TALC: Transcription Aware Long Read Correction

Autor: Broseus, Lucile, Thomas, Aubin, Oldfield, Andrew J., Severac, Dany, Dubois, Emeric, Ritchie, William

Motivation Long-read sequencing technologies are invaluable for determining complex RNA transcript architectures but are error-prone. Numerous “hybrid correction” algorithms have been developed for genomic data that correct long reads by exploiti

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=sharebioRxiv::f01c057ac696ea083a02383b80af13b7

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IRFinder: assessing the impact of intron retention on mammalian gene expression

Autor: Middleton, Robert, Gao, Dadi, Thomas, Aubin, Singh, Babita, Au, Amy, Wong, Justin J-L, Bomane, Alexandra, Cosson, Bertrand, Eyras, Eduardo, Rasko, John E. J., Ritchie, William

Publikováno v: Genome Biology
Genome Biology, BioMed Central, 2017, 18 (1), pp.51. ⟨10.1186/s13059-017-1184-4⟩
Recercat. Dipósit de la Recerca de Catalunya
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Genome Biology, 2017, 18 (1), pp.51. ⟨10.1186/s13059-017-1184-4⟩

Intron retention (IR) occurs when an intron is transcribed into pre-mRNA and remains in the final mRNA. We have developed a program and database called IRFinder to accurately detect IR from mRNA sequencing data. Analysis of 2573 samples showed that I

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=pmid_dedup__::7d7e69c34a85959a3b4332f25edb14a3
https://hal.archives-ouvertes.fr/hal-01497240/file/s13059-017-1184-4.pdf

Additional file 4: of IRFinder: assessing the impact of intron retention on mammalian gene expression

Autor: Middleton, Robert, Dadi Gao, Thomas, Aubin, Singh, Babita, Au, Amy, Wong, Justin, Bomane, Alexandra, Cosson, Bertrand, Eyras, Eduardo, Rasko, John, Ritchie, William

Splice site strength of IR events. (DOCX 618Â kb)

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::3c0e136bb73ee0f719b1475701f6c4f0

Additional file 2: of IRFinder: assessing the impact of intron retention on mammalian gene expression

Autor: Middleton, Robert, Dadi Gao, Thomas, Aubin, Singh, Babita, Au, Amy, Wong, Justin, Bomane, Alexandra, Cosson, Bertrand, Eyras, Eduardo, Rasko, John, Ritchie, William

Comparison of IRFinder with DEXSeq and MISO. (DOCX 86Â kb)

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::26fd48d854ea9a3637ba13b05dc80384