V
Valentina Boeva
Researcher at Paris Descartes University
Publications - 71
Citations - 4273
Valentina Boeva is an academic researcher from Paris Descartes University. The author has contributed to research in topics: Biology & Gene. The author has an hindex of 28, co-authored 61 publications receiving 3420 citations. Previous affiliations of Valentina Boeva include Centre national de la recherche scientifique & King Abdullah University of Science and Technology.
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Journal ArticleDOI
Control-FREEC
Valentina Boeva,Tatiana Popova,Kevin Bleakley,Pierre Chiche,Julie Cappo,Gudrun Schleiermacher,Isabelle Janoueix-Lerosey,Olivier Delattre,Emmanuel Barillot +8 more
TL;DR: The tool Control-FREEC is presented, that enables automatic calculation of copy number and allelic content profiles from NGS data, and consequently predicts regions of genomic alteration such as gains, losses and LOH.
Journal ArticleDOI
Heterogeneity of neuroblastoma cell identity defined by transcriptional circuitries
Valentina Boeva,Valentina Boeva,Caroline Louis-Brennetot,Agathe Peltier,Simon Durand,Cécile Pierre-Eugène,Virginie Raynal,Virginie Raynal,Heather C. Etchevers,Sophie Thomas,Alban Lermine,Estelle Daudigeos-Dubus,Birgit Geoerger,Martin F. Orth,Thomas G. P. Grunewald,Elise Diaz,Elise Diaz,Bertrand Ducos,Bertrand Ducos,Bertrand Ducos,Didier Surdez,Angel M. Carcaboso,Irina V. Medvedeva,Thomas Deller,Valérie Combaret,Eve Lapouble,Gaëlle Pierron,Sandrine Grossetête-Lalami,Sylvain Baulande,Gudrun Schleiermacher,Emmanuel Barillot,Hermann Rohrer,Olivier Delattre,Olivier Delattre,Isabelle Janoueix-Lerosey,Isabelle Janoueix-Lerosey +35 more
TL;DR: This work discovered three types of identity in neuroblastoma cell lines: a sympathetic noradrenergic identity, defined by a CRC module including the PHOX2B, HAND2 and GATA3 transcription factors (TFs); an NCC-like identity, driven by aRC module containing AP-1 TFs; and a mixed type, further deconvoluted at the single-cell level.
Journal ArticleDOI
Control-free calling of copy number alterations in deep-sequencing data using GC-content normalization
Valentina Boeva,Andrei Zinovyev,Kevin Bleakley,Jean-Philippe Vert,Isabelle Janoueix-Lerosey,Olivier Delattre,Emmanuel Barillot +6 more
TL;DR: It is demonstrated that for Illumina single-end, mate-pair or paired-end sequencing, GC-contentr normalization provides smooth profiles that can be further segmented and analyzed in order to predict CNAs and FREEC (control-FREE Copy number caller) automatically normalizes and segments copy number profiles (CNPs) and calls CNAs.
Journal ArticleDOI
Jarid2 Is Implicated in the Initial Xist-Induced Targeting of PRC2 to the Inactive X Chromosome
Simão Teixeira da Rocha,Valentina Boeva,Martin Escamilla-Del-Arenal,Katia Ancelin,Camille Granier,Neuza Reis Matias,Serena Sanulli,Jen Chow,Edda G. Schulz,Christel Picard,Syuzo Kaneko,Kristian Helin,Danny Reinberg,A. Francis Stewart,Anton Wutz,Raphaël Margueron,Edith Heard +16 more
TL;DR: It is shown that Jarid2 loss prevents efficient PRC2 and H3K27me3 enrichment to Xist-coated chromatin, and represents an important intermediate between PRC 2 and Xist RNA for the initial targeting of thePRC2 complex to the X chromosome during onset of XCI.
Journal ArticleDOI
Computational pan-genomics: status, promises and challenges.
Tobias Marschall,Manja Marz,Manja Marz,Thomas Abeel,Louis Dijkstra,Bas E. Dutilh,Ali Ghaffaari,Ali Ghaffaari,Paul Kersey,Wigard P. Kloosterman,Veli Mäkinen,Adam M. Novak,Benedict Paten,David Porubsky,Eric Rivals,Can Alkan,Jasmijn A. Baaijens,Paul I.W. de Bakker,Valentina Boeva,Raoul J. P. Bonnal,Francesca Chiaromonte,Rayan Chikhi,Francesca D. Ciccarelli,Robin Cijvat,Erwin Datema,Cornelia M. van Duijn,Evan E. Eichler,Evan E. Eichler,Corinna Ernst,Eleazar Eskin,Erik Garrison,Mohammed El-Kebir,Gunnar W. Klau,Jan O. Korbel,Eric-Wubbo Lameijer,Benjamin Langmead,Marcel Martin,Paul Medvedev,John C. Mu,Pieter B. Neerincx,Klaasjan G. Ouwens,Pierre Peterlongo,Nadia Pisanti,Sven Rahmann,Ben Raphael,Knut Reinert,Dick de Ridder,Jeroen de Ridder,Matthias Schlesner,Ole Schulz-Trieglaff,Ashley D. Sanders,Siavash Sheikhizadeh,Carl Shneider,Sandra Smit,Daniel Valenzuela,Jiayin Wang,Lodewyk F. A. Wessels,Y. Zhang,Victor Guryev,Fabio Vandin,Kai Ye,Alexander Schönhuth +61 more
TL;DR: Already available approaches to construct and use pan-genomes are examined, the potential benefits of future technologies and methodologies are discussed, and open challenges from the vantage point of the above-mentioned biological disciplines are reviewed.