{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"submitter":["Magdalena Kroc"],"instrument_platform":["Illumina NovaSeq X"],"study_type":["ChIP-seq"],"organism":["Lupinus angustifolius"],"species":["Lupinus angustifolius"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-16430"],"description":["In this study we used DNA affinity purification sequencing (DAP-seq) to identify genome-wide binding of allele-specific RAP2-7 transcription factor variants in five narrow-leafed lupin (Lupinus angustifolius L.) genotypes with contrasting alkaloid regulation, including low-alkaloid iucundus line (83A:476), high-alkaloid Iucundus line (P27255) and three Bryansk low-alkaloid lines (95826 (Bryanskij-35), 95927 (Bryanskij-123) and 95928 (Bryanskij-237/83))."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Growth Protocol - Plants were cultivated in a growth chamber (16 h photoperiod, 22/18 °C day/night, 55–60% relative humidity, until they reached whole plant flowering stage.","Sample Collection - The immobilized Halo-tagged allele-specific RAP2-7 protein was incubated with the adapter-ligated DNA library. After incubation, the beads were washed, and the bound DNA was recovered, PCR-amplified, purified, and quantified. Negative controls were processed in parallel using adapter-ligated DNA libraries incubated with Magne HaloTag beads in the absence of recombinant protein. For more details please see accompanying manuscript.","Nucleic Acid Extraction - High-molecular-weight genomic DNA for DAP-seq was extracted from frozen young leaves (3 g) using a phenol:chloroform:isoamyl alcohol protocol, and quantified fluorometrically using the Qubit dsDNA Broad Range Assay (Thermo Fisher Scientific).","Library Construction - Genomic DNA libraries were prepared according to Bartlett et al. (2017; doi.org/10.1038/nprot.2017.055), with minor modifications. For more details please see accompanying manuscript.","Sequencing - Samples were sequenced on an Illumina NovaSeq X Plus (PE150), at Novogene (HK) Co. Ltd., generating ~6 Gb of raw data per sample (≥20 million reads per sample)."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"pubmed_authors":["Katarzyna Czepiel","Magdalena Kroc","Grzegorz Koczyk"],"additional_accession":[]},"is_claimable":false,"name":"RAP2-7 DAP-seq (Lupinus angustifolius L.)","description":"In this study we used DNA affinity purification sequencing (DAP-seq) to identify genome-wide binding of allele-specific RAP2-7 transcription factor variants in five narrow-leafed lupin (Lupinus angustifolius L.) genotypes with contrasting alkaloid regulation, including low-alkaloid iucundus line (83A:476), high-alkaloid Iucundus line (P27255) and three Bryansk low-alkaloid lines (95826 (Bryanskij-35), 95927 (Bryanskij-123) and 95928 (Bryanskij-237/83)).","dates":{"release":"2026-06-30T00:00:00Z","modification":"2026-06-30T01:00:54.36Z","creation":"2025-12-19T12:58:40.611Z"},"accession":"E-MTAB-16430","cross_references":{"ENA":["ERP186833"],"EFO":["EFO_0002944","EFO_0004170","EFO_0003789","EFO_0002692","EFO_0005518","EFO_0004184"]}}