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Items: 34

1.

Staphylococcus aureus Transcriptome Architecture: From Laboratory to Infection-Mimicking Conditions.

Mäder U, Nicolas P, Depke M, Pané-Farré J, Debarbouille M, van der Kooi-Pol MM, Guérin C, Dérozier S, Hiron A, Jarmer H, Leduc A, Michalik S, Reilman E, Schaffer M, Schmidt F, Bessières P, Noirot P, Hecker M, Msadek T, Völker U, van Dijl JM.

PLoS Genet. 2016 Apr 1;12(4):e1005962. doi: 10.1371/journal.pgen.1005962. eCollection 2016 Apr.

2.

Overview of the gene regulation network and the bacteria biotope tasks in BioNLP'13 shared task.

Bossy R, Golik W, Ratkovic Z, Valsamou D, Bessières P, Nédellec C.

BMC Bioinformatics. 2015;16 Suppl 10:S1. doi: 10.1186/1471-2105-16-S10-S1. Epub 2015 Jul 13.

3.

Bacillus subtilis RNase Y activity in vivo analysed by tiling microarrays.

Laalami S, Bessières P, Rocca A, Zig L, Nicolas P, Putzer H.

PLoS One. 2013;8(1):e54062. doi: 10.1371/journal.pone.0054062. Epub 2013 Jan 10.

4.

Genome-wide identification of genes directly regulated by the pleiotropic transcription factor Spx in Bacillus subtilis.

Rochat T, Nicolas P, Delumeau O, Rabatinová A, Korelusová J, Leduc A, Bessières P, Dervyn E, Krásny L, Noirot P.

Nucleic Acids Res. 2012 Oct;40(19):9571-83. doi: 10.1093/nar/gks755. Epub 2012 Aug 16.

5.

BioNLP Shared Task--The Bacteria Track.

Bossy R, Jourde J, Manine AP, Veber P, Alphonse E, van de Guchte M, Bessières P, Nédellec C.

BMC Bioinformatics. 2012 Jun 26;13 Suppl 11:S3. doi: 10.1186/1471-2105-13-S11-S3.

6.

Three essential ribonucleases-RNase Y, J1, and III-control the abundance of a majority of Bacillus subtilis mRNAs.

Durand S, Gilet L, Bessières P, Nicolas P, Condon C.

PLoS Genet. 2012;8(3):e1002520. doi: 10.1371/journal.pgen.1002520. Epub 2012 Mar 8.

7.

Condition-dependent transcriptome reveals high-level regulatory architecture in Bacillus subtilis.

Nicolas P, Mäder U, Dervyn E, Rochat T, Leduc A, Pigeonneau N, Bidnenko E, Marchadier E, Hoebeke M, Aymerich S, Becher D, Bisicchia P, Botella E, Delumeau O, Doherty G, Denham EL, Fogg MJ, Fromion V, Goelzer A, Hansen A, Härtig E, Harwood CR, Homuth G, Jarmer H, Jules M, Klipp E, Le Chat L, Lecointe F, Lewis P, Liebermeister W, March A, Mars RA, Nannapaneni P, Noone D, Pohl S, Rinn B, Rügheimer F, Sappa PK, Samson F, Schaffer M, Schwikowski B, Steil L, Stülke J, Wiegert T, Devine KM, Wilkinson AJ, van Dijl JM, Hecker M, Völker U, Bessières P, Noirot P.

Science. 2012 Mar 2;335(6072):1103-6. doi: 10.1126/science.1206848.

8.

Global network reorganization during dynamic adaptations of Bacillus subtilis metabolism.

Buescher JM, Liebermeister W, Jules M, Uhr M, Muntel J, Botella E, Hessling B, Kleijn RJ, Le Chat L, Lecointe F, Mäder U, Nicolas P, Piersma S, Rügheimer F, Becher D, Bessieres P, Bidnenko E, Denham EL, Dervyn E, Devine KM, Doherty G, Drulhe S, Felicori L, Fogg MJ, Goelzer A, Hansen A, Harwood CR, Hecker M, Hubner S, Hultschig C, Jarmer H, Klipp E, Leduc A, Lewis P, Molina F, Noirot P, Peres S, Pigeonneau N, Pohl S, Rasmussen S, Rinn B, Schaffer M, Schnidder J, Schwikowski B, Van Dijl JM, Veiga P, Walsh S, Wilkinson AJ, Stelling J, Aymerich S, Sauer U.

Science. 2012 Mar 2;335(6072):1099-103. doi: 10.1126/science.1206871.

9.

Large-scale screening of a targeted Enterococcus faecalis mutant library identifies envelope fitness factors.

Rigottier-Gois L, Alberti A, Houel A, Taly JF, Palcy P, Manson J, Pinto D, Matos RC, Carrilero L, Montero N, Tariq M, Karsens H, Repp C, Kropec A, Budin-Verneuil A, Benachour A, Sauvageot N, Bizzini A, Gilmore MS, Bessières P, Kok J, Huebner J, Lopes F, Gonzalez-Zorn B, Hartke A, Serror P.

PLoS One. 2011;6(12):e29023. doi: 10.1371/journal.pone.0029023. Epub 2011 Dec 15.

10.

An expanded protein-protein interaction network in Bacillus subtilis reveals a group of hubs: Exploration by an integrative approach.

Marchadier E, Carballido-López R, Brinster S, Fabret C, Mervelet P, Bessières P, Noirot-Gros MF, Fromion V, Noirot P.

Proteomics. 2011 Aug;11(15):2981-91. doi: 10.1002/pmic.201000791. Epub 2011 May 31.

PMID:
21630458
11.

Comprehensive identification and quantification of microbial transcriptomes by genome-wide unbiased methods.

Mäder U, Nicolas P, Richard H, Bessières P, Aymerich S.

Curr Opin Biotechnol. 2011 Feb;22(1):32-41. doi: 10.1016/j.copbio.2010.10.003. Epub 2010 Nov 10. Review.

PMID:
21074401
12.

Higher mental stimulation at work is associated with improved cognitive functioning in both young and older workers.

Marquie JC, Duarte LR, Bessières P, Dalm C, Gentil C, Ruidavets JB.

Ergonomics. 2010 Nov;53(11):1287-301. doi: 10.1080/00140139.2010.519125.

PMID:
20967653
13.

Transcriptional landscape estimation from tiling array data using a model of signal shift and drift.

Nicolas P, Leduc A, Robin S, Rasmussen S, Jarmer H, Bessières P.

Bioinformatics. 2009 Sep 15;25(18):2341-7. doi: 10.1093/bioinformatics/btp395. Epub 2009 Jun 26.

14.

Learning ontological rules to extract multiple relations of genic interactions from text.

Manine AP, Alphonse E, Bessières P.

Int J Med Inform. 2009 Dec;78(12):e31-8. doi: 10.1016/j.ijmedinf.2009.03.005. Epub 2009 Apr 23.

PMID:
19398370
15.

Towards a semi-automatic functional annotation tool based on decision-tree techniques.

Azé J, Gentils L, Toffano-Nioche C, Loux V, Gibrat JF, Bessières P, Rouveirol C, Poupon A, Froidevaux C.

BMC Proc. 2008 Dec 17;2 Suppl 4:S3.

16.

Reconstruction and analysis of the genetic and metabolic regulatory networks of the central metabolism of Bacillus subtilis.

Goelzer A, Bekkal Brikci F, Martin-Verstraete I, Noirot P, Bessières P, Aymerich S, Fromion V.

BMC Syst Biol. 2008 Feb 26;2:20. doi: 10.1186/1752-0509-2-20.

17.

A genome-wide survey of short coding sequences in streptococci.

Ibrahim M, Nicolas P, Bessières P, Bolotin A, Monnet V, Gardan R.

Microbiology. 2007 Nov;153(Pt 11):3631-44.

PMID:
17975071
18.

Extensive horizontal transfer of core genome genes between two Lactobacillus species found in the gastrointestinal tract.

Nicolas P, Bessières P, Ehrlich SD, Maguin E, van de Guchte M.

BMC Evol Biol. 2007 Aug 20;7:141.

19.

Complete genome sequence of the fish pathogen Flavobacterium psychrophilum.

Duchaud E, Boussaha M, Loux V, Bernardet JF, Michel C, Kerouault B, Mondot S, Nicolas P, Bossy R, Caron C, Bessières P, Gibrat JF, Claverol S, Dumetz F, Le Hénaff M, Benmansour A.

Nat Biotechnol. 2007 Jul;25(7):763-9. Epub 2007 Jun 24.

PMID:
17592475
20.

AGMIAL: implementing an annotation strategy for prokaryote genomes as a distributed system.

Bryson K, Loux V, Bossy R, Nicolas P, Chaillou S, van de Guchte M, Penaud S, Maguin E, Hoebeke M, Bessières P, Gibrat JF.

Nucleic Acids Res. 2006 Jul 19;34(12):3533-45. Print 2006.

21.

The complete genome sequence of Lactobacillus bulgaricus reveals extensive and ongoing reductive evolution.

van de Guchte M, Penaud S, Grimaldi C, Barbe V, Bryson K, Nicolas P, Robert C, Oztas S, Mangenot S, Couloux A, Loux V, Dervyn R, Bossy R, Bolotin A, Batto JM, Walunas T, Gibrat JF, Bessières P, Weissenbach J, Ehrlich SD, Maguin E.

Proc Natl Acad Sci U S A. 2006 Jun 13;103(24):9274-9. Epub 2006 Jun 5.

22.

MuGeN: simultaneous exploration of multiple genomes and computer analysis results.

Hoebeke M, Nicolas P, Bessières P.

Bioinformatics. 2003 May 1;19(7):859-64.

PMID:
12724296
23.

Essential Bacillus subtilis genes.

Kobayashi K, Ehrlich SD, Albertini A, Amati G, Andersen KK, Arnaud M, Asai K, Ashikaga S, Aymerich S, Bessieres P, Boland F, Brignell SC, Bron S, Bunai K, Chapuis J, Christiansen LC, Danchin A, Débarbouille M, Dervyn E, Deuerling E, Devine K, Devine SK, Dreesen O, Errington J, Fillinger S, Foster SJ, Fujita Y, Galizzi A, Gardan R, Eschevins C, Fukushima T, Haga K, Harwood CR, Hecker M, Hosoya D, Hullo MF, Kakeshita H, Karamata D, Kasahara Y, Kawamura F, Koga K, Koski P, Kuwana R, Imamura D, Ishimaru M, Ishikawa S, Ishio I, Le Coq D, Masson A, Mauël C, Meima R, Mellado RP, Moir A, Moriya S, Nagakawa E, Nanamiya H, Nakai S, Nygaard P, Ogura M, Ohanan T, O'Reilly M, O'Rourke M, Pragai Z, Pooley HM, Rapoport G, Rawlins JP, Rivas LA, Rivolta C, Sadaie A, Sadaie Y, Sarvas M, Sato T, Saxild HH, Scanlan E, Schumann W, Seegers JF, Sekiguchi J, Sekowska A, Séror SJ, Simon M, Stragier P, Studer R, Takamatsu H, Tanaka T, Takeuchi M, Thomaides HB, Vagner V, van Dijl JM, Watabe K, Wipat A, Yamamoto H, Yamamoto M, Yamamoto Y, Yamane K, Yata K, Yoshida K, Yoshikawa H, Zuber U, Ogasawara N.

Proc Natl Acad Sci U S A. 2003 Apr 15;100(8):4678-83. Epub 2003 Apr 7.

24.

Mining Bacillus subtilis chromosome heterogeneities using hidden Markov models.

Nicolas P, Bize L, Muri F, Hoebeke M, Rodolphe F, Ehrlich SD, Prum B, Bessières P.

Nucleic Acids Res. 2002 Mar 15;30(6):1418-26.

25.

SPiD: a subtilis protein interaction database.

Hoebeke M, Chiapello H, Noirot P, Bessières P.

Bioinformatics. 2001 Dec;17(12):1209-12.

PMID:
11751229
26.

EMGLib: the enhanced microbial genomes library (update 2000).

Perrière G, Bessières P, Labedan B.

Nucleic Acids Res. 2000 Jan 1;28(1):68-71.

27.

The Enhanced Microbial Genomes Library.

Perrière G, Bessières P, Labedan B.

Nucleic Acids Res. 1999 Jan 1;27(1):63-5.

28.

The complete genome sequence of the gram-positive bacterium Bacillus subtilis.

Kunst F, Ogasawara N, Moszer I, Albertini AM, Alloni G, Azevedo V, Bertero MG, Bessières P, Bolotin A, Borchert S, Borriss R, Boursier L, Brans A, Braun M, Brignell SC, Bron S, Brouillet S, Bruschi CV, Caldwell B, Capuano V, Carter NM, Choi SK, Cordani JJ, Connerton IF, Cummings NJ, Daniel RA, Denziot F, Devine KM, Düsterhöft A, Ehrlich SD, Emmerson PT, Entian KD, Errington J, Fabret C, Ferrari E, Foulger D, Fritz C, Fujita M, Fujita Y, Fuma S, Galizzi A, Galleron N, Ghim SY, Glaser P, Goffeau A, Golightly EJ, Grandi G, Guiseppi G, Guy BJ, Haga K, Haiech J, Harwood CR, Hènaut A, Hilbert H, Holsappel S, Hosono S, Hullo MF, Itaya M, Jones L, Joris B, Karamata D, Kasahara Y, Klaerr-Blanchard M, Klein C, Kobayashi Y, Koetter P, Koningstein G, Krogh S, Kumano M, Kurita K, Lapidus A, Lardinois S, Lauber J, Lazarevic V, Lee SM, Levine A, Liu H, Masuda S, Mauël C, Médigue C, Medina N, Mellado RP, Mizuno M, Moestl D, Nakai S, Noback M, Noone D, O'Reilly M, Ogawa K, Ogiwara A, Oudega B, Park SH, Parro V, Pohl TM, Portelle D, Porwollik S, Prescott AM, Presecan E, Pujic P, Purnelle B, Rapoport G, Rey M, Reynolds S, Rieger M, Rivolta C, Rocha E, Roche B, Rose M, Sadaie Y, Sato T, Scanlan E, Schleich S, Schroeter R, Scoffone F, Sekiguchi J, Sekowska A, Seror SJ, Serror P, Shin BS, Soldo B, Sorokin A, Tacconi E, Takagi T, Takahashi H, Takemaru K, Takeuchi M, Tamakoshi A, Tanaka T, Terpstra P, Togoni A, Tosato V, Uchiyama S, Vandebol M, Vannier F, Vassarotti A, Viari A, Wambutt R, Wedler H, Weitzenegger T, Winters P, Wipat A, Yamamoto H, Yamane K, Yasumoto K, Yata K, Yoshida K, Yoshikawa HF, Zumstein E, Yoshikawa H, Danchin A.

Nature. 1997 Nov 20;390(6657):249-56.

29.

Micado--a network-oriented database for microbial genomes.

Biaudet V, Samson F, Bessières P.

Comput Appl Biosci. 1997 Aug;13(4):431-8.

PMID:
9283758
30.

Computerized genetic map of Bacillus subtilis.

Biaudet V, Samson F, Anagnostopoulos C, Ehrlich SD, Bessières P.

Microbiology. 1996 Oct;142 ( Pt 10):2669-729. No abstract available.

PMID:
8885387
31.
32.

Denitrification and nitrite reduction: Pseudomonas aeruginosa nitrite-reductase.

Henry Y, Bessières P.

Biochimie. 1984 Apr;66(4):259-89. Review.

PMID:
6331530
33.

[Nitrite reduction by NADH, catalyzed by the nitrite reductase of Pseudomonas aeruginosa].

Bessières P, Henry Y.

C R Seances Acad Sci D. 1980 Jun 2;290(20):1309-12. French.

PMID:
6249512
34.

[L'Hopital San Salvadour].

BESSIERES P.

Tech Hosp Med Soc Sanit. 1959 Dec;15:56-61. French. No abstract available.

PMID:
13800103

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