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Proceedings of the 7th European Conference on Python in Science (EuroSciPy 2014)

Pierre de Buyl , Nelle Varoquaux
Books hal-01584599v1

A new pairwise kernel for biological network inference with support vector machines.

Jean-Philippe Vert , Jian Qiu , William S Noble
BMC Bioinformatics, 2007, 8 Suppl 10, pp.S8. ⟨10.1186/1471-2105-8-S10-S8⟩
Journal articles hal-00433573v1

Supervised reconstruction of biological networks with local models.

Kevin Bleakley , Gérard Biau , Jean-Philippe Vert
Bioinformatics, 2007, 23 (13), pp.i57-65. ⟨10.1093/bioinformatics/btm204⟩
Journal articles hal-00433575v1

Effect Of Reproductive Factors And Body Mass Index On The Mutation Localization-Specific Risk Of Breast Cancer In The French National BRCA1/2 Carrier Cohort (GENEPSO)

Julie Lecarpentier , Catherine Nogues , Emmanuelle Mouret-Fourme , Dominique Stoppa-Lyonnet , Christine Lasset et al.
Annual meeting of the International Genetic Epidemiology Society, Sep 2011, Heidelberg, Germany. p. 156-157, ref 134, ⟨10.1002/gepi.21604⟩
Conference papers istex inserm-00690885v1

Comparing phylogenetic and statistical classification methods for DNA barcoding

Frédéric Austerlitz , Olivier David , Brigitte Schaeffer , Kevin Bleakley , Madalina Olteanu et al.
In Second International Barcode of Life Conference. Consortium for the Barcode of Life, Sep 2007, Taipei, Taiwan
Conference papers hal-02757822v1

Integrative approaches for the identification of therapeutic targets in basal-like breast cancer from multi-level molecular data

B. M. Tesson , Guillem Rigaill , D. Gentien , S. Roman-Roman , F. Cruzalegui et al.
22. Biennial Congress of the European Association for Cancer Research, Jul 2012, Barcelone, Spain. Elsevier Science LTD, European Journal of Cancer, 48 (Suppl. 5), 2012, European Journal of Cancer
Conference poster hal-01189748v1

Variation of Breast Cancer Risk in the French National BRCA1/2 Carrier Cohort (GENEPSO)

Julie Lecarpentier , Catherine Noguès , Emmanuelle Mouret-Fourme , Rosette Lidereau , Nadine Andrieu et al.
Eighteenth annual meeting of the International Genetic Epidemiology Society, Oct 2009, Kahuku, Hawaii, United States. page 819, 229, ⟨10.1002/gepi.20463⟩
Conference papers istex inserm-00610028v1

Three-dimensional modeling of the P. falciparum genome during the erythrocytic cycle reveals a strong connection between genome architecture and gene expression

Ferhat Ay , Evelien M. Bunnik , Nelle Varoquaux , Sebastiaan M. Bol , Jacques Prudhomme et al.
Genome Research, 2014, 24, pp.974-988. ⟨10.1101/gr.169417.113⟩
Journal articles hal-01101873v1

A community effort to assess and improve drug sensitivity prediction algorithms

James C Costello , Laura M Heiser , Elisabeth Georgii , Mehmet Gönen , Michael P Menden et al.
Nature Biotechnology, 2014, 32, pp.1202-1212. ⟨10.1038/nbt.2877⟩
Journal articles hal-01101874v1

Jarid2 Methylation via the PRC2 Complex Regulates H3K27me3 Deposition during Cell Differentiation.

Serena Sanulli , Neil Justin , Aurélie Teissandier , Katia Ancelin , Manuela Portoso et al.
Molecular Cell, 2015, 57 (5), pp.769-783. ⟨10.1016/j.molcel.2014.12.020⟩
Journal articles hal-01110498v1

A generic methodological framework for studying single cell motility in high-throughput time-lapse data

Alice Schoenauer Sebag , Sandra Plancade , Céline Raulet-Tomkiewicz , Robert Barouki , Jean-Philippe Vert et al.
Bioinformatics, 2015, 31 (12), pp.i320-i328. ⟨10.1093/bioinformatics/btv225⟩
Journal articles hal-01246689v1

Stability-based comparison of class discovery methods for DNA copy number profiles.

Isabel Brito , Philippe Hupé , Pierre Neuvial , Emmanuel Barillot
PLoS ONE, 2012, 8 (12), pp.e81458
Journal articles hal-01201580v1

Classification of microarray data using gene networks.

Franck Rapaport , Andrei Zinovyev , Marie Dutreix , Emmanuel Barillot , Jean-Philippe Vert et al.
BMC Bioinformatics, 2007, 8, pp.35. ⟨10.1186/1471-2105-8-35⟩
Journal articles hal-00433577v1

An accurate and interpretable model for siRNA efficacy prediction.

Jean-Philippe Vert , Nicolas Foveau , Christian Lajaunie , Yves Vandenbrouck
BMC Bioinformatics, 2006, 7, pp.520. ⟨10.1186/1471-2105-7-520⟩
Journal articles hal-00433579v1

Efficient peptide-MHC-I binding prediction for alleles with few known binders.

Laurent Jacob , Jean-Philippe Vert
Bioinformatics, 2008, 24 (3), pp.358-66. ⟨10.1093/bioinformatics/btm611⟩
Journal articles hal-00433574v1

Graph kernels for molecular structure-activity relationship analysis with support vector machines.

Pierre Mahé , Nobuhisa Ueda , Tatsuya Akutsu , Jean-Luc Perret , Jean-Philippe Vert et al.
Journal of Chemical Information and Modeling, 2005, 45 (4), pp.939-51. ⟨10.1021/ci050039t⟩
Journal articles hal-00433584v1

A structural alignment kernel for protein structures.

Jian Qiu , Martial Hue , Asa Ben-Hur , Jean-Philippe Vert , William Stafford Noble et al.
Bioinformatics, 2007, 23 (9), pp.1090-8. ⟨10.1093/bioinformatics/btl642⟩
Journal articles hal-00433578v1

The pharmacophore kernel for virtual screening with support vector machines.

Pierre Mahé , Liva Ralaivola , Véronique Stoven , Jean-Philippe Vert
Journal of Chemical Information and Modeling, 2006, 46 (5), pp.2003-14. ⟨10.1021/ci060138m⟩
Journal articles hal-00433580v1

A Genomic Multiprocess Survey of Machineries that Control and Link Cell Shape, Microtubule Organization, and Cell-Cycle Progression

Veronika Graml , Xenia Studera , Jonathan L.D. Lawson , Anatole Chessel , Marco Geymonat et al.
Developmental Cell, 2014, 31 (2), pp.227-239. ⟨10.1016/j.devcel.2014.09.005⟩
Journal articles hal-01101880v1

Impaired PRC2 activity promotes transcriptional instability and favors breast tumorigenesis

Michel Adam Wassef , Verónica Rodilla , Aurélie Teissandier , Bruno Zeitouni , Nadège Gruel et al.
Genes and Development, 2015, 29 (24), pp.2547-2562. ⟨10.1101/gad.269522.115⟩
Journal articles hal-02559123v1

Toll-like receptor control of glucocorticoid-induced apoptosis in human plasmacytoid pre-dendritic cells (pDC).

Y. Lepelletier , R. Zollinger , C. Ghirelli , F. Raynaud , R. Hadj-Slimane et al.
Blood, 2010, 116, pp.3389-3397. ⟨10.1182/blood-2010-05-282913⟩
Journal articles hal-00508701v1

Identification of chemogenomic features from drug-target interaction networks using interpretable classifiers

Y. Tabei , E. Pauwels , Véronique Stoven , K. Takemoto , Y. Yamanishi et al.
Bioinformatics, 2012, 28 (18), pp.i487-i494. ⟨10.1093/bioinformatics/bts412⟩
Journal articles hal-03116929v1

Assessment of algorithms for mitosis detection in breast cancer histopathology images

Mitko Veta , Paul J. Van Diest , Stefan M. Willems , Haibo Wang , Anant Madabhushi et al.
Medical Image Analysis, 2015, 20 (1), pp.237-248. ⟨10.1016/⟩
Journal articles hal-01246695v1

SV-Bay: structural variant detection in cancer genomes using a Bayesian approach with correction for GC-content and read mappability

D Iakovishina , Isabelle Janoueix-Lerosey , Emmanuel Barillot , Mireille Regnier , Valentina Boeva et al.
Preprints, Working Papers, ... hal-01217891v1

[Multisite validation study of questionnaire assessing out-patient satisfaction with care questionnaire in ambulatory chemotherapy or radiotherapy treatment]

Rollon Poinsot , A. Altmeyer , T. Conroy , A. Savignoni , B. Asselain et al.
Bulletin du Cancer, 2006, 93 (3), pp.315-327
Journal articles hal-00486947v1

On learning matrices with orthogonal columns or disjoint supports

Kevin Vervier , Pierre Mahé , Alexandre d'Aspremont , Jean-Baptiste Veyrieras , Jean-Philippe Vert et al.
European Conference, ECML PKDD 2014, Sep 2014, Nancy, France. pp.274-289, ⟨10.1007/978-3-662-44845-8_18⟩
Conference papers hal-01101875v1

Integration of biological data by kernels on graph nodes allows prediction of new genes involved in mitotic chromosome condensation

Jean-Karim Hériché , Jon G. Lees , Ian Morilla , Thomas Walter , Boryana Petrova et al.
Molecular Biology of the Cell, 2014, 25 (16), pp.2522-2536. ⟨10.1091/mbc.E13-04-0221⟩
Journal articles hal-01101877v1

Optimizing amino acid substitution matrices with a local alignment kernel.

Hiroto Saigo , Jean-Philippe Vert , Tatsuya Akutsu
BMC Bioinformatics, 2006, 7, pp.246. ⟨10.1186/1471-2105-7-246⟩
Journal articles hal-00433581v1

A novel representation of protein sequences for prediction of subcellular location using support vector machines.

Setsuro Matsuda , Jean-Philippe Vert , Hiroto Saigo , Nobuhisa Ueda , Hiroyuki Toh et al.
Protein Science, 2005, 14 (11), pp.2804-13. ⟨10.1110/ps.051597405⟩
Journal articles hal-00433582v1

Learning Sparse Penalties for Change-Point Detection using Max Margin Interval Regression

Guillem Rigaill , Toby Dylan Hocking , Francis Bach , Jean-Philippe Vert
ICML 2013 - 30 th International Conference on Machine Learning, Supported by the International Machine Learning Society (IMLS), Jun 2013, Atlanta, United States
Conference papers hal-00824075v1