{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,2,22]],"date-time":"2025-02-22T00:38:53Z","timestamp":1740184733876,"version":"3.37.3"},"reference-count":14,"publisher":"Oxford University Press (OUP)","issue":"6","license":[{"start":{"date-parts":[[2019,11,7]],"date-time":"2019-11-07T00:00:00Z","timestamp":1573084800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"AIRC Start-up","award":["16841"],"award-info":[{"award-number":["16841"]}]},{"name":"AIRC fellowship","award":["21012"],"award-info":[{"award-number":["21012"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,3,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>Genome-wide chromosome conformation capture based on high-throughput sequencing (Hi-C) has been widely adopted to study chromatin architecture by generating datasets of ever-increasing complexity and size. HiCBricks offers user-friendly and efficient solutions for handling large high-resolution Hi-C datasets. The package provides an R\/Bioconductor framework with the bricks to build more complex data analysis pipelines and algorithms. HiCBricks already incorporates functions for calling domain boundaries and functions for high-quality data visualization.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>http:\/\/bioconductor.org\/packages\/devel\/bioc\/html\/HiCBricks.html.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btz808","type":"journal-article","created":{"date-parts":[[2019,11,5]],"date-time":"2019-11-05T13:28:45Z","timestamp":1572960525000},"page":"1917-1919","source":"Crossref","is-referenced-by-count":7,"title":["HiCBricks: building blocks for efficient handling of large Hi-C datasets"],"prefix":"10.1093","volume":"36","author":[{"given":"Koustav","family":"Pal","sequence":"first","affiliation":[{"name":"IFOM, The FIRC Institute of Molecular Oncology , Milan, Italy"}]},{"given":"Ilario","family":"Tagliaferri","sequence":"additional","affiliation":[{"name":"IFOM, The FIRC Institute of Molecular Oncology , Milan, Italy"}]},{"given":"Carmen Maria","family":"Livi","sequence":"additional","affiliation":[{"name":"IFOM, The FIRC Institute of Molecular Oncology , Milan, Italy"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9811-3753","authenticated-orcid":false,"given":"Francesco","family":"Ferrari","sequence":"additional","affiliation":[{"name":"IFOM, The FIRC Institute of Molecular Oncology , Milan, Italy"},{"name":"Institute of Molecular Genetics, National Research Council , Pavia, Italy"}]}],"member":"286","published-online":{"date-parts":[[2019,11,7]]},"reference":[{"key":"2023060911592000600_btz808-B1","doi-asserted-by":"crossref","first-page":"557","DOI":"10.1016\/j.cell.2017.09.043","article-title":"Multiscale 3D genome rewiring during mouse neural development","volume":"171","author":"Bonev","year":"2017","journal-title":"Cell"},{"key":"2023060911592000600_btz808-B2","doi-asserted-by":"crossref","first-page":"376","DOI":"10.1038\/nature11082","article-title":"Topological domains in mammalian genomes identified by analysis of chromatin interactions","volume":"485","author":"Dixon","year":"2012","journal-title":"Nature"},{"key":"2023060911592000600_btz808-B3","doi-asserted-by":"crossref","first-page":"95","DOI":"10.1016\/j.cels.2016.07.002","article-title":"Juicer provides a one-click system for analyzing loop-resolution Hi-C experiments","volume":"3","author":"Durand","year":"2016","journal-title":"Cell Syst"},{"key":"2023060911592000600_btz808-B4","doi-asserted-by":"crossref","first-page":"679","DOI":"10.1038\/nmeth.4325","article-title":"Comparison of computational methods for Hi-C data analysis","volume":"14","author":"Forcato","year":"2017","journal-title":"Nat. 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