{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown","Transcriptomics","Genomics","Proteomics"],"submitter":["Christophe Lambing"],"instrument_platform":["NextSeq 500"],"study_type":["genotyping by high throughput sequencing"],"organism":["Arabidopsis thaliana"],"species":["Arabidopsis thaliana"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-15040"],"description":["Genomic DNA from 144 h2a.w7 Col-0 x Ler F2 individuals was extracted using CTAB (as described in Kuo et al, 2022 Methods Mol Biol - PMID: 35461443) and used to generate sequencing libraries as described (Lawrence et al, 2019 Current Biology - PMID: 31378616). Sequencing data was analysed to identify crossovers using the TIGER pipeline as previously described (Rowan et al, 2015 G3 (Bethesda) - PMID: 25585881; Yelina et al, 2015 Genes & Dev - PMID: 26494791; Lawrence et al, 2019 Current Biology - PMID: 31378616)."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Growth Protocol - Plant were grown in growth chambers under the following conditions: 60% humidity, long day conditions (16 hours light/ 8 hours dark) at 20oC.","Nucleic Acid Extraction - DNA was extracted using CTAB procedure as previously described (Kuo et al, 2022 Methods Mol Biol - PMID: 35461443)","Sample Collection - Leaf tissue at rosette stage were collected from 5-week old plants. Plant tissue was immediately snap frozen in liquid nitrogen and stored at -80oC.","Library Construction - DNA library preparation was prepared as previously described (Lawrence et al, 2019 Current Biology - PMID: 31378616) – TruSeq DNA sample prep kit. Illumina sequencing","Sequencing - Libraries were subjected to paired-end sequenced using an Illumina Genome Analyzer. Illumina NextSeq500 instrument."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"pubmed_authors":["Christophe Lambing"],"additional_accession":[]},"is_claimable":false,"name":"Identifying crossover locations in Arabidopsis thaliana h2a.w7 Col-0 × Ler F2 populations using genotyping-by-sequencing","description":"Genomic DNA from 144 h2a.w7 Col-0 x Ler F2 individuals was extracted using CTAB (as described in Kuo et al, 2022 Methods Mol Biol - PMID: 35461443) and used to generate sequencing libraries as described (Lawrence et al, 2019 Current Biology - PMID: 31378616). Sequencing data was analysed to identify crossovers using the TIGER pipeline as previously described (Rowan et al, 2015 G3 (Bethesda) - PMID: 25585881; Yelina et al, 2015 Genes & Dev - PMID: 26494791; Lawrence et al, 2019 Current Biology - PMID: 31378616).","dates":{"release":"2025-07-11T00:00:00Z","modification":"2025-04-10T10:27:11.885Z","creation":"2025-04-10T10:27:11.885Z"},"accession":"E-MTAB-15040","cross_references":{"ENA":["ERP171467"],"Biostudies":["E-MTAB-8725"],"EFO":["EFO_0002944","EFO_0004170","EFO_0003789","EFO_0002771","EFO_0005518","EFO_0004184"]}}