Rastogi R, Chung R, Li S, Li C, Lee K, Woo J, Kim DW, Keum C, Babbi G, Martelli PL, Savojardo C, Casadio R, Chennen K, Weber T, Poch O, Ancien F, Cia G, Pucci F, Raimondi D, Vranken W, Rooman M, Marquet C, Olenyi T, Rost B, Andreoletti G, Kamandula A, Peng Y, Bakolitsa C, Mort M, Cooper DN, Bergquist T, Pejaver V, Liu X, Radivojac P, Brenner SE, Ioannidis NM

Hum Genet. 2025 03 21;:

StopKB: a comprehensive knowledgebase for nonsense suppression therapies.

Haas N, Thompson JD, Renaud JP, Chennen K, Poch O

Database (Oxford). 2024 10 12;2024:

IMPatienT: An Integrated Web Application to Digitize, Process and Explore Multimodal PATIENt daTa.

Meyer C, Romero NB, Evangelista T, Cadot B, Laporte J, Jeannin-Girardon A, Collet P, Ayadi A, Chennen K, Poch O

J Neuromuscul Dis. 2024 04 29;:

Real or fake? Measuring the impact of protein annotation errors on estimates of domain gain and loss events.

Kress A, Poch O, Lecompte O, Thompson JD

Front Bioinform. 2023 04 20;3:1178926

CeGAL: Redefining a Widespread Fungal-Specific Transcription Factor Family Using an In Silico Error-Tracking Approach.

Mayer C, Vogt A, Uslu T, Scalzitti N, Chennen K, Poch O, Thompson JD

J Fungi (Basel). 2023 03 29;9(4):

Spliceator: multi-species splice site prediction using convolutional neural networks.

Scalzitti N, Kress A, Orhand R, Weber T, Moulinier L, Jeannin-Girardon A, Collet P, Poch O, Thompson JD

BMC Bioinformatics. 2021 Nov 23;22(1):561

Novel Approach Combining Transcriptional and Evolutionary Signatures to Identify New Multiciliation Genes.

Defosset A, Merlat D, Poidevin L, Nevers Y, Kress A, Poch O, Lecompte O

Genes (Basel). 2021 Sep 21;12(9):

A DNA Repair and Cell Cycle Gene Expression Signature in Pediatric High-Grade Gliomas: Prognostic and Therapeutic Value.

Entz-Werlé N, Poidevin L, Nazarov PV, Poch O, Lhermitte B, Chenard MP, Burckel H, Guérin E, Fuchs Q, Castel D, Noel G, Choulier L, Dontenwill M, Van Dyck E

Cancers (Basel). 2021 May 7;13(9):

Potential role of the X circular code in the regulation of gene expression.

Thompson J, Ripp R, Mayer C, Poch O, Michel C

Biosystems. 2021 Feb 7;:104368

Proteome-scale detection of differential conservation patterns at protein and sub-protein levels with BLUR.

Defosset A, Kress A, Nevers Y, Ripp R, Thompson JD, Poch O, Lecompte O

Genome Biol Evol. 2020 Nov 19;:

Understanding the causes of errors in eukaryotic protein-coding gene prediction: a case study of primate proteomes.

Meyer C, Scalzitti N, Jeannin-Girardon A, Collet P, Poch O, Thompson JD

BMC Bioinformatics. 2020 Nov 10;21(1):513

Characterization of accessory genes in coronavirus genomes.

Michel CJ, Mayer C, Poch O, Thompson JD

Virol. J.. 2020 Aug 27;17(1):131

A benchmark study of ab initio gene prediction methods in diverse eukaryotic organisms.

Scalzitti N, Jeannin-Girardon A, Collet P, Poch O, Thompson JD

BMC Genomics. 2020 Apr 9;21(1):293

MISTIC: A prediction tool to reveal disease-relevant deleterious missense variants.

Chennen K, Weber T, Lornage X, Kress A, Böhm J, Thompson J, Laporte J, Poch O

PLoS ONE. 2020 ;15(7):e0236962

Novel IQCE variations confirm its role in postaxial polydactyly and cause ciliary defect phenotype in zebrafish.

Estrada-Cuzcano A, Etard C, Delvallée C, Stoetzel C, Schaefer E, Scheidecker S, Geoffroy V, Schneider A, Studer F, Mattioli F, Chennen K, Sigaudy S, Plassard D, Poch O, Piton A, Strahle U, Muller J, Dollfus H

Hum. Mutat.. 2019 Sep 24;:

Circular code motifs in the ribosome: a missing link in the evolution of translation?

Dila G, Ripp R, Mayer C, Poch O, Michel CJ, Thompson JD

RNA. 2019 Sep 10;:

Bardet-Biedl syndrome - tantenatal presentation of 45 fetuses with biallelic pathogenic variants in known BBS genes.

Mary L, Chennen K, Stoetzel C, Antin M, Leuvrey AS, Nourisson E, Alanio-Detton E, Antal MC, Attie-Bitach T, Bouvagnet P, Bouvier R, Buenerd A, Clémenson A, Devisme L, Gasser B, Gilbert-Dussardier B, Guimiot F, Khau Van Kien P, Leroy B, Loget P, Martinovic J, Pelluard F, Perez MJ, Petit F, Pinson L, Rooryck C, Poch O, Dollfus H, Schaefer E, Muller J

Clin. Genet.. 2019 Jan 7;:

OrthoInspector 3.0: open portal for comparative genomics.

Nevers Y, Kress A, Defosset A, Ripp R, Linard B, Thompson JD, Poch O, Lecompte O

Nucleic Acids Res.. 2018 Oct 31;:

Evolutionary conservation and functional implications of circular code motifs in eukaryotic genomes.

Dila G, Christian JM, Poch O, Ripp R, Julie DT

BioSystems. 2018 Oct 24;:

PROBE: analysis and visualization of protein block-level evolution.

Kress A, Lecompte O, Poch O, Thompson JD

Bioinformatics. 2018 May 7;:

Enrichment of Circular Code Motifs in the Genes of the Yeast Saccharomyces cerevisiae.

Michel CJ, Ngoune VN, Poch O, Ripp R, Thompson JD

Life (Basel). 2017 Dec 3;7(4):

MiSynPat: an integrated knowledge base linking clinical, genetic, and structural data for disease-causing mutations in human mitochondrial aminoacyl-tRNA synthetases.

Moulinier L, Ripp R, Castillo G, Poch O, Sissler M

Hum. Mutat.. 2017 Jun;:

MyGeneFriends: A Social Network Linking Genes, Genetic Diseases, and Researchers.

Allot A, Chennen K, Nevers Y, Poidevin L, Kress A, Ripp R, Thompson JD, Poch O, Lecompte O

J. Med. Internet Res.. 2017 Jun;19(6):e212

Insights into ciliary genes and evolution from multi-level phylogenetic profiling.

Nevers Y, Prasad MK, Poidevin L, Chennen K, Allot A, Kress A, Ripp R, Thompson JD, Dollfus H, Poch O, Lecompte O

Mol. Biol. Evol.. 2017 Apr;:

Identification and Characterization of MicroRNA Differentially Expressed in Macrophages Exposed to Porphyromonas gingivalis Infection.

Huck O, Al-Hashemi J, Poidevin L, Poch O, Davideau JL, Tenenbaum H, Amar S

Infect. Immun.. 2017 Mar;85(3):

LEON-BIS: multiple alignment evaluation of sequence neighbours using a Bayesian inference system.

Vanhoutreve R, Kress A, Legrand B, Gass H, Poch O, Thompson JD

BMC Bioinformatics. 2016 Jul;17(1):271

Identification of a Novel Homozygous Nonsense Mutation Confirms the Implication of GNAT1 in Rod-Cone Dystrophy.

Méjécase C, Laurent-Coriat C, Mayer C, Poch O, Mohand-Saïd S, Prévot C, Antonio A, Boyard F, Condroyer C, Michiels C, Blanchard S, Letexier M, Saraiva JP, Sahel JA, Audo I, Zeitz C

PLoS ONE. 2016 ;11(12):e0168271

Identification of an Alternative Splicing Product of the Otx2 Gene Expressed in the Neural Retina and Retinal Pigmented Epithelial Cells.

Kole C, Berdugo N, Da Silva C, Aït-Ali N, Millet-Puel G, Pagan D, Blond F, Poidevin L, Ripp R, Fontaine V, Wincker P, Zack DJ, Sahel JA, Poch O, Léveillard T

PLoS ONE. 2016 ;11(3):e0150758

Ubiquitin Receptor Protein UBASH3B Drives Aurora B Recruitment to Mitotic Microtubules.

Krupina K, Kleiss C, Metzger T, Fournane S, Schmucker S, Hofmann K, Fischer B, Paul N, Porter IM, Raffelsberger W, Poch O, Swedlow JR, Brino L, Sumara I

Dev. Cell. 2016 Jan;36(1):63-78

OrthoInspector 2.0: Software and database updates.

Linard B, Allot A, Schneider R, Morel C, Ripp R, Bigler M, Thompson JD, Poch O, Lecompte O

Bioinformatics. 2015 Feb 1;31(3):447-8

Integrated annotation and analysis of in situ hybridization images using the ImAnno system: application to the ear and sensory organs of the fetal mouse.

Romand R, Ripp R, Poidevin L, Boeglin M, Geffers L, Dollé P, Poch O

PLoS ONE. 2015 ;10(2):e0118024

Tex19 and Sectm1 concordant molecular phylogenies support co-evolution of both eutherian-specific genes.

Bianchetti L, Tarabay Y, Lecompte O, Stote R, Poch O, Dejaegere A, Viville S

BMC Evol Biol. 2015 Oct 12;15:222

[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

SIBIS: a Bayesian model for inconsistent protein sequence estimation.

Khenoussi W, Vanhoutreve R, Poch O, Thompson JD

Bioinformatics. 2014 Sep 1;30(17):2432-9

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

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, Strahle U, Nachury MV, Dollfus H

J Med Genet. 2014 Feb;51(2):132-6

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 HN, Poch O, Thompson JD

BMC Bioinformatics. 2014 Apr 17;15:111

Lrit3 deficient mouse (nob6): a novel model of complete congenital stationary night blindness (cCSNB).

Neuille 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

The molecular signature of the stroma response in prostate cancer-induced osteoblastic bone metastasis highlights expansion of hematopoietic and prostate epithelial stem cell niches.

Ozdemir 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

PARSEC: PAtteRn SEarch and Contextualization.

Allot A, Anno YN, Poidevin L, Ripp R, Poch O, Lecompte O

Bioinformatics. 2013 Oct 15;29(20):2643-4

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 May;76(5):295-310

Seven new loci associated with age-related macular degeneration.

Fritsche LG, Chen W, Schu M, Yaspan BL, Yu Y, Thorleifsson G, Zack DJ, Arakawa S, Cipriani V, Ripke S, Igo RP Jr, Buitendijk GH, Sim X, Weeks DE, Guymer RH, Merriam JE, Francis PJ, Hannum G, Agarwal A, Armbrecht AM, Audo I, Aung T, Barile GR, Benchaboune M, Bird AC, Bishop PN, Branham KE, Brooks M, Brucker AJ, Cade WH, Cain MS, Campochiaro PA, Chan CC, Cheng CY, Chew EY, Chin KA, Chowers I, Clayton DG, Cojocaru R, Conley YP, Cornes BK, Daly MJ, Dhillon B, Edwards AO, Evangelou E, Fagerness J, Ferreyra HA, Friedman JS, Geirsdottir A, George RJ, Gieger C, Gupta N, Hagstrom SA, Harding SP, Haritoglou C, Heckenlively JR, Holz FG, Hughes G, Ioannidis JP, Ishibashi T, Joseph P, Jun G, Kamatani Y, Katsanis N, N Keilhauer C, Khan JC, Kim IK, Kiyohara Y, Klein BE, Klein R, Kovach JL, Kozak I, Lee CJ, Lee KE, Lichtner P, Lotery AJ, Meitinger T, Mitchell P, Mohand-Said S, Moore AT, Morgan DJ, Morrison MA, Myers CE, Naj AC, Nakamura Y, Okada Y, Orlin A, Ortube MC, Othman MI, Pappas C, Park KH, Pauer GJ, Peachey NS, Poch O, Priya RR, Reynolds R, Richardson AJ, Ripp R, Rudolph G, Ryu E, Sahel JA, Schaumberg DA, Scholl HP, Schwartz SG, Scott WK, Shahid H, Sigurdsson H, Silvestri G, Sivakumaran TA, Smith RT, Sobrin L, Souied EH, Stambolian DE, Stefansson H, Sturgill-Short GM, Takahashi A, Tosakulwong N, Truitt BJ, Tsironi EE, Uitterlinden AG, van Duijn CM, Vijaya L, Vingerling JR, Vithana EN, Webster AR, Wichmann HE, Winkler TW, Wong TY, Wright AF, Zelenika D, Zhang M, Zhao L, Zhang K, Klein ML, Hageman GS, Lathrop GM, Stefansson K, Allikmets R, Baird PN, Gorin MB, Wang JJ, Klaver CC, Seddon JM, Pericak-Vance MA, Iyengar SK, Yates JR, Swaroop A, Weber BH, Kubo M, Deangelis MM, Leveillard T, Thorsteinsdottir U, Haines JL, Farrer LA, Heid IM, Abecasis GR

Nat Genet. 2013 Apr;45(4):433-9, 439e1-2

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 Mar;101(3):178-86

Knowledge discovery in variant databases using inductive logic programming.

Nguyen H, Luu TD, Poch O, Thompson JD

Bioinform Biol Insights. 2013 Mar 18;7:119-31

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, Neuille M, Orhan E, Zanlonghi X, Lancelot ME, Michiels C, Schwartz SB, Bocquet B, 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

Nxnl2 splicing results in dual functions in neuronal cell survival and maintenance of cell integrity.

Jaillard C, Mouret A, Niepon ML, Clerin E, Yang Y, Lee-Rivera I, Ait-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, Leveillard T

Hum Mol Genet. 2012 May 15;21(10):2298-311

Perfect sampling on 2 x ... x 2 x K contingency tables with an application to SAGE data.

Kieffer D, Bianchetti L, Poch O, Wicker N

. 2012 Apr;142(4):896-901.

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-Said 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, Leveillard 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.

EvoluCode: Evolutionary Barcodes as a Unifying Framework for Multilevel Evolutionary Data.

Linard B, Nguyen NH, Prosdocimi F, Poch O, Thompson JD

Evol Bioinform Online. 2012;8:61-77

Evolutionary analysis of the ENTH/ANTH/VHS protein superfamily reveals a coevolution between membrane trafficking and metabolism.

De Craene JO, Ripp R, Lecompte O, Thompson JD, Poch O, Friant S

BMC Genomics. 2012 Jul 2;13:297

Functional classification of genes using semantic distance and fuzzy clustering approach: evaluation with reference sets and overlap analysis.

Devignes MD, Benabderrahmane S, Smail-Tabbone M, Napoli A, Poch O

Int J Comput Biol Drug Des. 2012;5(3-4):245-60

In vivo topoisomerase I inhibition attenuates the expression of hypoxia-inducible factor 1alpha target genes and decreases tumor angiogenesis.

Guerin 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(1):83-94

Increased frequency of single base substitutions in a population of transcripts expressed in cancer cells.

Bianchetti L, Kieffer D, Federkeil R, Poch O

BMC Cancer. 2012 Nov 8;12:509

MSV3d: database of human MisSense Variants mapped to 3D protein structure.

Luu TD, Rusu AM, Walter V, Ripp R, Moulinier L, Muller J, Toursel T, Thompson JD, Poch O, Nguyen H

Database (Oxford). 2012 Apr 3;2012:bas018. Print 2012.

Proteome adaptation to high temperatures in the ectothermic hydrothermal vent Pompeii worm.

Jollivet D, Mary J, Gagniere N, Tanguy A, Fontanillas E, Boutet I, Hourdez S, Segurens B, Weissenbach J, Poch O, Lecompte O

PLoS One. 2012;7(2):e31150

RNA polymerase II pausing downstream of core histone genes is different from genes producing polyadenylated transcripts.

Anamika K, Gyenis A, Poidevin L, Poch O, Tora L

PLoS One. 2012;7(6):e38769

The chordate proteome history database.

Levasseur A, Paganini J, Dainat J, Thompson JD, Poch O, Pontarotti P, Gouret P

Evol Bioinform Online. 2012;8:437-47

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

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.

Genome-wide in silico identification of new conserved and functional retinoic acid receptor response elements (direct repeats separated by 5 bp).

Lalevee 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, Doffoel M, Raffelsberger W, Poch O, McKeating JA, Brino L, Baumert TF

Nat Med. 2011 May;17(5):589-95

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

-conome: an automated tissue counting platform of cone photoreceptors for rodent models of retinitis pigmentosa.

Clerin E, Wicker N, Mohand-Said S, Poch O, Sahel JA, Leveillard T

BMC Ophthalmol. 2011 Dec 20;11:38.

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.

M-ORBIS: mapping of molecular binding sites and surfaces.

Albou LP, Poch O, Moras D

Nucleic Acids Res. 2011 Jan 1;39(1):30-43

OrthoInspector: comprehensive orthology analysis and visual exploration.

Linard B, Thompson JD, Poch O, Lecompte O

BMC Bioinformatics. 2011 Jan 10;12:11.

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, Leveillard T

PLoS One. 2011;6(12):e28791

Issues in bioinformatics benchmarking: the case study of multiple sequence alignment.

Aniba MR, Poch O, Thompson JD

Nucleic Acids Res. 2010 Nov 1;38(21):7353-63

AlexSys: a knowledge-based expert system for multiple sequence alignment construction and analysis.

Aniba MR, Poch O, Marchler-Bauer A, Thompson JD

Nucleic Acids Res. 2010 Oct 1;38(19):6338-49

An unusual retinal phenotype associated with a novel mutation in RHO.

Audo I, Friedrich A, Mohand-Said S, Lancelot ME, Antonio A, Moskova-Doumanova V, Poch O, Bhattacharya S, Sahel JA, Zeitz C

Arch Ophthalmol. 2010 Aug;128(8):1036-45.

Spectrum of rhodopsin mutations in French autosomal dominant rod-cone dystrophy patients.

Audo I, Manes G, Mohand-Said S, Friedrich A, Lancelot ME, Antonio A, Moskova-Doumanova V, Poch O, Zanlonghi X, Hamel CP, Sahel JA, Bhattacharya SS, Zeitz C

Invest Ophthalmol Vis Sci. 2010 Jul;51(7):3687-700

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, Clerin E, Petrosian A, Picaud S, Poch O, Sahel JA, Leveillard T

Cell Death Differ. 2010 Jul;17(7):1199-210

Multidimensional fitting for multivariate data analysis.

Berge C, Froloff N, Kalathur RK, Maumy M, Poch O, Raffelsberger W, Wicker N

J Comput Biol. 2010 May;17(5):723-32.

Identification of 28 novel mutations in the Bardet-Biedl syndrome genes: the burden of private mutations in an extensively heterogeneous disease.

Muller J, Stoetzel C, Vincent MC, Leitch CC, Laurier V, Danse JM, Helle S, Marion V, Bennouna-Greene V, Vicaire S, Megarbane A, Kaplan J, Drouin-Garraud V, Hamdani M, Sigaudy S, Francannet C, Roume J, Bitoun P, Goldenberg A, Philip N, Odent S, Green J, Cossee M, Davis EE, Katsanis N, Bonneau D, Verloes A, Poch O, Mandel JL, Dollfus H

Hum Genet. 2010 Mar;127(5):583-93

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, Gagniere N, Nguyen H, Albou LP, Biancalana V, Bettler E, Deleage G, Lecompte O, Muller J, Moras D, Mandel JL, Toursel T, Moulinier L, Poch O

Hum Mutat. 2010 Feb;31(2):127-35.

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

Decrypthon 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.

Insights into metazoan evolution from Alvinella pompejana cDNAs.

Gagniere N, Jollivet D, Boutet I, Brelivet 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 Nov 16;11:634.

IntelliGO: a new vector-based semantic similarity measure including annotation origin.

Benabderrahmane S, Smail-Tabbone M, Poch O, Napoli A, Devignes MD

BMC Bioinformatics. 2010 Dec 1;11:588.

Lessons from genome-wide studies: an integrated definition of the coactivator function of histone acetyl transferases.

Anamika K, Krebs AR, Thompson J, Poch O, Devys D, Tora L

Epigenetics Chromatin. 2010 Oct 20;3(1):18.

The homeobox gene CHX10/VSX2 regulates RdCVF promoter activity in the inner retina.

Reichman S, Kalathur RK, Lambard S, Ait-Ali N, Yang Y, Lardenois A, Ripp R, Poch O, Zack DJ, Sahel JA, Leveillard T

Hum Mol Genet. 2010 Jan 15;19(2):250-61

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.

Time-resolved analysis of transcriptional events during SNAI1-triggered epithelial to mesenchymal transition.

Vetter G, Le Bechec A, Muller J, Muller A, Moes M, Yatskou M, Al Tanoury Z, Poch O, Vallar L, Friederich E

Biochem Biophys Res Commun. 2009 Aug 7;385(4):485-91

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, Leveillard T

Mol Cell Proteomics. 2009 Jun;8(6):1206-18

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.

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

Ortho-proteogenomics: multiple proteomes investigation through orthology and a new MS-based protocol.

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

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

PLoS ONE. 2009;4(3):e4712

PtdIns5P regulation through evolution: roles in membrane trafficking?

Lecompte O, Poch O, Laporte J

Trends Biochem Sci. 2008 Oct;33(10):453-60

Transcriptome analysis identifies genes with enriched expression in the mouse central extended amygdala.

Becker JA, Befort K, Blad C, Filliol D, Ghate A, Dembele D, Thibault C, Koch M, Muller J, Lardenois A, Poch O, Kieffer BL

Neuroscience. 2008 Oct 28;156(4):950-65

Mu-opioid receptor activation induces transcriptional plasticity in the central extended amygdala.

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

Eur J Neurosci. 2008 Jun;27(11):2973-84.

A maximum likelihood approximation method for Dirichlet's parameter estimation

Wicker N, Muller J, Kalathur RKR, Poch O

Comput Stat Data Anal. 2008 Jan 1;52(3):1315-22

A new protein linear motif benchmark for multiple sequence alignment software.

Perrodou E, Chica C, Poch O, Gibson TJ, Thompson JD

BMC Bioinformatics. 2008 Apr 25;9:213.

Analysis of the retinal gene expression profile after hypoxic preconditioning identifies candidate genes for neuroprotection.

Thiersch M, Raffelsberger W, Frigg R, Samardzija M, Wenzel A, Poch O, Grimm C

BMC Genomics. 2008 Feb 8;9:73.

Gene expression is altered in the lateral hypothalamus upon activation of the mu opioid receptor.

Befort K, Filliol D, Darcq E, Ghate A, Matifas A, Lardenois A, Muller J, Thibault C, Dembele D, Poch O, Kieffer BL

Ann N Y Acad Sci. 2008;1129:175-84.

Strategies for reliable exploitation of evolutionary concepts in high throughput biology.

Levasseur A, Pontarotti P, Poch O, Thompson JD

Evol Bioinform Online. 2008;4:121-37

The hypoxic transcriptome of the retina: identification of factors with potential neuroprotective activity.

Thiersch M, Raffelsberger W, Frigg E, Samardzija M, Blank P, Poch O, Grimm C

Adv Exp Med Biol. 2008;613:75-85.

Nonrandom variations in human cancer ESTs indicate that mRNA heterogeneity increases during carcinogenesis.

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

Proc Natl Acad Sci U S A. 2007 May 1;104(18):7522-7

A new look towards BAC-based array CGH through a comprehensive comparison with oligo-based array CGH.

Wicker N, Carles A, Mills IG, Wolf M, Veerakumarasivam A, Edgren H, Boileau F, Wasylyk B, Schalken JA, Neal DE, Kallioniemi O, Poch O

BMC Genomics. 2007 Mar 29;8:84.

Blast sampling for structural and functional analyses.

Friedrich A, Ripp R, Garnier N, Bettler E, Deleage G, Poch O, Moulinier L

BMC Bioinformatics. 2007 Feb 23;8:62.

Design and evaluation of Actichip, a thematic microarray for the study of the actin cytoskeleton.

Muller J, Mehlen A, Vetter G, Yatskou M, Muller A, Chalmel F, Poch O, Friederich E, Vallar L

BMC Genomics. 2007 Aug 29;8:294.

Interrupted coding sequences in Mycobacterium smegmatis: authentic mutations or sequencing errors?

Deshayes C, Perrodou E, Gallien S, Euphrasie D, Schaeffer C, Van-Dorsselaer A, Poch O, Lecompte O, Reyrat JM

Genome Biol. 2007;8(2):R20.

PeroxisomeDB: a database for the peroxisomal proteome, functional genomics and disease

Schluter A, Fourcade S, Domenech-Estevez E, Gabaldon T, Huerta-Cepas J, Berthommier G, Ripp R, Wanders RJA, Poch O, Pujol A

Nucleic Acids Res. 2007 Jan;35(Database issue):D815-22

Rod-derived Cone Viability Factor-2 is a novel bifunctional-thioredoxin-like protein with therapeutic potential.

Chalmel F, Leveillard T, Jaillard C, Lardenois A, Berdugo N, Morel E, Koehl P, Lambrou G, Holmgren A, Sahel JA, Poch O

BMC Mol Biol. 2007 Aug 31;8:74.

SAGETTARIUS: a program to reduce the number of tags mapped to multiple transcripts and to plan SAGE sequencing stages.

Bianchetti L, Wu Y, Guerin E, Plewniak F, Poch O

Nucleic Acids Res. 2007;35(18):e122

Pitfalls of homozygosity mapping: an extended consanguineous Bardet-Biedl syndrome family with two mutant genes (BBS2, BBS10), three mutations, but no triallelism.

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

Eur J Hum Genet. 2006 Nov;14(11):1195-203

[Bardet-Biedl syndrome: a unique family for a major gene (BBS10)].

Dollfus H, Muller J, Stoetzel C, Laurier V, Bonneau D, Megarbane A, Poch O, Mandel JL

Med Sci (Paris). 2006 Nov;22(11):901-4.

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 Oct;62(Pt 10):1184-95

MAGOS: multiple alignment and modelling server.

Garnier N, Friedrich A, Bolze R, Bettler E, Moulinier L, Geourjon C, Thompson JD, Deleage G, Poch O

Bioinformatics. 2006 Sep 1;22(17):2164-5

PromAn: an integrated knowledge-based web server dedicated to promoter analysis.

Lardenois A, Chalmel F, Bianchetti L, Sahel JA, Leveillard T, Poch O

Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W578-83.

BBS10 encodes a vertebrate-specific chaperonin-like protein and is a major BBS locus.

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

Nat Genet. 2006 May;38(5):521-4

The evolutionary origin of peroxisomes: an ER-peroxisome connection.

Schluter A, Fourcade S, Ripp R, Mandel JL, Poch O, Pujol A

Mol Biol Evol. 2006 Apr;23(4):838-45

Head and neck squamous cell carcinoma transcriptome analysis by comprehensive validated differential display.

Carles A, Millon R, Cromer A, Ganguli G, Lemaire F, Young J, Wasylyk C, Muller D, Schultz I, Rabouel Y, Dembele D, Zhao C, Marchal P, Ducray C, Bracco L, Abecassis J, Poch O, Wasylyk B

Oncogene. 2006 Mar 16;25(12):1821-31.