Emanuele Raineri

Emanuele Raineri

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Emanuele Raineri

Emanuele Raineri

Publications by authors named "Emanuele Raineri"

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24Publications

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Recurrent somatic mutations reveal new insights into consequences of mutagenic processes in cancer.

PLoS Comput Biol 2019 Nov 25;15(11):e1007496. Epub 2019 Nov 25.

CNAG-CRG, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology, Barcelona, Spain.

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http://dx.doi.org/10.1371/journal.pcbi.1007496DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6901237PMC
November 2019

The neutral frequency spectrum of linked sites.

Theor Popul Biol 2018 09 28;123:70-79. Epub 2018 Jun 28.

Institut de Systématique, Evolution, Biodiversité, UMR 7205, MNHN and Centre Interdisciplinaire de Recherche en Biologie, UMR 7241, Collége de France, Paris, France.

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https://linkinghub.elsevier.com/retrieve/pii/S00405809173013
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http://dx.doi.org/10.1016/j.tpb.2018.06.001DOI Listing
September 2018

A novel translational control mechanism involving RNA structures within coding sequences.

Genome Res 2017 01 7;27(1):95-106. Epub 2016 Nov 7.

Molecular Virology Group, Department of Experimental and Health Sciences, Universitat Pompeu Fabra, 08003 Barcelona, Spain.

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http://dx.doi.org/10.1101/gr.209015.116DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5204348PMC
January 2017

Distinct Trends of DNA Methylation Patterning in the Innate and Adaptive Immune Systems.

Cell Rep 2016 11;17(8):2101-2111

CNAG-CRG, Centre for Genomic Regulation (CRG), Barcelona Institute of Science and Technology (BIST), Baldiri i Reixac 4, Barcelona 08028, Spain; Universitat Pompeu Fabra (UPF), Barcelona 08002, Spain. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2016.10.054DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5889099PMC
November 2016

A comprehensive assessment of somatic mutation detection in cancer using whole-genome sequencing.

Nat Commun 2015 Dec 9;6:10001. Epub 2015 Dec 9.

CNAG-CRG, Centre for Genomic Regulation, Barcelona Institute of Science and Technology (BIST), Baldiri i Reixac 4, 08028 Barcelona, Spain.

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http://dx.doi.org/10.1038/ncomms10001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4682041PMC
December 2015

A note on exact differences between beta distributions in genomic (Methylation) studies.

PLoS One 2014 13;9(5):e97349. Epub 2014 May 13.

Statistical Genomics, Centro Nacional de Análisis Genómico, Barcelona, Catalonia, Spain.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0097349PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4019606PMC
December 2014

Modelling and simulating generic RNA-Seq experiments with the flux simulator.

Nucleic Acids Res 2012 Nov 7;40(20):10073-83. Epub 2012 Sep 7.

Bioinformatics and Genomics Program, Centre de Regulació Genòmica (CRG), 08003 Barcelona, Spain.

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https://academic.oup.com/nar/article-lookup/doi/10.1093/nar/
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http://dx.doi.org/10.1093/nar/gks666DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3488205PMC
November 2012

SNP calling by sequencing pooled samples.

BMC Bioinformatics 2012 Sep 20;13:239. Epub 2012 Sep 20.

Centro Nacional de Análisis Genómico, Parc Científic de Barcelona, Barcelona, 08028, Spain.

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http://dx.doi.org/10.1186/1471-2105-13-239DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3475117PMC
September 2012

Neutrality tests for sequences with missing data.

Genetics 2012 Aug 1;191(4):1397-401. Epub 2012 Jun 1.

Centre for Research in Agricultural Genomics, 08193 Bellaterra, Spain.

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http://dx.doi.org/10.1534/genetics.112.139949DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3416018PMC
August 2012

Fast computation and applications of genome mappability.

PLoS One 2012 19;7(1):e30377. Epub 2012 Jan 19.

Institut de Génétique et Développement (IGDR), Université Rennes 1, Rennes, France.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0030377PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3261895PMC
June 2012

BlastR--fast and accurate database searches for non-coding RNAs.

Nucleic Acids Res 2011 Sep 30;39(16):6886-95. Epub 2011 May 30.

Bioinformatics and Genomics program, Center for Genomic Regulation (CRG) and UPF, Barcelona, C/ D. Aiguader, 88, 08003 Barcelona, Spain.

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http://dx.doi.org/10.1093/nar/gkr335DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3167602PMC
September 2011

Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo): genome assembly and analysis.

PLoS Biol 2010 Sep 7;8(9). Epub 2010 Sep 7.

Avian Immunobiology Laboratory, Department of Animal and Poultry Sciences, Virginia Tech, Blacksburg, Virginia, United States of America.

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http://dx.doi.org/10.1371/journal.pbio.1000475DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2935454PMC
September 2010

A more precise characterization of chaperonin substrates.

Bioinformatics 2010 Jul 2;26(14):1685-9. Epub 2010 Jun 2.

CNAG Centro Nacional de Análisis Genómico, Parc Cientific de Barcelona, Baldiri Reixac 4, E-08028 Barcelona, Spain.

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http://dx.doi.org/10.1093/bioinformatics/btq287DOI Listing
July 2010

Faster exact Markovian probability functions for motif occurrences: a DFA-only approach.

Bioinformatics 2008 Dec 9;24(24):2839-48. Epub 2008 Oct 9.

Bioinformatics and Genomics Unit, Center for Genomic Regulation, C/ Dr.Aiguader 88, E08003 Barcelona, Spain.

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http://dx.doi.org/10.1093/bioinformatics/btn525DOI Listing
December 2008

Evolvability and hierarchy in rewired bacterial gene networks.

Nature 2008 Apr;452(7189):840-5

EMBL/CRG Systems Biology Research Unit, Centre for Genomic Regulation (CRG), UPF, 08003 Barcelona, Spain.

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http://dx.doi.org/10.1038/nature06847DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2666274PMC
April 2008