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- SIBIS: a Bayesian model for inconsistent protein sequence estimation.
Khenoussi W, Vanhoutrève R, Poch O, Thompson JD.
Bioinformatics. 2014 30:2432-9.
- Metazoan Remaining Genes for Essential Amino Acid Biosynthesis: Sequence Conservation and Evolutionary Analyses.
Costa IR, Thompson JD, Ortega JM, Prosdocimi F.
Nutrients. 2014 Dec 24;7(1):1-16. doi: 10.3390/nu7010001.
- The molecular signature of the stroma response in prostate cancer-induced osteoblastic bone metastasis highlights expansion of hematopoietic and prostate epithelial stem cell niches.
Özdemir BC, Hensel J, Secondini C, Wetterwald A, Schwaninger R, Fleischmann A, Raffelsberger W, Poch O, Delorenzi M, Temanni R, Mills IG, van der Pluijm G, Thalmann GN, Cecchini MG.
PLoS One. 2014 Dec 8;9(12):e114530.
- Bardet-Biedl syndrome: cilia and obesity - from genes to integrative approaches.
Chennen K, Scerbo MJ, Dollfus H, Poch O, Marion V.
Med Sci (Paris). 2014 Nov;30(11):1034-9.
- Released selective pressure on a structural domain gives new insights on the functional relaxation of mitochondrial aspartyl-tRNA synthetase.
Schwenzer H, Scheper GC, Zorn N, Moulinier L, Gaudry A, Leize E, Martin F, Florentz C, Poch O, Sissler M.
Biochimie. 2014 May;100:18-26.
- A comprehensive study of small non-frameshift insertions/deletions in proteins and prediction of their phenotypic effects by a machine learning method (KD4i).
Bermejo-Das-Neves C, Nguyen H, Poch O and Thompson JD
BMC Bioinformatics 2014, 15:111. April, 2014. doi: 10.1186/1471-2105-15-111.
- Heterogeneous Biological Data Integration with High Level Query Language.
Nguyen H, Laurent M, Thompson JD, Poch O.
IBM Journal of Research and Development, vol. 58 no. 2/3. 15 April, 2014. doi: 10.1147/JRD.2014.2309032.
- Lrit3 deficient mouse (nob6): a novel model of complete congenital stationary night blindness (cCSNB).
Neuillé M, El Shamieh S, Orhan E, Michiels C, Antonio A, Lancelot ME, Condroyer C, Bujakowska K, Poch O, Sahel JA, Audo I, Zeitz C.
PLoS One. 2014 Mar 5;9(3):e90342.
- Exome sequencing of Bardet-Biedl syndrome patient identifies a null mutation in the BBSome subunit BBIP1
Scheidecker S, Etard C, Pierce NW, Geoffroy V, Schaefer E, Muller J, Chennen K, Flori E, Pelletier V, Poch O, Marion V, Stoetzel C, Strähle U, Nachury MV, Dollfus H. (BBS18).
J Med Genet. 2014 Feb;51(2):132-6.
- Retinoic Acid receptor subtype-specific transcriptotypes in the early zebrafish embryo.
Samarut E, Gaudin C, Hughes S, Gillet B, de Bernard S, Jouve PE, Buffat L, Allot A, Lecompte O, Berekelya L, Rochette-Egly C, Laudet V.
Mol Endocrinol. 2014 Feb;28(2):260-72. doi: 10.1210/me.2013-1358.
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- The familial dementia gene revisited: a missense mutation revealed by whole-exome sequencing identifies ITM2B as a candidate gene underlying a novel autosomal dominant retinal dystrophy in a large family.
Audo I, Bujakowska K, Orhan E, El Shamieh S, Sennlaub F, Guillonneau X, Antonio A, Michiels C, Lancelot ME, Letexier M, Saraiva JP, Nguyen H, Luu TD, Léveillard T, Poch O, Dollfus H, Paques M, Goureau O, Mohand-Saïd S, Bhattacharya SS, Sahel JA, Zeitz C. Hum
Mol Genet. 2014 Jan 15;23(2):491-501. |
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- Released selective pressure on a structural domain gives new insights on the functional relaxation of mitochondrial aspartyl-tRNA synthetase.
Schwenzer H, Scheper GC, Zorn N, Moulinier L, Gaudry A, Leize E, Martin F, Florentz C, Poch O, Sissler M.
Biochimie, 2013 Oct 8. doi:pii: S0300-9084(13)00348-9
- PARSEC: PAtteRn SEarch and Contextualization.
Allot A, Anno YN, Poidevin L, Ripp R, Poch O, Lecompte O.
Bioinformatics. 2013; 29(20):2643-44
- The familial dementia gene revisited: a missense mutation revealed by whole-exome sequencing identifies ITM2B as a candidate gene underlying a novel autosomal dominant retinal dystrophy in a large family.
Audo I, Bujakowska K, Orhan E, El Shamieh S, Sennlaub F, Guillonneau X, Antonio A, Michiels C, Lancelot ME, Letexier M, Saraiva JP, Nguyen H, Luu TD, Léveillard T, Poch O, Dollfus H, Paques M, Goureau O, Mohand-Saïd S, Bhattacharya SS, Sahel JA, Zeitz C.
Hum. Mol. Genet., 2013 Sep 22.
- Exome sequencing of Bardet-Biedl syndrome patient identifies a null mutation in the BBSome subunit BBIP1 (BBS18).
Scheidecker S, Etard C, Pierce NW, Geoffroy V, Schaefer E, Muller J, Chennen K, Flori E, Pelletier V, Poch O, Marion V, Stoetzel C, Strähle U, Nachury MV, Dollfus H.
Med. Genet., 2013 Sep 11.
- Detection and characterisation of mutations responsible for allele-specific protein thermostabilities at the Mn-Superoxide Dismutase gene in the deep-sea hydrothermal vent polychaete Alvinella pompejana.
Bruneaux M, Mary J, Verheye M, Lecompte O, Poch O, Jollivet D, Tanguy A.
J. Mol. Evol. 2013; 76(5):295-310
- Knowledge discovery in variant databases using inductive logic programming Bioinform.
Nguyen H, Luu TD, Poch O, Thompson JD.
Biol. Insights. 2013; 7:119-31.
- Seven New Loci Associated with Age-Related Macular degeneration.
AMD Gene Consortium.
Nat. Genet. 2013; 45(4):433-9
- Functional insights into the core-TFIIH from a comparative survey.
Bedez F, Linard B, Brochet X, Ripp R, Thompson JD, Moras D, Lecompte O, Poch O.
Genomics.2013; 101:178-186.
- Whole-Exome Sequencing Identifies LRIT3 Mutations as a Cause of Autosomal-Recessive Complete Congenital Stationary Night Blindness.
Zeitz C, Jacobson SG, Hamel CP, Bujakowska K, Neuillé M, Orhan E, Zanlonghi X, Lancelot ME, Michiels C, Schwartz SB, Bocquet B; Congenital Stationary Night Blindness Consortium, Antonio A, Audier C, Letexier M, Saraiva JP, Luu TD, Sennlaub F, Nguyen H, Poch O, Dollfus H, Lecompte O, Kohl S, Sahel JA, Bhattacharya SS, Audo I.
Am J Hum Genet. 2013 Jan 10;92(1):67-75. |
Tubulin tyrosine ligase like 12, a TTLL family member with SET- and TTL-like domains and roles in histone and tubulin modifications and mitosis.
Brants J, Semenchenko K, Wasylyk C, Robert A, Carles A, Zambrano A, Pradeau-Aubreton K, Birck C, Schalken JA, Poch O, de Mey J, Wasylyk B.
PLoS One. 2012;7(12):e51258.
Toward community standards in the quest for orthologs.
Dessimoz C, Gabaldón T, Roos DS, Sonnhammer EL, Herrero J; Quest for Orthologs Consortium.
Bioinformatics. 2012 28(6):900-4.
Increased frequency of single base substitutions in a population of transcripts expressed in cancer cells.
Bianchetti L, Kieffer D, Féderkeil R, Poch O.
BMC Cancer. 2012 12:509.
Autosomal mutations and human spermatogenic failure.
El Inati E, Muller J, Viville S.
Biochim Biophys Acta. 2012 Dec;1822(12):1873-9.
Targeted high-throughput sequencing for diagnosis of genetically heterogeneous diseases: efficient mutation detection in Bardet-Biedl and Alström syndromes.
Redin C, Le Gras S, Mhamdi O, Geoffroy V, Stoetzel C, Vincent MC, Chiurazzi P, Lacombe D, Ouertani I, Petit F, Till M, Verloes A, Jost B, Chaabouni HB, Dollfus H, Mandel JL, Muller J.
J Med Genet. 2012 Aug;49(8):502-12.
Globozoospermia is mainly due to DPY19L2 deletion via non-allelic homologous recombination involving two recombination hotspots.
Elinati E, Kuentz P, Redin C, Jaber S, Vanden Meerschaut F, Makarian J, Koscinski I, Nasr-Esfahani MH, Demirol A, Gurgan T, Louanjli N, Iqbal N, Bisharah M, Pigeon FC, Gourabi H, De Briel D, Brugnon F, Gitlin SA, Grillo JM, Ghaedi K, Deemeh MR, Tanhaei S, Modarres P, Heindryckx B, Benkhalifa M, Nikiforaki D, Oehninger SC, De Sutter P, Muller J, Viville S.
Hum Mol Genet. 2012 Aug 15;21(16):3695-702.
Next generation sequencing for molecular diagnosis of neuromuscular diseases.
Vasli N, Böhm J, Le Gras S, Muller J, Pizot C, Jost B, Echaniz-Laguna A, Laugel V, Tranchant C, Bernard R, Plewniak F, Vicaire S, Levy N, Chelly J, Mandel JL, Biancalana V, Laporte J.
Acta Neuropathol. 2012 Aug;124(2):273-83.
Defective membrane remodeling in neuromuscular diseases: insights from animal models.
Cowling BS, Toussaint A, Muller J, Laporte J.
PLoS Genet. 2012;8(4):e1002595
KD4v: Comprehensible Knowledge Discovery System for Missense Variant.
Luu TD, Rusu A, Walter V, Linard B, Poidevin L, Ripp R, Moulinier L, Muller J, Raffelsberger W, Wicker N, Lecompte O, Thompson JD, Poch O, Nguyen H.
Nucleic Acids Res. 2012 Jul;40(Web Server issue):W71-5.
Proteome adaptation to high temperatures in the ectothermic hydrothermal vent Pompeii worm.
Jollivet D, Mary J, Gagnière N, Tanguy A, Fontanillas E, Boutet I, Hourdez S, Segurens B, Weissenbach J, Poch O, Lecompte O.
PLoS One. 2012;7(2):e31150.
Nxnl2 splicing results in dual functions in neuronal cell survival and maintenance of cell integrity.
Jaillard C, Mouret A, Niepon ML, Clérin E, Yang Y, Lee-Rivera I, Aït-Ali N, Millet-Puel G, Cronin T, Sedmak T, Raffelsberger W, Kinzel B, Trembleau A, Poch O, Bennett J, Wolfrum U, Lledo PM, Sahel JA, Léveillard T.
Hum Mol Genet. 2012 May 15;21(10):2298-311.
In vivo topoisomerase I inhibition attenuates the expression of hypoxia-inducible factor 1α target genes and decreases tumor angiogenesis.
Guérin E, Raffelsberger W, Pencreach E, Maier A, Neuville A, Schneider A, Bachellier P, Rohr S, Petitprez A, Poch O, Moras D, Oudet P, Larsen AK, Gaub MP, Guenot D.
Mol Med. 2012 Feb 10;18:83-94.
Whole-exome sequencing identifies mutations in GPR179 leading to autosomal-recessive complete congenital stationary night blindness.
Audo I, Bujakowska K, Orhan E, Poloschek CM, Defoort-Dhellemmes S, Drumare I, Kohl S, Luu TD, Lecompte O, Zrenner E, Lancelot ME, Antonio A, Germain A, Michiels C, Audier C, Letexier M, Saraiva JP, Leroy BP, Munier FL, Mohand-Saïd S, Lorenz B, Friedburg C, Preising M, Kellner U, Renner AB, Moskova-Doumanova V, Berger W, Wissinger B, Hamel CP, Schorderet DF, De Baere E, Sharon D, Banin E, Jacobson SG, Bonneau D, Zanlonghi X, Le Meur G, Casteels I, Koenekoop R, Long VW, Meire F, Prescott K, de Ravel T, Simmons I, Nguyen H, Dollfus H, Poch O, Léveillard T, Nguyen-Ba-Charvet K, Sahel JA, Bhattacharya SS, Zeitz C.
Am J Hum Genet. 2012 Feb 10;90(2):321-30.
Controversies in modern evolutionary biology: the imperative for error detection and quality control.
Prosdocimi F, Linard B, Pontarotti P, Poch O, Thompson JD.
BMC Genomics. 2012 Jan 4;13:5. |
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Conjugating effects of symbionts and environmental factors on gene expression in deep-sea hydrothermal vent mussels.
Boutet I, Ripp R, Lecompte O, Dossat C, Corre E, Tanguy A, Lallier FH.
BMC Genomics. 2011 12:530.
EGFR and EphA2 are host factors for hepatitis C virus entry and possible targets for antiviral therapy.
Lupberger J, Zeisel MB, Xiao F, Thumann C, Fofana I, Zona L, Davis C, Mee CJ, Turek M, Gorke S, Royer C, Fischer B, Zahid MN, Lavillette D, Fresquet J, Cosset FL, Rothenberg SM, Pietschmann T, Patel AH, Pessaux P, Doffoël M, Raffelsberger W, Poch O, McKeating JA, Brino L, Baumert TF.
Nat Med. 2011 May;17(5):589-95.
Transcriptomic analysis of human retinal detachment reveals both inflammatory response and photoreceptor death.
Delyfer MN, Raffelsberger W, Mercier D, Korobelnik JF, Gaudric A, Charteris DG, Tadayoni R, Metge F, Caputo G, Barale PO, Ripp R, Muller JD, Poch O, Sahel JA, Léveillard T.
PLoS One. 2011;6(12):e28791.
DPY19L2 deletion as a major cause of globozoospermia.
Koscinski I, Elinati E, Fossard C, Redin C, Muller J, Velez de la Calle J, Schmitt F, Ben Khelifa M, Ray PF, Kilani Z, Barratt CL, Viville S.
Am J Hum Genet. 2011 Mar 11;88(3):344-50
Genome-wide in silico identification of new conserved and functional retinoic acid receptor response elements (direct repeats separated by 5 bp).
Lalevée S, Anno YN, Chatagnon A, Samarut E, Poch O, Laudet V, Benoit G, Lecompte O, Rochette-Egly C.
J Biol Chem. 2011 Sep 23;286(38):33322-34.
EGFR and EphA2 are host factors for hepatitis C virus entry and possible targets for antiviral therapy.
Lupberger J, Zeisel MB, Xiao F, Thumann C, Fofana I, Zona L, Davis C, Mee CJ, Turek M, Gorke S, Royer C, Fischer B, Zahid MN, Lavillette D, Fresquet J, Cosset FL, Rothenberg SM, Pietschmann T, Patel AH, Pessaux P, Doffoël M, Raffelsberger W, Poch O, McKeating JA, Brino L, Baumert TF.
Nat Med. 2011 May;17(5):589-95.
A comprehensive benchmark study of multiple sequence alignment methods: current challenges and future perspectives.
Thompson JD, Linard B, Lecompte O, Poch O.
PLoS One. 2011 Mar 31;6(3):e18093.
Genome-wide evidence for an essential role of the human Staf/ZNF143 transcription factor in bidirectional transcription.
Anno YN, Myslinski E, Ngondo-Mbongo RP, Krol A, Poch O, Lecompte O, Carbon P.
Nucleic Acids Res. 2011 Apr;39(8):3116-27.
OrthoInspector: comprehensive orthology analysis and visual exploration.
Linard B, Thompson JD, Poch O, Lecompte O.
BMC Bioinformatics. 2011 Jan 10;12:11.
A note on ball segment picking related to clustering.
Wicker N.
Pattern Recognition Letters 2011 32: 651-655.
eggNOG v3.0: orthologous groups covering 1133 organisms at 41 different taxonomic ranges.
Powell S, Szklarczyk D, Trachana K, Roth A, Kuhn M, Muller J, Arnold R, Rattei T, Letunic I, Doerks T, Jensen LJ, von Mering C, Bork P.
Nucleic Acids Res. 2012 Jan;40(Database issue):D284-9.
Enterotypes of the human gut microbiome.
The MetaHIT Consortium, including Arumugam M., Raes J., Yamada T., Mende DR., Muller J. and Peer Bork
Nature. 2011 May 12;473(7346):174-80.
Homozygosity mapping and candidate prioritization identify mutations, missed by whole-exome sequencing, in SMOC2, causing major dental developmental defects.
Bloch-Zupan A, Jamet X, Etard C, Laugel V, Muller J, Geoffroy V, Strauss JP, Pelletier V, Marion V, Poch O, Strahle U, Stoetzel C, Dollfus H.
Am J Hum Genet. 2011 Dec 9;89(6):773-81.
Mutations in SDCCAG8/NPHP10 Cause Bardet-Biedl Syndrome and Are Associated with Penetrant Renal Disease and Absent Polydactyly.
Schaefer E, Zaloszyc A, Lauer J, Durand M, Stutzmann F, Perdomo-Trujillo Y, Redin C, Bennouna Greene V, Toutain A, Perrin L, Gérard M, Caillard S, Bei X, Lewis RA, Christmann D, Letsch J, Kribs M, Mutter C, Muller J, Stoetzel C, Fischbach M, Marion V, Katsanis N, Dollfus H.
Mol Syndromol. 2011 Sep;1(6):273-281. |
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Insights into metazoan evolution from Alvinella pompejana cDNAs.
Gagnière N, Jollivet D, Boutet I, Brélivet Y, Busso D, Da Silva C, Gaill F, Higuet D, Hourdez S, Knoops B, Lallier F, Leize-Wagner E, Mary J, Moras D, Perrodou E, Rees JF, Segurens B, Shillito B, Tanguy A, Thierry JC, Weissenbach J, Wincker P, Zal F, Poch O, Lecompte O.
BMC Genomics. 2010 11:634.
Determining gene flow and the influence of selection across the equatorial barrier of the East Pacific Rise in the tube-dwelling polychaete Alvinella pompejana.
Plouviez S, Le Guen D, Lecompte O, Lallier FH, Jollivet D.
BMC Evol Biol. 2010 10:220.
A new projection method for biological semantic map generation
Hoan N. Nguyen, Nicolas Wicker, David Kieffer, Olivier Poch
Journal of Biomedical Science and Engineering, ISSN Print: 1937-6871, 2010 Jan
Décrypthon grid - grid resources dedicated to neuromuscular disorders.
Bard N, Bolze R, Caron E, Desprez F, Heymann M, Friedrich A, Moulinier L, Nguyen NH, Poch O, Toursel T.
Stud Health Technol Inform. 2010;159:124-33.
Cell-specific interaction of retinoic acid receptors with target genes in mouse embryonic fibroblasts and embryonic stem cells.
Delacroix L, Moutier E, Altobelli G, Legras S, Poch O, Choukrallah MA, Bertin I, Jost B, Davidson I.
Mol Cell Biol. 2010 Jan;30(1):231-44. Epub .PMID: 19884340
The homeobox gene CHX10/VSX2 regulates RdCVF promoter activity in the inner retina.
Reichman S, Kalathur RK, Lambard S, Aït-Ali N, Yang Y, Lardenois A, Ripp R, Poch O, Zack DJ, Sahel JA, Léveillard T.
Hum Mol Genet. 2010 Jan 15;19(2):250-61. Epub 2009 Oct 20.PMID: 19843539
Multidimensional Fitting for Multivariate Data Analysis.
Berge C, Froloff N, Kalathur RKR, Maumy M, Poch O, Raffelsberger W, Wicker N.
J Comput Biol. 2010 Feb 22.
The disruption of the rod-derived cone viability gene leads to photoreceptor dysfunction and susceptibility to oxidative stress.
Cronin T, Raffelsberger W, Lee-Rivera I, Jaillard C, Niepon ML, Kinzel B, Clérin E, Petrosian A, Picaud S, Poch O, Sahel JA, Léveillard T.
Cell Death Differ. 2010 Feb 5.
Rfx6 is an Ngn3-dependent winged helix transcription factor required for pancreatic islet cell development.
Soyer J, Flasse L, Raffelsberger W, Beucher A, Orvain C, Peers B, Ravassard P, Vermot J, Voz ML, Mellitzer G, Gradwohl G.
Development. 2010 Jan;137(2):203-12.
SM2PH-db: an interactive system for the integrated analysis of phenotypic consequences of missense mutations in proteins involved in human genetic diseases.
Friedrich A, Garnier N, Gagnière N, Nguyen H, Albou LP, Biancalana V, Bettler E, Deléage G, Lecompte O, Muller J, Moras D, Mandel JL, Toursel T, Moulinier L, Poch O.
Hum Mutat. 2010 Feb;31(2):127-35.
Functional characterization and high-throughput proteomic analysis of interrupted genes in the archaeon Sulfolobus solfataricus.
Cobucci-Ponzano B, Guzzini L, Benelli D, Londei P, Perrodou E, Lecompte O, Tran D, Sun J, Wei J, Mathur EJ, Rossi M, Moracci M.
J Proteome Res. 2010 May 7;9(5):2496-507. |
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2009:
Comparison of eukaryotic phylogenetic profiling approaches using species tree aware methods.
Ruano-Rubio V, Poch O, Thompson JD.
BMC Bioinformatics. 2009 Nov 24;10:383.PMID: 19930674 [PubMed - in process]Related articlesFree article
TBP2 is essential for germ cell development by regulating transcription and chromatin condensation in the oocyte.
Gazdag E, Santenard A, Ziegler-Birling C, Altobelli G, Poch O, Tora L, Torres-Padilla ME.
Genes Dev. 2009 Sep 15;23(18):2210-23.PMID: 19759265 [PubMed - indexed for MEDLINE]Related articles
Time-resolved analysis of transcriptional events during SNAI1-triggered epithelial to mesenchymal transition.
Vetter G, Le Béchec A, Muller J, Muller A, Moes M, Yatskou M, Al Tanoury Z, Poch O, Vallar L, Friederich E.
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The thioredoxin-like protein rod-derived cone viability factor (RdCVFL) interacts with TAU and inhibits its phosphorylation in the retina.
Fridlich R, Delalande F, Jaillard C, Lu J, Poidevin L, Cronin T, Perrocheau L, Millet-Puel G, Niepon ML, Poch O, Holmgren A, Van Dorsselaer A, Sahel JA, Léveillard T.
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Structure of the archaeal pab87 peptidase reveals a novel self-compartmentalizing protease family.
Delfosse V, Girard E, Birck C, Delmarcelle M, Delarue M, Poch O, Schultz P, Mayer C.
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Strategies for reliable exploitation of evolutionary concepts in high throughput biology.
Levasseur A, Pontarotti P, Poch O, Thompson JD.
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Defining and characterizing protein surface using alpha shapes.
Albou LP, Schwarz B, Poch O, Wurtz JM, Moras D.
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Knowledge-based expert systems and a proof-of-concept case study for multiple sequence alignment construction and analysis.
Aniba MR, Siguenza S, Friedrich A, Plewniak F, Poch O, Marchler-Bauer A, Thompson JD.
Brief Bioinform. 2009 Jan;10(1):11-23. Epub 2008 Oct 29.PMID: 18971242 [PubMed - indexed for MEDLINE]
Gallien S, Perrodou E, Carapito C, Deshayes C, Reyrat JM, Van Dorsselaer A, Poch O, Schaeffer C, Lecompte O.
Genome Res. 2009 Jan;19(1):128-35.
2008:
Levasseur A, Pontarotti P, Poch O, Thompson JD. (2008) Strategies for reliable exploitation of evolutionary concepts in high throughput biology.
Evol Bioinform Online, 4:121-37.
Lecompte O, Poch O, Laporte J. (2008) PtdIns5P regulation through evolution: roles in membrane trafficking?
Trends Biochem. Sci., 33(10):453-60
Befort K, Filliol D, Darcq E, Ghate A, Matifas A, Lardenois A, Muller J, Thibault C, Dembele D, Poch O, Kieffer BL. (2008) Gene expression is altered in the lateral hypothalamus upon activation of the mu opioid receptor.
Ann N Y Acad Sci., 1129:175-84.
Befort K, Filliol D, Ghate A, Darcq E, Matifas A, Muller J, Lardenois A, Thibault C, Dembele D, Le Merrer J, Becker JA, Poch O, Kieffer BL. (2008) Mu-opioid receptor activation induces transcriptional plasticity in the central extended amygdala.
Eur J Neurosci., 27(11):2973-84.
Kalathur RK, Gagniere N, Berthommier G, Poidevin L, Raffelsberger W, Ripp R, Léveillard T, Poch O. (2008) RETINOBASE: a web database, data mining and analysis platform for gene expression data on retina.
BMC Genomics, 9:208.
Perrodou E, Chica C, Poch O, Gibson TJ, Thompson JD. (2008) A new protein linear motif benchmark for multiple sequence alignment software.
BMC Bioinformatics, 9:213.
Deshayes C, Perrodou E, Euphrasie D, Frapy E, Poch O, Bifani P, Lecompte O, Reyrat JM. (2008) Detecting the molecular scars of evolution in the Mycobacterium tuberculosis complex by analyzing interrupted coding sequences.
BMC Evol Biol., 6(8):78
Lagier-Tourenne C, Tazir M, López LC, Quinzii CM, Assoum M, Drouot N, Busso C, Makri S, Ali-Pacha L, Benhassine T, Anheim M, Lynch DR, Thibault C, Plewniak F, Bianchetti L, Tranchant C, Poch O, DiMauro S, Mandel JL, Barros MH, Hirano M, Koenig M. (2008) ADCK3, an ancestral kinase, is mutated in a form of recessive ataxia associated with coenzyme Q10 deficiency.
Am J Hum Genet., 82(3):661-72.
Thiersch M, Raffelsberger W, Frigg R, Samardzija M, Wenzel A, Poch O, Grimm C. (2008) Analysis of the retinal gene expression profile after hypoxic preconditioning identifies candidate genes for neuroprotection.
BMC Genomics, 9:73.
Thiersch M, Raffelsberger W, Frigg E, Samardzija M, Blank P, Poch O, Grimm C. (2008) The hypoxic transcriptome of the retina: identification of factors with potential neuroprotective activity.
Adv Exp Med Biol., 613:75-85.
Raffelsberger W, Krause Y, Moulinier L, Kieffer D, Morand AL, Brino L, Poch O. (2008) RReportGenerator: automatic reports from routine statistical analysis using R.
Bioinformatics, 24(2):276-8.
Bianchetti L, Wu Y, Guerin E, Plewniak F, Poch O. (2007) SAGETTARIUS: a program to reduce the number of tags mapped to multiple transcripts and to plan SAGE sequencing stages.
Nucleic Acids Res., 35(18):e122
2007:
Schluter A, Fourcade S, Domenech-Estevez E, Gabaldon T, Huerta-Cepas J, Berthommier G, Ripp R, Wanders RJ, Poch O, Pujol A. (2007) PeroxisomeDB: a database for the peroxisomal proteome, functional genomics and disease.
Nucleic Acids Res., 35(Database issue):D815-22.
Stoetzel C, Muller J, Laurier V, Davis EE, Zaghloul NA, Vicaire S, Jacquelin C, Plewniak F, Leitch CC, Sarda P, Hamel C, de Ravel TJ, Lewis RA, Friederich E, Thibault C, Danse JM, Verloes A, Bonneau D, Katsanis N, Poch O, Mandel JL, Dollfus H. (2007) Identification of a novel BBS gene (BBS12) highlights the major role of a vertebrate-specific branch of chaperonin-related proteins in Bardet-Biedl syndrome.
Am J Hum Genet., 80(1):1-11.
Deshayes C, Perrodou E, Gallien S, Euphrasie D, Schaeffer C, Van-Dorsselaer A, Poch O, Lecompte O, Reyrat JM. (2007) Interrupted coding sequences in Mycobacterium smegmatis: authentic mutations or sequencing errors?
Genome Biol., 8(2):R20
Friedrich A, Ripp R, Garnier N, Bettler E, Deleage G, Poch O, Moulinier L. (2007) Blast sampling for structural and functional analyses.
BMC Bioinformatics, 8:62.
Wicker N, Carles A, Mills IG, Wolf M, Veerakumarasivam A, Edgren H, Boileau F, Wasylyk B, Schalken JA, Neal DE, Kallioniemi O, Poch O. (2007) A new look towards BAC-based array CGH through a comprehensive comparison with oligo-based array CGH.
BMC Genomics, 8(1):84
Brulliard M, Lorphelin D, Collignon O, Lorphelin W, Thouvenot B, Gothie E, Jacquenet S, Ogier V, Roitel O, Monnez JM, Vallois P, Yen FT, Poch O, Guenneugues M, Karcher G, Oudet P, Bihain BE. (2007) Nonrandom variations in human cancer ESTs indicate that RNA heterogeneity increases during carcinogenesis.
Proc Natl Acad Sci U S A, 104(18):7522-7.
Muller J, Mehlen A, Vetter G, Yatskou M, Muller A, Chalmel F, Poch O, Friederich E, Vallar L. (2007) Design and evaluation of Actichip, a thematic microarray for the study of the actin cytoskeleton.
BMC Genomics., 8(1):294
Chalmel F, Leveillard T, Jaillard C, Lardenois A, Berdugo N, Morel E, Koehl P, Lambrou G, Holmgren A, Sahel JA, Poch O. (2007) Rod-derived Cone Viability Factor-2 is a novel bifunctional-thioredoxin-like protein with therapeutic potential.
BMC Mol Biol., 8(1):74
2006:
Stoetzel C, Laurier V, Davis EE, Muller J, Rix S, Badano JL, Leitch CC, Salem N, Chouery E, Corbani S, Jalk N, Vicaire S, Sarda P, Hamel C, Lacombe D, Holder M, Odent S, Holder S, Brooks AS, Elcioglu NH, Silva ED, Rossillion B, Sigaudy S, de Ravel TJ, Lewis RA, Leheup B, Verloes A, Amati-Bonneau P, Megarbane A, Poch O, Bonneau D, Beales PL, Mandel JL, Katsanis N, Dollfus H. (2006) BBS10 encodes a vertebrate-specific chaperonin-like protein and is a major BBS locus.
Nat Genet., 38(5):521-4. Erratum in: Nat Genet. 2006 Jun;38(6):727.
Gaillard E, Bruck N, Brelivet Y, Bour G, Lalevee S, Bauer A, Poch O, Moras D, Rochette-Egly C. (2006) Phosphorylation by PKA potentiates retinoic acid receptor alpha activity by means of increasing interaction with and phosphorylation by cyclin H/cdk7.
Proc Natl Acad Sci U S A., 103(25):9548-53.
Thompson JD, Muller A, Waterhouse A, Procter J, Barton GJ, Plewniak F, Poch O. (2006) MACSIMS: multiple alignment of complete sequences information management system.
BMC Bioinformatics, 7:318.
Garnier N, Friedrich A, Bolze R, Bettler E, Moulinier L, Geourjon C, Thompson JD, Deleage G, Poch O. (2006) MAGOS: multiple alignment and modelling server.
Bioinformatics, 22(17):2164-5.
Laurier V, Stoetzel C, Muller J, Thibault C, Corbani S, Jalkh N, Salem N, Chouery E, Poch O, Licaire S, Danse JM, Amati-Bonneau P, Bonneau D, Megarbane A, Mandel JL, Dollfus H. (2006) Pitfalls of homozygosity mapping: an extended consanguineous Bardet-Biedl syndrome family with two mutant genes (BBS2, BBS10), three mutations, but no triallelism.
Eur J Hum Genet., 14(11):1195-203.
Lardenois A, Chalmel F, Bianchetti L, Sahel JA, Leveillard T, Poch O. (2006) PromAn: an integrated knowledge-based web server dedicated to promoter analysis.
Nucleic Acids Res., 34(Web Server issue):W578-83.
Dollfus H, Muller J, Stoetzel C, Laurier V, Bonneau D, Megarbane A, Poch O, Mandel JL. (2006) [Bardet-Biedl syndrome: a unique family for a major gene (BBS10)]
Med Sci (Paris). 22(11):901-4.
Carles A., Millon R., Cromer A., Ganguli G., Lemaire F., Young J., Wasylyk C., Muller D., Schultz I., Rabouel Y., Dembélé D., Zhao C., Marchal P., Ducray C., Bracco L., Abecassis J., Poch O. and Wasylyk B. (2006) Head and neck squamous cell carcinoma (HNSCC) transcriptome analysis by comprehensive validated differential display.
Oncogene, 25 (12):1821-1831.
Perrodou E, Deshayes C, Muller J, Schaeffer C, Van Dorsselaer A, Ripp R, Poch O, Reyrat JM, Lecompte O. (2006) ICDS database: interrupted CoDing sequences in prokaryotic genomes.
Nucleic Acids Res., 34(Database issue):D338-43.
Abou-Sleymane G, Chalmel F, Helmlinger D, Lardenois A, Thibault C, Weber C, Merienne K, Mandel JL, Poch O, Devys D, Trottier Y. (2006) Polyglutamine expansion causes neurodegeneration by altering the neuronal differentiation program.
Hum Mol Genet., 15(5):691-703.
Schluter A, Fourcade S, Ripp R, Mandel JL, Poch O, Pujol A. (2006) The evolutionary origin of peroxisomes: an ER-peroxisome connection.
Mol Biol Evol., 23(4):838-45.
2005:
Leveillard T., Mohand-Said S., Poch O. and Sahel J.A.. (2005) [Rod-derived cone viability factor : a clue for therapy of retinitis pigmentosa?] French.
Med. Sci. (Paris), 21(1):22-24.
Chalmel F., Lardenois A., Thompson J.D., Muller J., Sahel J.A., Leveillard T. and Poch O. (2005) GOAnno: GO annotation based on multiple alignment.
Bioinformatics, 21(9):2095-6.
Thompson J.D., Holbrook S.R., Katoh K., Koehl P., Moras D., Westhof E. and Poch O. (2005) MAO: a Multiple Alignment Ontology for nucleic acid and protein sequences.
Nucleic Acids Res., 33(13):4164-71.
Thompson J.D., Koehl P., Ripp R. and Poch O. (2005) BAliBASE 3.0: Latest developments of the multiple sequence alignment benchmark.
Proteins, 61(1):127-136.
Bianchetti L., Thompson J.D., Lecompte O., Plewniak F. and Poch O. (2005) vALId: validation of protein sequence quality based on multiple alignment data.
Bioinform Comput Biol., 3(4):929-947.
Muller J., Oma Y., Vallar L., Friederich E., Poch O. and Winsor, B. (2005). Sequence and comparative genomic analysis of Actin Related Proteins.
Mol. Biol. Cell., 16(12):5736-5748.
Uhring M, Bey G, Lecompte O, Cavarelli J, Moras D, Poch O. (2005) Cloning, purification and crystallization of a Walker-type Pyrococcus abyssi ATPase family member.
Acta Crystallograph Sect F Struct Biol Cryst Commun., 61(Pt 10):925-7.
2004:
Thompson J., Prigent V and Poch O. (2004) LEON: multiple aLignment Evaluation Of Neighbours.
Nucleic Acids Res., 32(4): 1298-1307.
Cromer A., Carles A., Millon R., Ganguli G., Chalmel F., Lemaire F., Young J., Dembélé D., Thibault C., Diemunsch F., Poch O., Abecassis J. and Wasylyk B. (2004) Identification of genes associated with hypopharyngeal cancer and metastatic potential by microarray analysis.
Oncogene, 23(14):2484-2498.
Léveillard T., Mohand-Saïd S., Lorentz O., Hicks D., Fintz A.C., Clerin E., Simonutti M., Forster V., Cavusoglu N., Chalmel F., Dolle P., Poch O., Lambrou G. and Sahel J.A. (2004) Identification and characterization of rod-derived cone viability factor
Nature Genetics, 36(7):755-759
Brelivet Y., Kammerer S., Rochel N., Poch O. and Moras D. (2004) Signature of the oligomeric behaviour of nuclear receptors at the sequence and structural level.
EMBO reports, 5(4):423-429
Jawhari A., Boussert S., Lamour V., Atkinson R.A., Kieffer B., Poch O., Potier N., van Dorsselaer A., Moras D. and Poterszman A. (2004) Domain architecture of the p62 subunit from the human transcription/repair factor TFIIH deduced by limited proteolysis and mass spectrometry analysis.
Biochemistry, 43(45):14420-14430.
Prigent V., Thierry J.C., Poch O. and Plewniak F. (2004) DbW: automatic update of a functional family-specific multiple alignment.
Bioinformatics, 21(8):1437-42.
2003:
Cohen G., Barbe V., Flament D., Galperin M., Heilig R., Ripp R., Lecompte O., Prieur D., Poch O, Quérellou J., Thierry J.C., Van der Oost J., Weissenbach J., Zivanovic Y and Forterre P. (2003) An integrated analysis of the genome of the hyperthermophilic azrchaeon Pyrococcus abyssi.
Mol. Microbiol. 47(6):1495-1512.
Gozuacik D., Chami M., Murakami Y., Faivre J., Lagorce D., Poch O., Biermann E., Knippers R., Bréchot C. and Paterlini-Bréchot P. (2003) Identification and functional characterization of a new member of the human Mcm protein family: hMcm8.
Nucleic Acids Res., 31(2): 570-579.
Plewniak F., Bianchetti L., Brelivet Y., Carles A., Chalmel F., Lecompte O., Mochel T., Moulinier L., Muller A., Muller J. Prigent V., Ripp R., Thierry J.C.,Thompson J., Wicker N. and Poch O. (2003) PipeAlign : a new toolkit for protein family analysis.
Nucleic Acids Res., 31(13): 3829-3832.
Thompson J.D., Thierry J.C. and Poch O. (2003) RASCAL: Rapid scanning and correction of multiple sequence alignment programs.
Bioinformatics, 19(9):1155-1161.
Cavusoglu N., Thierse D., Mohand-Said S., Chalmel F., Poch O., Van Dorsselaer A., Sahel J.A. and Leveillard T. (2003) Differential proteomic analysis of the mouse retina: The induction of crystallin proteins by retinal degeneration in the rd1 mouse.
Mol. Cell Proteomics, 2(8): 494-505.
Duval D., Duval G., Kedinger C., Poch O. and Boeuf H. (2003) The "PINIT" motif, of a newly identified conserved domain of the PIAS protein family, is essential for nuclear retention of PIAS3L.
FEBS Lett., 554(1-2): 111-118.
Bianchetti L., Oudet C. and Poch O. (2002) M13 Endopeptidases : New Conserved Motifs correlated with Structure, and Simultaneous Phylogenetic Occurence of PHEX and the Bony Fish
Proteins, 47 (4): 481-8.
2002:
Wicker N., Dembele D., Raffelsberger W. and Poch O. (2002) Density of points clustering, application to transcriptomic data analysis.
Nucleic Acids Res., 30(18):3992-4000.
Lecompte O., Ripp R., Thierry J.C., Moras D. and Poch O. (2002) Comparative analysis of ribosomal proteins in complete genomes: an example of reductive evolution at the domain-scale.
Nucleic Acids Res., 30(24): 5382-5390.
2001:
Bahr A., Thompson J.D., Thierry J.C., Poch O. (2001) BAliBASE (Benchmark alignment dataBASE): enhancements for repeats, transmembrane sequences and circular permutations.
Nucleic Acids Res., 29 (1): 323-326.
Mayer C., Suck D. and Poch O. (2001) A new component of the U3 snoRNP in Archaea: the U3 specific Imp4-related protein.
Trends Biochem. Sci., 26 (3):143-4.
Lecompte O., Thompson J.D., Plewniak F., Thierry J.C. and Poch O. (2001) Multiple alignment of complete sequences (MACS) in the post-genomic era.
Gene, 270:17-30.
Lecompte O., Ripp R., Puzos-Barbe V., Duprat S., Heilig R., Dietrich J., Thierry J.C. and Poch O. (2001) Genome evolution at the genus level : comparison of three complete genomes of hyperthermophilic Archaea.
Genome Research, 11 (6): 981-993.
Wicker N., Perrin G.R., Thierry J.C. and Poch O. (2001) Secator: a program for inferring protein subfamilies from phylogenetic trees.
Mol. Biol. Evol., 18 (8): 1435-41.
Thompson J.D., Plewniak F., Ripp R., J-C Thierry J.C. and Poch O. (2001) Towards A Reliable Measure for Multiple Sequence Alignments
J. Mol. Biol., 314 (4): 937-951
2000:
Gangloff Y.-G., Werten S., Romier C., Carré L., Poch O., Moras D. and Davidson I. (2000) The human TFIID components TAFII135-TAFII20 and the yeast SAGA components ADA1-TAFII68 heterodimerise to form histone-like pairs.
Mol. Cell. Biol., 20(1): 340-351.
Plewniak F, Thompson JD, Poch O. (2000) Ballast : blast post-processing based on locally conserved segments.
Bioinformatics, 16(9): 750-759.
Thompson J.D., Plewniak F. and Poch O. (2000) DbClustal : rapid and reliable global multiple alignments of protein sequences detected by database searches.
Nucleic Acids Res., 28(15): 2919-2926.
1999:
Thompson J.D., Plewniak F. and Poch O. (1999) BAliBASE: A benchmark alignment database for the evaluation of multiple sequence alignment programs.
BioInformatics, 15(1): 87-88.
Thompson J.D., Plewniak F. and Poch O. (1999) A comprehensive comparison of protein sequence alignment programs.
Nucleic Acids Res., 27(13): 2682-2690.
Lavigne A.C., Gangloff Y.-G., Carré L., Mengus G., Birck C., Poch O., Romier C., Moras D. and Davidson I. (1999) Asynergistic transcriptional activation by TATA-binding protein and hTAFII28 requirs specific amino acids of the hTAFII28 histone fold.
Mol. Cell. Biol., 19(7): 5050-5060.
Dantonel J.C., Wurtz J.M., Poch O., Moras D. and Tora L. (1999) The TBP-like factor : an alternative transcription factor in metazoa ?
Trends Biochem. Sci., 24(9): 335-9.
1998:
Birck C., Poch O., Romier C., Ruff M., Mengus G., Lavigne A.C., Davidson I. and Moras D. (1998) Human TAFII28 and TAFII18 interact through a canonical histone fold encoded by atypical evolutionary conserved sequence motifs also found in the SPT3 TAFII family.
Cell, 94(2): 239-249.
1997:
Bordonne R., Camasses A., Madania A., Poch O., Tarassov I., Winsor B. and Martin R. (1997) Analysis of a 35.6 kb region on the right arm of Saccharomyces cerevisiae chromosome XV.
Yeast, 13(1): 73-83.
Dujon B, Albermann K, Aldea M, Alexandraki D, Ansorge W, Arino J, Benes V, Bohn C, Bolotin-Fukuhara M, Bordonne R, Boyer J, Camasses A, Casamayor A, Casas C, Cheret G, Cziepluch C, Daignan-Fornier B, Dang DV, de Haan M, Delius H, Durand P, Fairhead C, Feldmann H, Gaillon L, …Poch O., …and Kleine K, (1997) The nucleotide sequence of Saccharomyces cerevisiae chromosome XV.
Nature, 387(6632 Suppl): 98-102.
Friant S., Heyman T., Poch O., Wilhelm M. and Wilhelm F.X. (1997) Sequence comparison of the Ty1 and Ty2 elements of the yeast genome supports the structural model of the tRNAiMet-Ty1 RNA reverse transcription initiation complex.
Yeast, 13(7): 639-645.
Poch O. and Winsor B. (1997) Who's who among the Saccharomyces cerevisiae actin-related proteins? A classification and nomenclature proposal for a large family.
Yeast, 13(11): 1053-1058.
Poch O. (1997) Conservation of a putative inhibitory domain in the GAL4 family members.
Gene, 184(2): 229-235.
Poterszman A., Lamour V., Egly J.M., Moras D., Thierry J.C. and Poch O. (1997) A eukaryotic XPB/ERCC3-like helicase in Mycobacterium leprae?
Trends Biochem. Sci., 22(11): 418-419.
Before 1997:
Madania A., Poch O., Tarassov I., Winsor B. and Martin R. (1996) Analysis of a 22,956 bp region on the right arm of Saccharomyces cerevisiae chromosome XV.
Yeast, 12(15): 1563-1573.
Muller R., Poch O., Delarue M., Bishop D.H. and Bouloy M. (1994) Rift Valley fever virus L segment: correction of the sequence and possible functional role of newly identified regions conserved in RNA-dependent polymerases.
J. Gen. Virol., 75(6): 1345-1352.
De Murcia G., Schreiber V., Molinete M., Saulier B., Poch O., Masson M., Niedergang C. and Menissier-de Murcia J. (1994) Structure and function of poly(ADP-ribose) polymerase.
Mol. Cell. Biochem., 138(1-2): 15-24.
Poch O., Schwob E., de Fraipont F., Camasses A., Bordonne R. and Martin R.P. (1994) RPK1, an essential yeast protein kinase involved in the regulation of the onset of mitosis, shows homology to mammalian dual-specificity kinases.
Mol. Gen. Genet., 243(6): 641-653.
Simonin F., Poch O., Delarue M. and de Murcia G. (1993) Identification of potential active-site residues in the human poly(ADP-ribose) polymerase.
J. Biol. Chem., 268(12): 8529-8535.
Poch O., L’Hote H., Dallery V., Debeaux F., Fleer R. and Sodoyer R. (1992) Sequence of the Kluyveromyces lactis beta-galactosidase: comparison with prokaryotic enzymes and secondary structure analysis.
Gene, 118(1): 55-63.
Poch O., Blumberg B.M., Bougueleret L. and Tordo N. (1990) Sequence comparison of five polymerases (L proteins) of unsegmented negative-strand RNA viruses: theoretical assignment of functional domains.
J. Gen. Virol., 71(5): 1153-1162.
Delarue M., Poch O., Tordo N., Moras D. and Argos P. (1990) An attempt to unify the structure of polymerases.
Protein Eng., 3(6): 461-467.
Schmitter D., Poch O., Zeder G., Heinrich G.F., Kocher H.P., Quesniaux V.F. and Van Regenmortel M.H. (1990) Analysis of the structural diversity of monoclonal antibodies to cyclosporine.
Mol. Immunol., 27(10): 1029-1038.
Simonin F., Menissier-de Murcia J., Poch O., Muller S., Gradwohl G., Molinete M., Penning C., Keith G. and de Murcia G. (1990) Expression and site-directed mutagenesis of the catalytic domain of human poly(ADP-ribose)polymerase in Escherichia coli. Lysine 893 is critical for activity.
J. Biol. Chem., 265(31): 19249-19256.
Eriani G., Delarue M., Poch O., Gangloff J. and Moras D. (1990) Partition of tRNA synthetases into two classes based on mutually exclusive sets of sequence motifs.
Nature, 347(6289): 203-206.
Poch O., Sauvaget I., Delarue M. and Tordo N. (1989) Identification of four conserved motifs among the RNA-dependent polymerase encoding elements.
EMBO J., 8(12): 3867-3874.
Poch O., Tordo N. and Keith G. (1988) Sequence of the 3386 3' nucleotides of the genome of the AVO1 strain rabies virus : structural similarities in the protein regions involved in transcription.
Biochimie, 70(8): 1019-1029.
Tordo N., Poch O., Ermine A., Keith G. and Rougeon F. (1988) Completion of the rabies virus genome sequence determination: highly conserved domains among the L (polymerase) proteins of unsegmented negative-strand RNA viruses.
Virology, 165(2): 565-576.
Tordo N., Poch O., Ermine A. and Keith G. (1986) Primary structure of leader RNA and nucleoprotein genes of the rabies genome: segmented homology with VSV.
Nucleic Acids Res., 14(6): 2671-2683.
Tordo N., Poch O., Ermine A., Keith G. and Rougeon F. (1986) Walking along the rabies genome: is the large G-L intergenic region a remnant gene?
Proc. Natl. Acad. Sci. U S A., 83(11): 3914-3918.
Tibayrenc M., Hoffmann A., Poch O., Echalar L., Le pont F., Lemesre J.L., Desjeux P. and Ayala F.J. (1986) Additional data on Trypanosoma cruzi isozymic strains encountered in Bolivian domestic transmission cycles.
Trans. R. Soc. Trop. Med. Hyg., 80(3): 442-447.
Tordo, N; Poch, O; Keith, G, Ermine A. (1985) Primary structure of the rabies Pasteur virus genome
Biological ChemistryHoppe-Seyler; 366 (9): 860-861.
Carrasco R.L., Breniere S.F., Poch O., Miguez H.V., Selaes H., Antezana G., Desjeux P., Carlier Y. (1985) Chagas serology and its problems.
Ann. Soc. Belg. Med. Trop., 65(1): 79-84.
Tibayrenc M., Cariou M.L., Solignac M., Delet J.P., Poch O. and Desjeux P. (1985) New electrophoretic evidence of genetic variation and diploidy in Trypanosoma cruzi, the causative agent of Chagas’ disease.
Genetica, 67(3): 223-230.
Breniere S.F., Poch O., Selaes H., Tibayrenc M., Lemesre J.L., Antezana G. and Desjeux P. (1984) Specific humoral depression in chronic patients infected by Trypanosoma cruzi.
Rev. Inst. Med. Trop. Sao Paulo, 26(5): 254-258.
Tibayrenc M., Echalar L., Dujardin J.P., Poch O. and Desjeux P. (1984) The microdistribution of isoenzymic strains of Trypanosoma cruzi in southern Bolivia; new isoenzyme profiles and further arguments against Mendelian sexuality.
Trans. R. Soc. Trop. Med. Hyg., 78(4): 519-525. |
Conference proceedings
PARSEC: a new web platform for the localization and characterization of genomic sites in complete eukaryotic genomes.
Allot A, Poidevin, P, Ripp R, Poch O, Lecompte O.
ISMB/ECCB 2013 (Berlin, Germany, 2013)
PARSEC: a new web platform for the localization and characterization of genomic sites in complete eukaryotic genomes.
Allot A, Poidevin, P, Ripp R, Poch O, Lecompte O.
Journée Ouvertes en Biologie, Informatique et Mathématiques (Toulouse, France, 2013)
Classification multi-étiquettes pour l’alignement multiple de séquences protéiques.
Fahed L, Frey G, Thompson JD, Lachiche N.
13th conférence : Extraction et Gestion des Connaissances (Toulouse, France) (2013)
Orthoinspector, an intuitive way to investigate orthology and paralogy.
Lecompte O.
relationships. 3rd World DNA and Genome Day (Xi’an, China, 2012). (Invited conference)
The protein barcode: capturing evolutionary histories in vertebrates.
Linard B, Poch O, Lecompte O, Thompson JD.
Quest for Orthologs 2 (Cambridge, UK, 2011)
Extracting Knowledge from a Mutation Database Related to Human Monogenic Disease Using Inductive Logic Programming.
Luu TD., Nguyen NH., Friedrich A., Muller J., Moulinier L., Poch O.
International Conference on Bioscience, Biochemistry and Bioinformatics; Singapore 2011. IEEE Catalog Number: CFP1134M-PRT. ISBN: 978-1-4244-9388-3.
OrthoInspector: comprehensive orthology analysis and visual exploration.
Linard B, Thompson JD, Poch O, Lecompte O.
Computational Biology and Innovation PhD Symposium (Dublin, Ireland, 2010)
OrthoInspector: comprehensive orthology analysis and visual exploration.
Linard B, Thompson JD, Poch P, Lecompte O.
Journée Ouvertes en Biologie, Informatique et Mathématiques (Montpellier, France, 2010)
Genome wide study of STAF transcription factor biding sites in the human genome.
Anno YN, Myslinski E, Poch O, Carbon P, Lecompte O.
Journée Ouvertes en Biologie, Informatique et Mathématiques (Nantes, France, 2009)
Comparative genomic analysis of the core-TFIIH.
Bedez F, Ripp R, Lecompte O, Moras D, Poch O.
14th Evolutionary Biology Meeting at Marseilles (Marseille, France, 2009)
Molecular adaptation to high temperatures in the deep-sea vent polychaete Alvinella pompejana.
Jollivet D, Gagnière N, Mary J, Tanguy A., Boutet, I, Hourdez S, Lallier F, Segurens B, Poch O, Lecompte, O.
4th International Symposium on Chemosynthesis-Based Ecosystems (Okinawa, Japan, 2009)
Molecular adaptation to high temperatures in the deep-sea vent polychaete Alvinella pompejana: search for adaptive signatures from an EST collection.
Jollivet D, Gagnière N, Mary J, Tanguy A., Boutet, I, Hourdez S, Lallier F, Segurens B, Poch O, Lecompte, O.
ASLO Aquatic Sciences Meeting (Nice, France, 2009)
Sequencing and biodiversity in the post-genomic era: cDNA analysis of the thermotolerant annelid Alvinella pompejana.
Gagnière N, Lecompte O, Poch O.
ULP-JSPS Joint Forum on “Frontiers in Biology/Chemistry/Physics” (Strasbourg, France, 2008)
Introduction to the new Biomedical Decrypthon Data Center.
Nguyen H, Friedrich A. Berthommier G. Poidevin L. Moulinier L. Ripp R. Poch O.
CORIA 2008, Hermès Edition.
Study of the molecular response to thermal challenge of the hydrothermal annelid Paralvinella grasslei
Tanguy A, Jollivet D, Shillito B, Lecompte O
Comparative biochemistry and physiology A-molecular & integraive physiology 2008 151(1):S42-S43
A Geometric Representation of Protein Sequences.
Shengyin Gu S., Poch O., Hamann B., Koehl P. (2007)
In: Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2007, 135-142
Structure cristallographique d’une jonction de Holliday, intermédiaire principal de la recombinaison.
Piton J, Lecompte O, Mauffret O, Poch O, Mayer C.
GTBIO 2007 (Lille, France, 2007)
Premières signatures moléculaires de l’adaptation thermique chez le polychète Alvinella pompejana par analyse du transcriptome.
Jollivet D, Boutet-Tanguy I, Tanguy A, Mary J, Lecompte O, Segurens B, Weissenbach J, Poch O.
Kick off Meeting GIS Europôle Mer (Roscoff, 2007)
Alvinella pompejana cDNA collection.
Gagnière N, Bigot Y, Brelivet Y , Busso D, Chénais B, Gaill F, Higuet D, Jollivet D, Leize E, Rees JF, Thierry JC, Weissenbach J, Zal F, Moras D, Poch O, Lecompte O.
SPINE2 First Annual Congress (Prague, Czech Republic, 2007)
From cDNA to integrative protein annotation and beyond: application to Alvinella pompejana cDNA collection.
Gagnière N, Bigot Y, Gaill F, Higuet D, Jollivet D, Leize E, Rees JF, Weissenbach J, Zal F, Poch O, Lecompte O.
AFP/Biosapiens (Vienna, Austria, 2007)
Tandem mass spectrometry data searches in uninterpreted and complete genome sequences.
Carapito C, Gallien S, Heymann M, Bertin PN, Lecompte O, Poch O, Schaeffer C, Van Dorsselaer A.
Congrès 2006 de la Société Française d’Electrophorèse et d’Analyse Protéomique (Saint-Malo, France, 2006)
Proteome Annotation with MACSIMS (Multiple Alignment of Complete Sequences Information Management System).
Thompson JD, Lecompte O, Muller A, Perrodou E, Waterhouse A, Procter J, Barton GJ, Plewniak F, Koehl P, Poch O.
The Second Automated Function Prediction Meeting (San Diego, California, 2006)
PtdIns5P regulation through evolution.
Lecompte O, Poch O, Laporte J.
Biochemical Society Annual Symposium (Birmingham, UK, 2006)
Alvinella Consortium : a large scale sequencing project at the french Genoscope.
Lecompte, O., Poch, O., Bigot, Y., Cormier, P., Conti, E., Dietrich, J., Duchiron, F., Gaill, F., Higuet, D., Hourdez, S., Jollivet, D., Knoops, B., Lallier, F., Laullier, M., Leize-Wagner, E., Moras, D., Rees, J.-F., Vandorsselaer, A., Shillito, B., Thierry, J.-C. & Zal, F..
Third International Symposium on Hydrothermal Vent and Seep Biology (La Jolla, California 2005)
Prédiction et validation des codons d’initiation : approches croisées bioinformatique et protéomique.
Lecompte O, Argentini M, Reyrat JM, Poch O, Van Dorsselaer A.
Journée du Réseau National Genopole : Quelle informatique et bioinformatique pour la protéomique ? (Grenoble, France, 2004)
Comparative analysis of ribosomal proteins in complete genomes: ribosome “striptease” in Archaea.
Lecompte O, Ripp R, Thierry JC, Moras M, Poch O.
Second JSPS Forum in France: « Postgenome » (Strasbourg, France, 2003)
Analyse de Séquences – Du gène à la famille de protéines.
Lecompte O.
XXVIII Forum des Jeunes Chercheurs (Strasbourg, France, 2001)
Replication in archaea : DNA polymerases I and II, Proliferating Cell Nuclear Antigen and Replication Factor C from Pyrococcus abyssi.
Raffin JP, Henneke G, De Falco M, Lecompte O, Cambon M.A, Querellou J, Zieger M, Dupret D, Dietrich J.
Third Meeting on Extremophiles as Cell Factories (Graz, Austria, 1999)
Cloning and expression of the PCNA from two hyperthermophilic archaea.
Henneke G, Raffin JP, Lecompte O, Dietrich J.
26th FEBS Meeting (Nice, France, 1999)
Complete genome sequencing of the hyperthermophilic Archaeon Pyrococcus abyssi.
Heilig R, Barbe V, Duprat S, Robert C, Vico V, Petit JL, Wincker P, Brottier P, Lecompte O, Querellou J, Erauso G, Prieur D, Poch O, Thierry JC, Forterre P, Weissenbach J, Zivanovich Y, Saurin W.
THERMOPHILES ’98 Conference (Brest, France, 1998)
Génétique moléculaire du virus de la rage, un siècle après Pasteur.
Tordo N., Poch O., Ermine A., Keith G. and Rougeon F. (1988)
in : Molecular Biology and Infectious Diseases (M. Schartz, ed.) Colloque International du Centenaire de l’Institut Pasteur. Elsevier. Paris: 31-40.
Reviews
SPINE bioinformatics and data-management aspects of high-throughput structural biology.
Albeck S, Alzari P, Andreini C, Banci L, Berry IM, Bertini I, Cambillau C, Canard B, Carter L, Cohen SX, Diprose JM, Dym O, Esnouf RM, Felder C, Ferron F, Guillemot F, Hamer R, Ben Jelloul M, Laskowski RA, Laurent T, Longhi S, Lopez R, Luchinat C, Malet H, Mochel T, Morris RJ, Moulinier L, Oinn T, Pajon A, Peleg Y, Perrakis A, Poch O, Prilusky J, Rachedi A, Ripp R, Rosato A, Silman I, Stuart DI, Sussman JL, Thierry JC, Thompson JD, Thornton JM, Unger T, Vaughan B, Vranken W, Watson JD, Whamond G, Henrick K.
Acta Crystallogr D Biol Crystallogr. (2006) 62(Pt 10):1184-95.
Multiple sequence alignment as a workbench for molecular systems biology.
Thompson J.D. and Poch O.
Current Bioinformatics, (2005) 1: 95-104.
Multiple alignment of complete sequences (MACS) in the post-genomic era.
Lecompte O, Thompson J.D, Plewniak F, Thierry J.C, Poch O.
Gene. (2001) 270(1-2):17-30
Functional and structural analysis of the subunits of human transcription factor TFIID.
Davidson I., Romier C., Lavigne A.C., Birck C., Mengus G., Poch O. and Moras D. (1998)
Cold Spring Harbor Symposia on Quantitative Biology LXIII: 233-241.
Evolution of negative-stranded RNA genomes.
Tordo N., De Haan P., Goldbach R. and Poch O.
Seminars in Virology, (1992) 3(1): 341-357.
Converting sequence block alignments into structural insights.
Poch O. and Delarue M.
Methods Enzymol., (1996) 266: 662-680.
One century latter…the rabies virus.
Poch O., Tordo N., Ermine A., Keith G. and Rougeon F.
Bull. Acad. Natl. Med., (1987) 171(8): 1087-1094.
Book Chapters
Intelligent Integrative knowledge bases: bridging genomics, integrative biology and translational medicine
Hoan Nguyen, Julie D.Thompson, Patrick Schutz and Olivier Poch.
Andreas Holzinger and Igor Jurisca. Interactive Knowledge Discovery and Data Mining: State-of-the-Art and Future Challenges in Biomedical Informatics. Springer LNCS, Volume 8401 (2014).
Strategies for efficient exploitation of the informational content of protein multiple alignments. in Sequence Alignment,
Friedrich A., Poch O. and Moulinier L.
éd. M.S. Rosenberg (2009).
New Challenges and Strategies for Multiple Sequence Alignment in the Proteomics Era.
Thompson J.D. and Poch O.
The Proteomics Protocols Handbook, Humana Press, (2005) pp. 475-492.
Sequence Alignment.
Thompson J.D. and Poch O.
Nature Encylopedia of the human genome, Nature Publishing Group, (2003)
Multiple Alignment.
Thompson J.D. and Poch O. (2003)
Nature Encylopedia of the human genome, Nature Publishing Group, (2003)
Structure of the rabies virus.
Tordo N. and Poch O.
in : Rabies (Campbell J.B. and Charlton K.M., eds) Kluwer Academic Publishers: 25-45. (1988)
Posters and Oral communications
Type II DNA polymerase from Pyrococcus abyssi
Forterre P, Thierry JC, Prieur D, Dietrich J, Lecompte O, Querellou J, Weissenbach J, Saurin W, Heilig R, Flament D, Raffin JP, Henneke G, Gueguen Y, Rolland JL. (2002) .
EP 1196583
Genome Sequence and Polypeptides of Pyrococcus abyssi, fragment and uses thereof.
Forterre P, Thierry JC, Prieur D, Dietrich J, Lecompte O, Querellou J, Weissenbach J, Saurin W, Heilig R, Flament D, Raffin JP, Henneke G, Gueguen Y, Rolland JL. (2000)
WO 2000/0065062
Other
Bioinformatics: Targets and developments within the Strasbourg, Alsace and Lorraine Genopôle project.
Poch O. and Thierry J.C. (2000)
BioValley Newsletter, 3-4: 26-27. |
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Publications
