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Results: 1 to 20 of 34

1.

bPeaks: a bioinformatics tool to detect transcription factor binding sites from ChIPseq data in yeasts and other organisms with small genomes.

Merhej J, Frigo A, Le Crom S, Camadro JM, Devaux F, Lelandais G.

Yeast. 2014 Jul 9. doi: 10.1002/yea.3031. [Epub ahead of print]

PMID:
25041923
[PubMed - as supplied by publisher]
2.

Insights into the role of DNA methylation in diatoms by genome-wide profiling in Phaeodactylum tricornutum.

Veluchamy A, Lin X, Maumus F, Rivarola M, Bhavsar J, Creasy T, O'Brien K, Sengamalay NA, Tallon LJ, Smith AD, Rayko E, Ahmed I, Le Crom S, Farrant GK, Sgro JY, Olson SA, Bondurant SS, Allen AE, Rabinowicz PD, Sussman MR, Bowler C, Tirichine L.

Nat Commun. 2013;4:2091. doi: 10.1038/ncomms3091. Erratum in: Nat Commun. 2014;5:3028. Allen, Andrew [corrected to Allen, Andrew E].

PMID:
23820484
[PubMed - indexed for MEDLINE]
3.

Comparative transcriptomics reveals different strategies of Trichoderma mycoparasitism.

Atanasova L, Le Crom S, Gruber S, Coulpier F, Seidl-Seiboth V, Kubicek CP, Druzhinina IS.

BMC Genomics. 2013 Feb 22;14:121. doi: 10.1186/1471-2164-14-121.

PMID:
23432824
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

New partners in regulation of gene expression: the enhancer of Trithorax and Polycomb Corto interacts with methylated ribosomal protein l12 via its chromodomain.

Coléno-Costes A, Jang SM, de Vanssay A, Rougeot J, Bouceba T, Randsholt NB, Gibert JM, Le Crom S, Mouchel-Vielh E, Bloyer S, Peronnet F.

PLoS Genet. 2012;8(10):e1003006. doi: 10.1371/journal.pgen.1003006. Epub 2012 Oct 11.

PMID:
23071455
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

A comprehensive evaluation of normalization methods for Illumina high-throughput RNA sequencing data analysis.

Dillies MA, Rau A, Aubert J, Hennequet-Antier C, Jeanmougin M, Servant N, Keime C, Marot G, Castel D, Estelle J, Guernec G, Jagla B, Jouneau L, Laloë D, Le Gall C, Schaëffer B, Le Crom S, Guedj M, Jaffrézic F; French StatOmique Consortium.

Brief Bioinform. 2013 Nov;14(6):671-83. doi: 10.1093/bib/bbs046. Epub 2012 Sep 17.

PMID:
22988256
[PubMed - indexed for MEDLINE]
6.

RNA sequencing revealed novel actors of the acquisition of drug resistance in Candida albicans.

Dhamgaye S, Bernard M, Lelandais G, Sismeiro O, Lemoine S, Coppée JY, Le Crom S, Prasad R, Devaux F.

BMC Genomics. 2012 Aug 16;13:396.

PMID:
22897889
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Eoulsan: a cloud computing-based framework facilitating high throughput sequencing analyses.

Jourdren L, Bernard M, Dillies MA, Le Crom S.

Bioinformatics. 2012 Jun 1;28(11):1542-3. doi: 10.1093/bioinformatics/bts165. Epub 2012 Apr 5.

PMID:
22492314
[PubMed - indexed for MEDLINE]
Free Article
8.

The CRE1 carbon catabolite repressor of the fungus Trichoderma reesei: a master regulator of carbon assimilation.

Portnoy T, Margeot A, Linke R, Atanasova L, Fekete E, Sándor E, Hartl L, Karaffa L, Druzhinina IS, Seiboth B, Le Crom S, Kubicek CP.

BMC Genomics. 2011 May 27;12:269. doi: 10.1186/1471-2164-12-269.

PMID:
21619626
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Comparative genome sequence analysis underscores mycoparasitism as the ancestral life style of Trichoderma.

Kubicek CP, Herrera-Estrella A, Seidl-Seiboth V, Martinez DA, Druzhinina IS, Thon M, Zeilinger S, Casas-Flores S, Horwitz BA, Mukherjee PK, Mukherjee M, Kredics L, Alcaraz LD, Aerts A, Antal Z, Atanasova L, Cervantes-Badillo MG, Challacombe J, Chertkov O, McCluskey K, Coulpier F, Deshpande N, von Döhren H, Ebbole DJ, Esquivel-Naranjo EU, Fekete E, Flipphi M, Glaser F, Gómez-Rodríguez EY, Gruber S, Han C, Henrissat B, Hermosa R, Hernández-Oñate M, Karaffa L, Kosti I, Le Crom S, Lindquist E, Lucas S, Lübeck M, Lübeck PS, Margeot A, Metz B, Misra M, Nevalainen H, Omann M, Packer N, Perrone G, Uresti-Rivera EE, Salamov A, Schmoll M, Seiboth B, Shapiro H, Sukno S, Tamayo-Ramos JA, Tisch D, Wiest A, Wilkinson HH, Zhang M, Coutinho PM, Kenerley CM, Monte E, Baker SE, Grigoriev IV.

Genome Biol. 2011;12(4):R40. doi: 10.1186/gb-2011-12-4-r40. Epub 2011 Apr 18.

PMID:
21501500
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Dok4 is involved in Schwann cell myelination and axonal interaction in vitro.

Blugeon C, Le Crom S, Richard L, Vallat JM, Charnay P, Decker L.

Glia. 2011 Mar;59(3):351-62. doi: 10.1002/glia.21106. Epub 2010 Dec 1.

PMID:
21264944
[PubMed - indexed for MEDLINE]
11.

Differential regulation of the cellulase transcription factors XYR1, ACE2, and ACE1 in Trichoderma reesei strains producing high and low levels of cellulase.

Portnoy T, Margeot A, Seidl-Seiboth V, Le Crom S, Ben Chaabane F, Linke R, Seiboth B, Kubicek CP.

Eukaryot Cell. 2011 Feb;10(2):262-71. doi: 10.1128/EC.00208-10. Epub 2010 Dec 17.

PMID:
21169417
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Teolenn: an efficient and customizable workflow to design high-quality probes for microarray experiments.

Jourdren L, Duclos A, Brion C, Portnoy T, Mathis H, Margeot A, Le Crom S.

Nucleic Acids Res. 2010 Jun;38(10):e117. doi: 10.1093/nar/gkq110. Epub 2010 Feb 21.

PMID:
20176570
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Genome-wide transcriptome analyses of silicon metabolism in Phaeodactylum tricornutum reveal the multilevel regulation of silicic acid transporters.

Sapriel G, Quinet M, Heijde M, Jourdren L, Tanty V, Luo G, Le Crom S, Lopez PJ.

PLoS One. 2009 Oct 14;4(10):e7458. doi: 10.1371/journal.pone.0007458.

PMID:
19829693
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Tracking the roots of cellulase hyperproduction by the fungus Trichoderma reesei using massively parallel DNA sequencing.

Le Crom S, Schackwitz W, Pennacchio L, Magnuson JK, Culley DE, Collett JR, Martin J, Druzhinina IS, Mathis H, Monot F, Seiboth B, Cherry B, Rey M, Berka R, Kubicek CP, Baker SE, Margeot A.

Proc Natl Acad Sci U S A. 2009 Sep 22;106(38):16151-6. doi: 10.1073/pnas.0905848106. Epub 2009 Sep 2.

PMID:
19805272
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Novel features of boundary cap cells revealed by the analysis of newly identified molecular markers.

Coulpier F, Le Crom S, Maro GS, Manent J, Giovannini M, Maciorowski Z, Fischer A, Gessler M, Charnay P, Topilko P.

Glia. 2009 Oct;57(13):1450-7. doi: 10.1002/glia.20862.

PMID:
19243017
[PubMed - indexed for MEDLINE]
16.

An evaluation of custom microarray applications: the oligonucleotide design challenge.

Lemoine S, Combes F, Le Crom S.

Nucleic Acids Res. 2009 Apr;37(6):1726-39. doi: 10.1093/nar/gkp053. Epub 2009 Feb 10.

PMID:
19208645
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Selection of oligonucleotides for whole-genome microarrays with semi-automatic update.

Golfier G, Lemoine S, van Miltenberg A, Bendjoudi A, Rossier J, Le Crom S, Potier MC.

Bioinformatics. 2009 Jan 1;25(1):128-9. doi: 10.1093/bioinformatics/btn573. Epub 2008 Nov 10.

PMID:
19015129
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Identification of Phox2b-regulated genes by expression profiling of cranial motoneuron precursors.

Pla P, Hirsch MR, Le Crom S, Reiprich S, Harley VR, Goridis C.

Neural Dev. 2008 Jun 19;3:14. doi: 10.1186/1749-8104-3-14.

PMID:
18565209
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Yeast mitochondrial biogenesis: a role for the PUF RNA-binding protein Puf3p in mRNA localization.

Saint-Georges Y, Garcia M, Delaveau T, Jourdren L, Le Crom S, Lemoine S, Tanty V, Devaux F, Jacq C.

PLoS One. 2008 Jun 4;3(6):e2293. doi: 10.1371/journal.pone.0002293.

PMID:
18523582
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

The central role of PDR1 in the foundation of yeast drug resistance.

Fardeau V, Lelandais G, Oldfield A, Salin H, Lemoine S, Garcia M, Tanty V, Le Crom S, Jacq C, Devaux F.

J Biol Chem. 2007 Feb 16;282(7):5063-74. Epub 2006 Dec 11.

PMID:
17158869
[PubMed - indexed for MEDLINE]
Free Article

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