{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Ramos-Rodriguez M"],"funding":["EFSD/JDRF/Lilly Programme on Type 1 Diabetes Research","Spanish Ministry of Economy and Competiveness"],"pagination":["4240-4242"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC9502148"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["37(22)"],"pubmed_abstract":["<h4>Motivation</h4>UMI-4C, a technique that combines chromosome conformation capture (4C) and unique molecular identifiers (UMI), is widely used to profile and quantitatively compare targeted chromosomal contact profiles. The analysis of UMI-4C experiments presents several computational challenges, including the removal of the PCR duplication bias and the identification of differential chromatin contacts.<h4>Results</h4>We have developed UMI4Cats (UMI-4C Analysis Turned Simple), an R package that facilitates processing, analyzing and visualizing of data obtained by UMI-4C experiments.<h4>Availability and implementation</h4>UMI4Cats is implemented as an R package supported on Linux, MacOS and MS Windows. UMI4Cats is available from Bioconductor (https://www.bioconductor.org/packages/release/bioc/html/UMI4Cats.html) and GitHub (https://github.com/Pasquali-lab/UMI4Cats).<h4>Supplementary information</h4>Supplementary data are available at Bioinformatics online."],"journal":["Bioinformatics (Oxford, England)"],"pubmed_title":["UMI4Cats: an R package to analyze chromatin contact profiles obtained by UMI-4C."],"pmcid":["PMC9502148"],"funding_grant_id":["CEX2018-000792-M","SAF2017-86242-R"],"pubmed_authors":["Ramos-Rodriguez M","Pasquali L","Subirana-Granes M"],"additional_accession":[]},"is_claimable":false,"name":"UMI4Cats: an R package to analyze chromatin contact profiles obtained by UMI-4C.","description":"<h4>Motivation</h4>UMI-4C, a technique that combines chromosome conformation capture (4C) and unique molecular identifiers (UMI), is widely used to profile and quantitatively compare targeted chromosomal contact profiles. The analysis of UMI-4C experiments presents several computational challenges, including the removal of the PCR duplication bias and the identification of differential chromatin contacts.<h4>Results</h4>We have developed UMI4Cats (UMI-4C Analysis Turned Simple), an R package that facilitates processing, analyzing and visualizing of data obtained by UMI-4C experiments.<h4>Availability and implementation</h4>UMI4Cats is implemented as an R package supported on Linux, MacOS and MS Windows. UMI4Cats is available from Bioconductor (https://www.bioconductor.org/packages/release/bioc/html/UMI4Cats.html) and GitHub (https://github.com/Pasquali-lab/UMI4Cats).<h4>Supplementary information</h4>Supplementary data are available at Bioinformatics online.","dates":{"release":"2021-01-01T00:00:00Z","publication":"2021 Nov","modification":"2025-04-19T03:33:44.959Z","creation":"2025-04-07T13:42:26.725Z"},"accession":"S-EPMC9502148","cross_references":{"pubmed":["34009302"],"doi":["10.1093/bioinformatics/btab392"]}}