{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown"],"submitter":["Mills WT"],"funding":["Braude Foundation award","NIMH NIH HHS","Maryland Stem Cell Research Fund Launch Program","National Institutes of Health","Blaustein Endowment for Pain Research and Education"],"pubmed_abstract":["MicroRNAs (miRNAs) are small non-coding RNAs (sncRNAs) that function in post-transcriptional gene regulation through imperfect base pairing with mRNA targets which results in inhibition of translation and typically destabilization of bound transcripts. Sequence-based algorithms historically used to predict miRNA targets face inherent challenges in reliably reflecting in vivo interactions. Recent strategies have directly profiled miRNA-target interactions by crosslinking and ligation of sncRNAs to their targets within the RNA-induced silencing complex (RISC), followed by high throughput sequencing of the chimeric sncRNA:target RNAs. Despite the strength of these direct profiling approaches, standardized pipelines for effectively analyzing the resulting chimeric sncRNA:target RNA sequencing "],"journal":["RNA (New York, N.Y.)"],"pagination":["rna.079240.122"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC9808574"],"repository":["biostudies-literature"],"pubmed_title":["SCRAP: a bioinformatic pipeline for the analysis of small chimeric RNA-seq data."],"pmcid":["PMC9808574"],"funding_grant_id":["F31 MH124282","F31MH124282"],"pubmed_authors":["Meffert MK","Eadara S","Jaffe AE","Mills WT"],"additional_accession":[]},"is_claimable":false,"name":"SCRAP: a bioinformatic pipeline for the analysis of small chimeric RNA-seq data.","description":"MicroRNAs (miRNAs) are small non-coding RNAs (sncRNAs) that function in post-transcriptional gene regulation through imperfect base pairing with mRNA targets which results in inhibition of translation and typically destabilization of bound transcripts. Sequence-based algorithms historically used to predict miRNA targets face inherent challenges in reliably reflecting in vivo interactions. Recent strategies have directly profiled miRNA-target interactions by crosslinking and ligation of sncRNAs to their targets within the RNA-induced silencing complex (RISC), followed by high throughput sequencing of the chimeric sncRNA:target RNAs. Despite the strength of these direct profiling approaches, standardized pipelines for effectively analyzing the resulting chimeric sncRNA:target RNA sequencing ","dates":{"release":"2022-01-01T00:00:00Z","publication":"2022 Oct","modification":"2026-05-28T02:14:30.753Z","creation":"2025-04-26T20:29:10.637Z"},"accession":"S-EPMC9808574","cross_references":{"pubmed":["36316086"],"doi":["10.1261/rna.079240.122"]}}