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Dataset results
176 results for “qtl”
Genome-wide analysis of expression QTL (eQTL) and allele-specific expression (ASE) in pig muscle identifies candidate genes for meat quality traits
GEO Series GSE124315. Sus scrofa. 189 samples. Type: Expression profiling by high throughput sequencing.
Estrogen-dependent up-regulation of Adcyap1r1 expression in nucleus accumbens is associated with genetic predisposition of sex-specific QTL for alcohol consumption on rat chromosome 4
GEO Series GSE112399. Rattus norvegicus. 6 samples. Type: Expression profiling by high throughput sequencing.
Colocalization of GWAS and molecular QTL signals in human vascular smooth muscle cells predict candidate causal genes for coronary artery disease and vascular disorders
GEO Series GSE193817. Homo sapiens. 284 samples. Type: Expression profiling by high throughput sequencing.
Integrative QTL analysis of gene expression and chromatin accessibility identifies multi-tissue patterns of genetic regulation
GEO Series GSE140873. Mus musculus. 282 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing.
Characterization of QTL and eQTL linked with early Fusarium graminearum infection and deoxynivalenol levels in a Wuhan -1 x Nyubai doubled-haploid wheat population at two days post inoculation
GEO Series GSE123548. Triticum aestivum. 100 samples. Type: Expression profiling by high throughput sequencing.
Quantitative trait loci (QTL) study identifies novel genomic regions associated to Chiari-Like Malformation in Griffon Bruxellois dogs
GEO Series GSE52221. Canis lupus familiaris. 80 samples. Type: Genome variation profiling by SNP array; SNP genotyping by SNP array.
Allelic variation at a major QTL for cell wall related traits and coordinated changes in gene expression in maize
GEO Series GSE115157. Zea mays. 10 samples. Type: Expression profiling by high throughput sequencing.
Integrative QTL analysis of gene expression and chromatin accessibility identifies multi-tissue patterns of genetic regulation (ATAC-seq)
GEO Series GSE140871. Mus musculus. 141 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
SMR added - GWAS and GTEx QTL integration
<p>The eQTL SMR results had been left out of the following repository due to an error</p> <p>https://zenodo.org/record/3518299</p> <p>sQTL SMR results have also been uploaded to https://zenodo.org/record/3525070</p> <p> </p> <p>----------</p> <p>sqlite version of these results are also available here https://github.com/abhiramrao/gtex_v8_GPMs</p> <p>----------</p> <p>The GTEx Consortium</p> <p>SMR results using eQTL and sQTLs from GTEx (release 8)</p> <p># Data usage policy</p> <p>When using this data, you must acknowledge the source by citing the publication "Widespread dose-dependent effects of RNA expression and splicing on complex diseases and traits" (https://doi.org/10.1101/814350).</p> <p># Disclaimer</p> <p>The data is provided "as is", and the authors assume no responsibility for errors or omissions. <br> The User assumes the entire risk associated with its use of these data. <br> The authors shall not be held liable for any use or misuse of the data described and/or contained herein. <br> The User bears all responsibility in determining whether these data are fit for the User's intended use. </p> <p>The information contained in these data is not better than the original sources from which they were derived,<br> and both scale and accuracy may vary across the data set. <br> These data may not have the accuracy, resolution, completeness, timeliness, or other characteristics<br> appropriate for applications that potential users of the data may contemplate. <br> <br> The user is responsible to comply with any data usage policy from the original GWAS studies;<br> refer to the list of traits described [here](https://www.biorxiv.org/content/10.1101/814350v1)<br> to identify their respective Consortia's requirements.</p> <p><br> THE DATA IS PROVIDED WITHOUT WARRANTY OF ANY KIND,<br> EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,<br> FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT.<br> IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY,<br> WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,<br> OUT OF OR IN CONNECTION WITH THE DATA OR THE USE OR OTHER DEALINGS IN THE DATA.</p>
Data from: Determining the genetic basis of anthracycline-cardiotoxicity by response QTL mapping in induced cardiomyocytes
Anthracycline-induced cardiotoxicity (ACT) is a key limiting factor in setting optimal chemotherapy regimes, with almost half of patients expected to develop congestive heart failure given high doses. However, the genetic basis of sensitivity to anthracyclines remains unclear. We created a panel of iPSC-derived cardiomyocytes from 45 individuals and performed RNA-seq after 24h exposure to varying doxorubicin dosages. The transcriptomic response is substantial: the majority of genes are differentially expressed and over 6000 genes show evidence of differential splicing, the later driven by reduced splicing fidelity in the presence of doxorubicin. We show that inter-individual variation in transcriptional response is predictive of in vitro cell damage, which in turn is associated with in vivo ACT risk. We detect 447 response-expression QTLs and 42 response-splicing QTLs, which are enriched in lower ACT GWAS p-values, supporting the in vivo relevance of our map of gene tic regulation of cellular response to anthracyclines.
supplemental data for QTL MAPPING TO IDENTIFY LOCI AND CANDIDATE GENES ASSOCIATED WITH FREEZING TOLERANCE TRAIT IN CAMELINA SATIVA
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Efficient statistical method for single-cell QTL analysis
<p>This upload contains data objects associated with our paper "Efficient statistical method for single-cell QTL analysis" introducing the SAIGE-QTL method.</p> <ol> <li>Results for genetic variants with p-value < 5E-6 from the genome-wide eQTL mapping results. <ul> <li>trans_Plasma_tophits_multianno.zip</li> <li>trans_Plasma_tophits_multianno.zip</li> <li>trans_Plasma_tophits_multianno.zip</li> </ul> </li> <li> Set-based test results for rare/less frequent variants <ul> <li>rv_sign.txt</li> </ul> </li> <li> cis-eQTL results (with q < 0.05) <ul> <li>cis_SAIGE-QTL-qval-lt0.05.tsv</li> </ul> </li> </ol>
Data from: QTL detection power of multi-parental RIL populations in Arabidopsis thaliana
A major goal of today's biology is to understand the genetic basis of quantitative traits. This can be achieved by statistical methods that evaluate the association between molecular marker variation and phenotypic variation in different types of mapping populations. The objective of this work was to evaluate the statistical power of QTL detection of various multi-parental mating designs as well as to assess the reasons for the observed differences. Our study was based on empirical data of 20 Arabidopsis thaliana accessions which have been selected to capture the maximum genetic diversity. The examined mating designs differed strongly with respect to the statistical power to detect QTL. We observed the highest power to detect QTL for the diallel cross with random mating design. The results of our study suggested that performing sibling mating within subpopulations of joint linkage mapping populations has the potential to considerably increase the power for QTL detec tion. Our results, however, revealed that using designs in which more than two parental alleles segregate in each subpopulation increases the power even more.
Congenic dissection of a major QTL for methamphetamine sensitivity implicates epistasis
GEO Series GSE35139. Mus musculus. 28 samples. Type: Expression profiling by array.
RNA Expression QTL mapping in Striatum of an F2 cross of BALB/cJ and BALB/cByJ mice to identify candidate genes for behavioral/metabolic QTLs
GEO Series GSE196352. Mus musculus. 64 samples. Type: Expression profiling by high throughput sequencing.
Integrative analysis of the genomic architecture of a complex kidney damage QTL in inbred hypertensive rats implies Tmem63c for translational research
GEO Series GSE102546. Rattus norvegicus. 6 samples. Type: Expression profiling by high throughput sequencing.
Data from: QTL analysis of soft scald in two apple populations
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Data from: QTL mapping of temperature sensitivity reveals candidate genes for thermal adaptation and growth morphology in the plant pathogenic fungus Zymoseptoria tritici
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Data from: QTL detection power of multi-parental RIL populations in Arabidopsis thaliana
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Data from: Segregation of a QTL cluster for home-cage activity using a new mapping method based on regression analysis of congenic mouse strains
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Allen Brain Atlas
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Annotated Behaviour and Observability Dataset (ABODe)
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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.
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