EGAS00001000020-sc-20121219 - samples
Ontology highlight
ABSTRACT:
PROVIDER: EGAD00001000299 | EGA |
REPOSITORIES: EGA
Similar Datasets
Project description:We sequenced polyA-selected RNA from bone marrow derived cells from 47 bone samples collected from 16 captive, adult female Damaraland mole-rats (Fukomys damarensis). The 16 females were experimentally manipulated to either remain as nonbreeders (either as helpers or solitaires) or become breeders, and breeding status was maintained for over 1 year prior to tissue collection and cell culture. A subset of cultured cells were treated for 24 hours with 10 nM estradiol prior to sample collection.
2021-04-28 | GSE152659 | GEO
Project description:<p>We propose to undertake, at the McDonnell Genome Institute of Washington University, a collaborative exome sequencing project of ~10,000 samples from a large Finnish population cohort, FINRISK, a participating component of the Sequencing Initiative Suomi (SISu) consortium. Together these sequenced samples will provide a unique resource for identification of infrequent or rare variants with a large impact on cardiovascular and metabolic disorders as well as on a wide range of heritable, disease-related quantitative phenotypes. Our collaborative group has already shown, in exome sequencing studies of smaller Finnish samples, that numerous loss of function variants are dramatically more frequent in Finland compared to other European populations, and that such variants demonstrate strong associations to several disease-related traits. Finland is the largest population isolate in Europe and the enrichment of these variants reflects its rapid growth from a severe population bottleneck about 100 generations ago.</p> <p>Northern and Eastern parts of Finland experienced additional, more recent bottlenecks, and therefore the enrichment of particular high-impact variants in these regions is even more extreme (Stoll et al., 2013, PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/23912948" target="_blank">23912948</a>). We therefore propose to focus exome sequencing efforts on about 10,000 members of FINRISK who are specifically drawn from these sub-isolate regions. As a very wide range of phenotypes are available from this cohort (including cardiovascular and metabolic disease outcomes obtained from national registries) we hypothesize that the proposed exome sequencing will identify numerous new disease-related associations. Within the National Biobanks of Finland (<a href="http://www.nationalbiobanks.fi/" target="_blank">www.nationalbiobanks.fi</a>) we have DNA and tissue samples from over 200,000 individuals of whom 50,000 have GWAS data; these samples provide an exceptional resource for both imputation from the sequencing studies proposed here, as well as for replication of associations.</p>
| phs000756 | dbGaP
Project description:Whole blood samples were collected from seven elite female skaters on the peak of altitude adaptation (day 18), before and after ~ 1h long exercise. Samples were globin-depleted and polyA-selected, converted to cDNA, and sequenced using Illumina paired-end reads (12-40M reads).
2021-07-12 | GSE164890 | GEO
Project description:Genome-wide gene expression profiling of a population-based collection of individuals from the capital region of Finland
2010-09-09 | E-TABM-1036 | biostudies-arrayexpress
Project description:Fecal and amniotic fluid samples were collected from 25 pregnant women undergoing elective Caesarean section delivery after a term pregnancy at Oulu University Hospital, Oulu, Finland. Extracellular vesicles (EVs) were isolated from both sample types and their protein cargo analyzed using LC-ESI-MS/MS.
2023-11-14 | PXD045755 | Pride
Project description:The ENGAGE project is a FP7 funded EU project aiming to combine genetic and phenotype information from European population based cohorts. In this sub-project we aim to do whole exome sequencing of individuals selected from Health 2000 and FINRISK cohorts. Individuals have been selected based on their metabolic trait phenotypes
| EGAD00001000403 | EGA
Project description:MOLM13 cells were infected with CRISPR/Cas9 library, selected for puromycn resistance for integration events and exposed to Venetoclax or vehicle, DMSO, at 1microMolar concentrations. Cells were collected at time 0 (post puromycin selection), day 7 and 14 , DNA was extracted and sgRNA barcodes were amplified. PCR library was deep sequenced using highthroughput Illumina platform Hiseq using 6 samples per lane.
2019-04-30 | GSE130412 | GEO
Project description:MOLM13 cells were infected with CRISPR/Cas9 library, selected for puromycn resistance for integration events and exposed to Venetoclax or vehicle, DMSO, at 1microMolar concentrations. Cells were collected at time 0 (post puromycin selection), day 7 and 14 , DNA was extracted and sgRNA barcodes were amplified. PCR library was deep sequenced using highthroughput Illumina platform Hiseq using 6 samples per lane.
2019-04-30 | GSE130413 | GEO
Project description:Banking of high-quality placental tissue specimens will enable biomarker discovery and molecular studies on diseases involving placental dysfunction. Systematic studies aimed at developing feasible standardized methodology for placental collection for genomic analyses are lacking. To determine the acceptable timeframe for placental collection, we collected multiple samples from first and third trimester placentas at serial time points 0-120 minutes after delivery, simultaneously comparing the traditional snap-freeze technique to collection in commercial solutions designed to preserve RNA (RNAlaterTM, Ambion), and DNA (DNAgard®, Biomatrica). The performance of RNAlater for preserving DNA was also tested. Nucleic acid quality was assessed by determining the RNA integrity number (RIN) and genome-wide expression and DNA methylation microarray profiling. We found that samples collected in RNAlater had higher and more consistent RINs compared to snap frozen tissue, with similar RINs obtained for tissue collected in RNAlater as large (1 cm3) and small (~0.1 cm3) tissue pieces. RNAlater appeared to better stabilize the time zero gene expression pattern compared to snap freezing for first trimester placenta. Microarray DNA methylation analysis showed that overall the DNA methylation profiles remained quite stable over a two hour time period after removal of the placenta from the uterus, with the DNAgard condition being superior to both snap freezing and RNAlater. The collection of placental samples in RNAlater and DNAgard is simple, and eliminates the need for liquid nitrogen or a freezer on-site. Moreover, the quality of the nucleic acids and the resulting data from samples collected in these preservation solutions is actually higher than that from samples collected using the traditional snap-freeze method. Thus, this new approach to placental sample collection is both easier to implement in busy clinical environments and yields higher quality data. 72 samples
2014-06-09 | GSE55439 | GEO