) sequencing resulted in high LOH rate estimation that largely overlapped with our estimates for the error rate. To distinguish these two, we Sanger re-sequenced the top 18 candidate RAD-loci for LOH, and all of them proved to be false positives. Hence, even though we cannot exclude the possibility that short stretches of LOH occur in genomic regions not covered by our markers, we conclude that LOH does not occur frequently during asexual reproduction in D. magna and ameiotic crossovers are very rare or absent. This finding suggests that clonal lineages of D. magna will remain genetically homogeneous at least over time periods typically relevant for experimental work.
Alu-Mediated MEN1 Gene Deletion and Loss of Heterozygosity in a Patient with Multiple Endocrine Neoplasia Type 1
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Data from: How clonal are clones? A quest for loss of heterozygosity during asexual reproduction in Daphnia magna
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Chromosomal deletions linked to p53 loss of heterozygosity promote cancer through p53-independent mechanisms
GEO Series GSE69654. Mus musculus. 8 samples. Type: Expression profiling by high throughput sequencing.
Agilent-custom CGH microarray analysis of hematological malignancies [copy number and loss of heterozygosity]
GEO Series GSE66959. Homo sapiens. 10 samples. Type: Genome variation profiling by array; Genome variation profiling by SNP array.
Kras loss of heterozygosity promotes MAPK dependent pancreatic ductal adenocarcinoma and induces therapeutic sensitivity
GEO Series GSE277392. Mus musculus. 31 samples. Type: Expression profiling by high throughput sequencing.
Resolving spatial subclonal genomic heterogeneity of loss of heterozygosity and extrachromosomal DNA in gliomas
GEO Series GSE242352. Homo sapiens. 17 samples. Type: Expression profiling by high throughput sequencing; Other.
Genome-Scale Patterns in The Loss of Heterozygosity Incidence in Saccharomyces cerevisiae
GEO Series GSE192479. Saccharomyces cerevisiae. 12 samples. Type: Expression profiling by high throughput sequencing.
Imprinted survival genes preclude loss of heterozygosity of chromosome 7 in cancer cells
GEO Series GSE77804. Homo sapiens. 16 samples. Type: Methylation profiling by genome tiling array.
A Screening Study to Collect Samples for TAA, HLA & HLA Loss of Heterozygosity in Patients With Metastatic Solid Tumors
ClinicalTrials.gov study NCT05812027. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
Combined arrayCGH and SNP-loss of heterozygosity analysis in cervical cancer
GEO Series GSE8605. Homo sapiens. 40 samples. Type: Expression profiling by array; Genome variation profiling by genome tiling array; Genome variation profiling by SNP array; SNP genotyping by SNP array.
Loss of heterozygosity drives adaptation in hybrid yeast
GEO Series GSE95086. Saccharomyces cerevisiae; Saccharomyces bayanus; Saccharomyces uvarum; Saccharomyces cerevisiae x Saccharomyces uvarum. 21 samples. Type: Genome variation profiling by array.
Affymetrix OncoScan SNP arrays for profiling copy-number alterations (CNAs) and loss-of-heterozygosity (LOH) in colon cancer
GEO Series GSE171777. Homo sapiens. 84 samples. Type: Genome variation profiling by SNP array.
Primary mediastinal large B-cell lymphoma is hallmarked by large-scale copy-neutral loss of heterozygosity
GEO Series GSE184212. Homo sapiens. 35 samples. Type: Genome variation profiling by SNP array; SNP genotyping by SNP array.
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International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.