Valentina Boeva

27 papers A* 1A 1B 1Journal 23Unranked 1
YearRankTypeTitle / Venue / Authors
2025 J jnl
Generalized Linear Mode Connectivity for Transformers.
CoRR
Alexander Theus, Alessandro Cabodi, Sotiris Anagnostidis, Antonio Orvieto, Sidak Pal Singh, Valentina Boeva
2025 J jnl
SurvBoard: standardized benchmarking for multi-omics cancer survival models.
Briefings Bioinform.
David Wissel, Nikita Janakarajan, Aayush Grover, Enrico Toniato, María Rodríguez Martínez, Valentina Boeva
2025 A* conf
scSSL-Bench: Benchmarking Self-Supervised Learning for Single-Cell Data.
ICML
Olga Ovcharenko, Florian Barkmann, Philip Toma, Imant Daunhawer, Julia E. Vogt, Sebastian Schelter, Valentina Boeva
2025 J jnl
scSSL-Bench: Benchmarking Self-Supervised Learning for Single-Cell Data.
CoRR
Olga Ovcharenko, Florian Barkmann, Philip Toma, Imant Daunhawer, Julia E. Vogt, Sebastian Schelter, Valentina Boeva
2024 A conf
Feature Clock: High-Dimensional Effects in Two-Dimensional Plots.
IEEE VIS
Olga Ovcharenko, Rita Sevastjanova, Valentina Boeva
2024 J jnl
Feature Clock: High-Dimensional Effects in Two-Dimensional Plots.
CoRR
Olga Ovcharenko, Rita Sevastjanova, Valentina Boeva
2024 — conf
Histopathological Image Classification with Cell Morphology Aware Deep Neural Networks.
CVPR Workshops
Andrey Ignatov, Josephine Yates, Valentina Boeva
2024 J jnl
Histopathological Image Classification with Cell Morphology Aware Deep Neural Networks.
CoRR
Andrey Ignatov, Josephine Yates, Valentina Boeva
2024 J jnl
scTree: Discovering Cellular Hierarchies in the Presence of Batch Effects in scRNA-seq Data.
CoRR
Moritz Vandenhirtz, Florian Barkmann, Laura Manduchi, Julia E. Vogt, Valentina Boeva
2022 J jnl
Deciphering the etiology and role in oncogenic transformation of the CpG island methylator phenotype: a pan-cancer analysis.
Briefings Bioinform.
Josephine Yates, Valentina Boeva
2021 J jnl
CHIPIN: ChIP-seq inter-sample normalization based on signal invariance across transcriptionally constant genes.
BMC Bioinform.
Lélia Polit, Gwenneg Kerdivel, Sebastian Gregoricchio, Michela Esposito, Christel Guillouf, Valentina Boeva
2018 J jnl
QuantumClone: clonal assessment of functional mutations in cancer based on a genotype-aware method for clonal reconstruction.
Bioinform.
Paul Deveau, Leo Colmet Daage, Derek Oldridge, Virginie Bernard, Angela Bellini, Mathieu Chicard, Nathalie Clement, Eve Lapouble, Valerie Combaret, Anne Boland, Vincent Meyer, Jean-François Deleuze, Isabelle Janoueix-Lerosey, Emmanuel Barillot, Olivier Delattre, John M. Maris, Gudrun Schleiermacher, Valentina Boeva
2016 J jnl
Calculating Biological Module Enrichment or Depletion and Visualizing Data on Large-scale Molecular Maps with ACSNMineR and RNaviCell Packages.
R J.
Paul Deveau, Emmanuel Barillot, Valentina Boeva, Andrei Yu. Zinovyev, Eric Bonnet
2016 J jnl
RNF: a general framework to evaluate NGS read mappers.
Bioinform.
Karel Brinda, Valentina Boeva, Gregory Kucherov
2016 J jnl
SV-Bay: structural variant detection in cancer genomes using a Bayesian approach with correction for GC-content and read mappability.
Bioinform.
Daria Iakovishina, Isabelle Janoueix-Lerosey, Emmanuel Barillot, Mireille Régnier, Valentina Boeva
2014 J jnl
Multi-factor data normalization enables the detection of copy number aberrations in amplicon sequencing data.
Bioinform.
Valentina Boeva, Tatiana G. Popova, Maxime Lienard, Sebastien Toffoli, Maud Kamal, Christophe Le Tourneau, David Gentien, Nicolas Servant, Pierre Gestraud, Thomas Rio Frio, Philippe Hupé, Emmanuel Barillot, Jean-François Laes
2014 J jnl
SegAnnDB: interactive Web-based genomic segmentation.
Bioinform.
Toby Dylan Hocking, Valentina Boeva, Guillem Rigaill, Gudrun Schleiermacher, Isabelle Janoueix-Lerosey, Olivier Delattre, Wilfrid Richer, Franck Bourdeaut, Miyuki Suguro, Masao Seto, Francis R. Bach, Jean-Philippe Vert
2013 J jnl
HMCan: a method for detecting chromatin modifications in cancer samples using ChIP-seq data.
Bioinform.
Haitham Ashoor, Aurélie Hérault, Aurélie Kamoun, François Radvanyi, Vladimir B. Bajic, Emmanuel Barillot, Valentina Boeva
2013 J jnl
Learning smoothing models of copy number profiles using breakpoint annotations.
BMC Bioinform.
Toby Dylan Hocking, Gudrun Schleiermacher, Isabelle Janoueix-Lerosey, Valentina Boeva, Julie Cappo, Olivier Delattre, Francis R. Bach, Jean-Philippe Vert
2012 J jnl
Control-FREEC: a tool for assessing copy number and allelic content using next-generation sequencing data.
Bioinform.
Valentina Boeva, Tatiana G. Popova, Kevin Bleakley, Pierre Chiche, Julie Cappo, Gudrun Schleiermacher, Isabelle Janoueix-Lerosey, Olivier Delattre, Emmanuel Barillot
2012 J jnl
Nebula - a web-server for advanced ChIP-seq data analysis.
Bioinform.
Valentina Boeva, Alban Lermine, Camille Barette, Christel Guillouf, Emmanuel Barillot
2011 J jnl
Control-free calling of copy number alterations in deep-sequencing data using GC-content normalization.
Bioinform.
Valentina Boeva, Andrei Yu. Zinovyev, Kevin Bleakley, Jean-Philippe Vert, Isabelle Janoueix-Lerosey, Olivier Delattre, Emmanuel Barillot
2010 J jnl
Deep and wide digging for binding motifs in ChIP-Seq data.
Bioinform.
Ivan V. Kulakovskiy, Valentina Boeva, Alexander V. Favorov, Vsevolod J. Makeev
2010 J jnl
SVDetect: a tool to identify genomic structural variations from paired-end and mate-pair sequencing data.
Bioinform.
Bruno Zeitouni, Valentina Boeva, Isabelle Janoueix-Lerosey, Sophie Loeillet, Patricia Legoix-né, Alain Nicolas, Olivier Delattre, Emmanuel Barillot
2007 J jnl
Exact p-value calculation for heterotypic clusters of regulatory motifs and its application in computational annotation of
Algorithms Mol. Biol.
Valentina Boeva, Julien Clément, Mireille Régnier, Mikhail A. Roytberg, Vsevolod J. Makeev
2006 J jnl
Short fuzzy tandem repeats in genomic sequences, identification, and possible role in regulation of gene expression.
Bioinform.
Valentina Boeva, Mireille Régnier, Dmitri A. Papatsenko, Vsevolod J. Makeev
2005 B conf
Assessing the Significance of Sets of Words.
CPM
Valentina Boeva, Julien Clément, Mireille Régnier, Mathias Vandenbogaert