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Items: 18

1.

Author Correction: New insight for pharmacogenomics studies from the transcriptional analysis of two large-scale cancer cell line panels.

Sadacca B, Hamy AS, Laurent C, Gestraud P, Bonsang-Kitzis H, Pinheiro A, Abecassis J, Neuvial P, Reyal F.

Sci Rep. 2018 Dec 13;8(1):17945. doi: 10.1038/s41598-018-36812-3.

2.

New insight for pharmacogenomics studies from the transcriptional analysis of two large-scale cancer cell line panels.

Sadacca B, Hamy AS, Laurent C, Gestraud P, Bonsang-Kitzis H, Pinheiro A, Abecassis J, Neuvial P, Reyal F.

Sci Rep. 2017 Nov 9;7(1):15126. doi: 10.1038/s41598-017-14770-6. Erratum in: Sci Rep. 2018 Dec 13;8(1):17945.

3.

A model for gene deregulation detection using expression data.

Picchetti T, Chiquet J, Elati M, Neuvial P, Nicolle R, Birmelé E.

BMC Syst Biol. 2015;9 Suppl 6:S6. doi: 10.1186/1752-0509-9-S6-S6. Epub 2015 Dec 9.

4.

tmle.npvi: targeted, integrative search of associations between DNA copy number and gene expression, accounting for DNA methylation.

Chambaz A, Neuvial P.

Bioinformatics. 2015 Sep 15;31(18):3054-6. doi: 10.1093/bioinformatics/btv320. Epub 2015 May 21.

PMID:
26002884
5.

Performance of a blockwise approach in variable selection using linkage disequilibrium information.

Dehman A, Ambroise C, Neuvial P.

BMC Bioinformatics. 2015 May 8;16:148. doi: 10.1186/s12859-015-0556-6.

6.

Performance evaluation of DNA copy number segmentation methods.

Pierre-Jean M, Rigaill G, Neuvial P.

Brief Bioinform. 2015 Jul;16(4):600-15. doi: 10.1093/bib/bbu026. Epub 2014 Sep 8.

7.

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

Brito I, Hupé P, Neuvial P, Barillot E.

PLoS One. 2013 Dec 5;8(12):e81458. doi: 10.1371/journal.pone.0081458. eCollection 2013.

8.

Estimation of a non-parametric variable importance measure of a continuous exposure.

Chambaz A, Neuvial P, van der Laan MJ.

Electron J Stat. 2012;6:1059-1099.

9.

CalMaTe: a method and software to improve allele-specific copy number of SNP arrays for downstream segmentation.

Ortiz-Estevez M, Aramburu A, Bengtsson H, Neuvial P, Rubio A.

Bioinformatics. 2012 Jul 1;28(13):1793-4. doi: 10.1093/bioinformatics/bts248. Epub 2012 May 9.

10.

Subtype and pathway specific responses to anticancer compounds in breast cancer.

Heiser LM, Sadanandam A, Kuo WL, Benz SC, Goldstein TC, Ng S, Gibb WJ, Wang NJ, Ziyad S, Tong F, Bayani N, Hu Z, Billig JI, Dueregger A, Lewis S, Jakkula L, Korkola JE, Durinck S, Pepin F, Guan Y, Purdom E, Neuvial P, Bengtsson H, Wood KW, Smith PG, Vassilev LT, Hennessy BT, Greshock J, Bachman KE, Hardwicke MA, Park JW, Marton LJ, Wolf DM, Collisson EA, Neve RM, Mills GB, Speed TP, Feiler HS, Wooster RF, Haussler D, Stuart JM, Gray JW, Spellman PT.

Proc Natl Acad Sci U S A. 2012 Feb 21;109(8):2724-9. doi: 10.1073/pnas.1018854108. Epub 2011 Oct 14.

11.

Parent-specific copy number in paired tumor-normal studies using circular binary segmentation.

Olshen AB, Bengtsson H, Neuvial P, Spellman PT, Olshen RA, Seshan VE.

Bioinformatics. 2011 Aug 1;27(15):2038-46. doi: 10.1093/bioinformatics/btr329. Epub 2011 Jun 11.

12.

TumorBoost: normalization of allele-specific tumor copy numbers from a single pair of tumor-normal genotyping microarrays.

Bengtsson H, Neuvial P, Speed TP.

BMC Bioinformatics. 2010 May 12;11:245. doi: 10.1186/1471-2105-11-245.

13.

Identification of a CpG island methylator phenotype that defines a distinct subgroup of glioma.

Noushmehr H, Weisenberger DJ, Diefes K, Phillips HS, Pujara K, Berman BP, Pan F, Pelloski CE, Sulman EP, Bhat KP, Verhaak RG, Hoadley KA, Hayes DN, Perou CM, Schmidt HK, Ding L, Wilson RK, Van Den Berg D, Shen H, Bengtsson H, Neuvial P, Cope LM, Buckley J, Herman JG, Baylin SB, Laird PW, Aldape K; Cancer Genome Atlas Research Network.

Cancer Cell. 2010 May 18;17(5):510-22. doi: 10.1016/j.ccr.2010.03.017. Epub 2010 Apr 15.

14.

High-resolution mapping of DNA breakpoints to define true recurrences among ipsilateral breast cancers.

Bollet MA, Servant N, Neuvial P, Decraene C, Lebigot I, Meyniel JP, De Rycke Y, Savignoni A, Rigaill G, Hupé P, Fourquet A, Sigal-Zafrani B, Barillot E, Thiery JP.

J Natl Cancer Inst. 2008 Jan 2;100(1):48-58. Epub 2007 Dec 25.

PMID:
18159071
15.

LICORN: learning cooperative regulation networks from gene expression data.

Elati M, Neuvial P, Bolotin-Fukuhara M, Barillot E, Radvanyi F, Rouveirol C.

Bioinformatics. 2007 Sep 15;23(18):2407-14. Epub 2007 Aug 24.

PMID:
17720703
16.

CAPweb: a bioinformatics CGH array Analysis Platform.

Liva S, Hupé P, Neuvial P, Brito I, Viara E, La Rosa P, Barillot E.

Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W477-81.

17.

VAMP: visualization and analysis of array-CGH, transcriptome and other molecular profiles.

La Rosa P, Viara E, Hupé P, Pierron G, Liva S, Neuvial P, Brito I, Lair S, Servant N, Robine N, Manié E, Brennetot C, Janoueix-Lerosey I, Raynal V, Gruel N, Rouveirol C, Stransky N, Stern MH, Delattre O, Aurias A, Radvanyi F, Barillot E.

Bioinformatics. 2006 Sep 1;22(17):2066-73. Epub 2006 Jul 4.

PMID:
16820431
18.

Spatial normalization of array-CGH data.

Neuvial P, Hupé P, Brito I, Liva S, Manié E, Brennetot C, Radvanyi F, Aurias A, Barillot E.

BMC Bioinformatics. 2006 May 22;7:264.

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