{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Grace Tan"],"organism":["Arabidopsis thaliana"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-15892"],"description":["Transcriptomes of Arabidopsis knockout mutants for cationic amino acid transporters (CATs) were assessed under normal growth conditions to determine the disruption to normal metabolism caused by the mutations."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sample Collection - Samples were harvested, washed once in sterile MilliQ water, and snap-frozen in liquid nitrogen","Library Construction - Frozen samples are milled in extraction buffer and total RNA extracted using the QIAGEN Plant RNeasy kit","Sequencing - RNA extracts were submitted to Novogene, where sequencing was done on an Illumina NovaSeq 6000","Growth Protocol - Seeds were surface-sterilised and stratified for three days in the dark at 4C, then germinated on full-strength MS media (1% sucrose, 1% agar, pH5.8) for eight days at 22C under 24h light","Sample Treatment - Seedlings were transferred from solid media to liquid half-strength MS Basal (pH5.7) media and incubated at 22°C for 48h under","Nucleic Acid Extraction - Frozen samples are milled in extraction buffer and total RNA extracted using the QIAGEN Plant RNeasy kit"],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Sequence Alignment - Reads were aligned to Arabidopsis TAIR10 reference genome.","Data Transformation - Read counts data was normalised via log transformation"],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Illumina NovaSeq 6000"],"study_type":["RNA-seq of coding RNA"],"species":["Arabidopsis thaliana"],"pubmed_title":["Cationic amino acid transporters (CAT) mediate accumulation and sensitivity to the systemic herbicide L-phosphinothricin"],"pubmed_authors":["Grace Tan","Grace Zi Hao Tan,, Herrick Yu Kan Koh, Zheng Yong Poh, Yuri Trusov, Shalini Krishnamoorthi, Kasey Goh, Célio Cabral Oliveira, José Ramón Botella, Daisuke Urano","Daisuke Urano"],"additional_accession":[]},"is_claimable":false,"name":"Basal transcriptome of Arabidopsis amino acid transporter mutants","description":"Transcriptomes of Arabidopsis knockout mutants for cationic amino acid transporters (CATs) were assessed under normal growth conditions to determine the disruption to normal metabolism caused by the mutations.","dates":{"release":"2025-10-30T00:00:00Z","modification":"2026-05-30T16:54:58.705Z","creation":"2025-10-28T12:24:58.372Z"},"accession":"E-MTAB-15892","cross_references":{"ENA":["ERP183194"],"EFO":["EFO_0002944","EFO_0004170","EFO_0003789","EFO_0004917","EFO_0005518","EFO_0003816","EFO_0003738","EFO_0004184","EFO_0003969"]}}