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2,785 results for “genotyping”
MASPOT panel GBS genotype data - v6.1 reference
<p>Genotype-by-sequencing data of the MASPOT panel clones (762 clones in total, 755 with phenotypes) generated by Illumina sequencing of leaf tissue cf. (Sverrisdottir et al., 2017). Biallelic variants have been called relative to the v6.1 Phureja double monoploid reference genome. The SNPs have been filtered to root mean square mapping quality of > 30, MAF > 1 %, missing data < 50 %, and minimum reading depth of 5x. This leaves 175435 variants. </p> <p>F1 sample names are in HEADER.SAMPLES, SNP identifyer and coordinates are in FILT3.KEY (both outlined in the new readme.txt. The genotypes are in the SNP_V1.0_DMv6.vcf.FILT3_FINAL.DISC.gz file. The snp_counts.txt is a file of the SNP counts in the full sets of filtration we have computed. For our purpose, we use only the discrete genotypes and the FILT3 filtration in version 1. This has the 175435 variants. </p> <p>The phased MASPOT parent genotypes are in the MASPOT_phased_genome_FILT3_modified_filtered.vcf.gz file. These are the genotype calls for the 18 MASPOT parents, phased to the long read sequencing files using WhatsHap. They are filtered to 1) SNPs passing the quality the FILT3 quality filters, 2) SNPs that are also called for the F1 panel, and 3) SNPs where all parents are phased. The latter, to allow imputation of all offspring. This leaves a subset of 112720 SNPs. </p> <p>Please see the readme.txt file for explanation of the content of each file. </p> <p>For our analysis, we are using the FILT3 filtration settings (outlined above) and discrete scale genotypes. </p>
Dataset related to article "Implementing Pre-Therapeutic UGT1A1 Genotyping in Clinical Practice: A Real-Life Study"
<p>This record contains raw data related to article “Implementing Pre-Therapeutic<em> UGT1A1</em> Genotyping in Clinical Practice: A Real-Life Study"</p> <p>Current guidelines recommend pre-therapeutic <em>UGT1A1</em> genotyping to guide irinotecan dosing, but the usefulness of this approach remains to be clarified. In 247 patients with advanced gastrointestinal cancers undergoing irinotecan-based chemotherapy, we prospectively performed <em>UGT1A1*28</em> genotyping and we analyzed the incidence of severe neutropenia according to genotype-guided dose reductions. Overall, 28 (11.3%) and 92 (37.2%) patients were homozygous or heterozygous <em>UGT1A1*28</em> carriers, respectively. Grade ≥ 3 neutropenia was reported in 39% of homozygous patients receiving an upfront dose reduction of irinotecan (median 40%, range 22-58%), in 20% of heterozygous or wild-type patients receiving full dose (OR<sub>vs*28/*28 genotype</sub> = 0.38; 95% CI: 0.14-1.03; <em>p</em> = 0.058), and in 15.3% of those receiving a reduced dose for clinical reasons (OR <sub>vs*28/*28 genotype</sub> = 0.28, 95% IC: 0.12-0.67; <em>p</em> = 0.004). Occurrence of severe neutropenia was inversely associated with dose reduction in <em>UGT1A1*28</em> homozygous carriers (OR<sub>x10 unit</sub> = 0.62, 95% CI: 0.27-1.40, <em>p</em> = 0.249) and <em>UGT1A1</em> heterozygous or wild-type patients (OR<sub>x10 unit</sub> = 0.87, 95% CI: 0.59-1.28, <em>p</em> = 0.478). Incidence of severe neutropenia was related to irinotecan doses and <em>UGT1A1</em> polymorphisms. Upfront irinotecan dose reductions do not reduce the burden of grade ≥ 3 neutropenia in <em>UGT1A1*28</em> homozygous carriers.</p>
List of materials genotypically and/or phenotypically characterized within BRESOV
<p>List of materials genotypically and/or phenotypically characterized within BRESOV (WP2, WP3, WP4 and WP5 activities).</p>
Study of the Natural History and Genotype-Phenotype Correlations of Hereditary Hemorrhagic Telangiectasia Patients
ClinicalTrials.gov study NCT00004649. IPD Sharing: Not stated. Countries: 0. Publications: 0.
Establish a Non-invasive Prenatal Genotyping and Extraction Technology to Diagnose and Treat the HDN.
ClinicalTrials.gov study NCT02969174. IPD Sharing: Not stated. Countries: 0. Publications: 0.
VX-445/TEZ/IVA Expanded Access Program for Cystic Fibrosis (CF) Patients Heterozygous for F508del Mutation and a Minimal Function Mutation (F/MF Genotypes)
ClinicalTrials.gov study NCT04058210. IPD Sharing: Not stated. Countries: 0. Publications: 0.
Transcription analysis of different water use efficiency genotypes in soybean leaf
GEO Series GSE158762. Glycine max. 6 samples. Type: Expression profiling by high throughput sequencing.
Small RNA sequencing of Rice Efficient and Non-Efficient Genotypes to determine uptake of Nitrogen
GEO Series GSE198560. Oryza sativa Indica Group. 8 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Circulating microRNA and 5’ tRNA halves signatures of genotype-by-age interactions in the longlived Ames dwarf mouse.
GEO Series GSE69274. Mus musculus. 20 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Comparative Transcriptional Profiling of Two Rice Genotypes, FR13A and Goda Heenati, Under Submergence Stress
GEO Series GSE23574. Oryza sativa. 12 samples. Type: Expression profiling by array.
Tumour genotype shapes blood biomarker expression for use in pancreatic cancer detection and diagnosis [Tumour]
GEO Series GSE302170. Mus musculus. 12 samples. Type: Expression profiling by high throughput sequencing.
SNP genotype data from induced Pluripotent Stem cells from Parkinson's Disease patients harboring mutations in the GBA1 gene, and from healthy control donors
GEO Series GSE99471. Homo sapiens. 13 samples. Type: SNP genotyping by SNP array; Genome variation profiling by SNP array.
A robust machine learning approach for missing persons cases with high genotyping errors
GEO Series GSE209804. Homo sapiens. 24 samples. Type: Genome variation profiling by SNP array; SNP genotyping by SNP array.
Distinct patterns of metagenomic surveillance and respiratory microbiota between two P1 genotypes of Mycoplasma pneumoniae
GEO Series GSE274269. Homo sapiens. 174 samples. Type: Expression profiling by high throughput sequencing.
Genotyping data from one patient with unexplained mental retardation and a deletion in 15q13
GEO Series GSE20564. Homo sapiens. 2 samples. Type: Genome variation profiling by SNP array; SNP genotyping by SNP array.
Genotype-by-diet interactions determine susceptibility and resistance in T2D mouse models [adipose]
GEO Series GSE234947. Mus musculus. 47 samples. Type: Expression profiling by high throughput sequencing.
Genotype-by-diet interactions determine susceptibility and resistance in T2D mouse models [Dorsal Vagal Complex]
GEO Series GSE234951. Mus musculus. 36 samples. Type: Expression profiling by high throughput sequencing.
Genotype-by-diet interactions determine susceptibility and resistance in T2D mouse models [Hypothalamus]
GEO Series GSE235479. Mus musculus. 36 samples. Type: Expression profiling by high throughput sequencing.
Transcriptome profiling of dorsal prostate from four mouse genotypes : wild-type, LXRalpha/beta KO, PTENpc-/- and LXRalpha/beta KO PTENpc-/-
GEO Series GSE96545. Mus musculus. 12 samples. Type: Expression profiling by array.
cDNA microarray analysis of gene expression in blood mononuclear cells of Yorkshire pigs with SLA-DRB1 defined genotypes
GEO Series GSE7908. Bos taurus; Sus scrofa. 12 samples. Type: Expression profiling by array.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
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DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
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.