{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"submitter":["Alex Kalinka"],"instrument_platform":["Illumina HiSeq 4000"],"study_type":["DNA-seq"],"organism":["Homo sapiens"],"species":["Homo sapiens"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-15655"],"description":["LIMD1 is a tumour suppressor commonly found to have loss-of-function mutations in lung adenocarcinoma patients. Here we explore potential vulnerabilities of a lung cancer cell line specific to LIMD1 loss."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sample Collection - Cells were split twice per week at the indicated timepoints. Every time a cell number corresponding to roughly 500-fold coverage of the library was pelleted, washed once with D-PBS and then stored at -20°C before processing.","Sequencing - Single gRNA libraries samples via a 50bp Single-End run.","Library Construction - NGS amplicon libraries were generated with a two-step PCR protocol. First, the lentiviral cassette containing the gRNA, was amplified from genomic DNA with specific primers that also contain Illumina specific adapter sequences. In the second PCR, 8 nucleotide Nextera indices were added using Indexing primers with complementary sequences to the 1st PCR primers and contained P5 and P7 Illumina compatible sequences necessary for cluster generation. Final amplicon NGS libraries were cleaned up using AMPure XP beads.","Nucleic Acid Extraction - Genomic DNA was extracted using the Qiagen QIAamp DNA Blood Maxi kit (order number 51194) according to the manufacturer’s protocol.   https://www.qiagen.com/de-us/products/discovery-and-translational-research/dna-rna-purification/dna-purification/genomic-dna/qiaamp-dna-blood-kits?catno=51194"],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"pubmed_authors":["Alex Kalinka"],"additional_accession":[]},"is_claimable":false,"name":"Genome-wide CRISPR Knock-out screen of LIMD1-/- isogenic and parental A549 cell line","description":"LIMD1 is a tumour suppressor commonly found to have loss-of-function mutations in lung adenocarcinoma patients. Here we explore potential vulnerabilities of a lung cancer cell line specific to LIMD1 loss.","dates":{"release":"2026-02-01T00:00:00Z","modification":"2026-06-16T17:50:28.305Z","creation":"2025-10-02T21:45:31.229Z"},"accession":"E-MTAB-15655","cross_references":{"ENA":["ERP180958"],"EFO":["EFO_0002944","EFO_0004170","EFO_0002693","EFO_0005518","EFO_0004184"]}}