{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Sandhya Visweswariah S"],"organism":["Mus musculus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-14556"],"description":["A knock-in mouse model has been generated where the serine residue at position 839 in the catalytic domain of receptor guanylyl cyclase C (product of the Gucy2c gene) has been converted to an isoleucine residue. Organoids were prepared from the small intestine of wild-type C57BL6N Tac mice and the mutant S839I mouse by established procedures. RNA was prepared from organoids and subjected to RNAseq analysis."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sample Collection - Small intestine was isolated from mice for organoid preparation. Preparation was as per protocols published by StemCell","Sequencing - Illumina NovaSeq used for sequencing with a minimum of 20 million reads with polyA selection","Library Construction - mRNA fragment and synthesis of cDNA followed by end repair and dA tailing. cDNA purified and amplified by PCR","Sample Treatment - Organoids prepared from wild type and S839I mice were cultured for 3 days after passaging and then treated with interferon gamma or uroguanylin or both together for 16h.","Nucleic Acid Extraction - Total RNA purified form cultured organoids using Invitrogen RNA purification kits. RNA was treated with DNAse on the column."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Data Transformation - Reads were trimmed, mapped on to the mouse genome and differential gene expression calculated by deepseq2."],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Illumina NovaSeq X"],"study_type":["RNA-seq of coding RNA"],"species":["Mus musculus"],"pubmed_authors":["Sandhya Visweswariah S"],"additional_accession":[]},"is_claimable":false,"name":"RNAseq of small intestinal organoids prepared from wild-type and mutant mice that harbour a point mutation that converts a serine residue at position 839 to an isoleucine","description":"A knock-in mouse model has been generated where the serine residue at position 839 in the catalytic domain of receptor guanylyl cyclase C (product of the Gucy2c gene) has been converted to an isoleucine residue. Organoids were prepared from the small intestine of wild-type C57BL6N Tac mice and the mutant S839I mouse by established procedures. RNA was prepared from organoids and subjected to RNAseq analysis.","dates":{"release":"2025-10-10T00:00:00Z","modification":"2026-06-12T13:45:29.31Z","creation":"2024-10-25T09:14:57.037Z"},"accession":"E-MTAB-14556","cross_references":{"ENA":["ERP165484"],"EFO":["EFO_0002944","EFO_0004170","EFO_0005518","EFO_0003816","EFO_0004184","EFO_0003969"]}}