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Peptimapper: proteogenomics workflow for the expert annotation of eukaryotic genomes.

Guillot L, Delage L, Viari A, Vandenbrouck Y, Com E, Ritter A, Lavigne R, Marie D, Peterlongo P, Potin P, Pineau C.

BMC Genomics. 2019 Jan 17;20(1):56. doi: 10.1186/s12864-019-5431-9.


MuSeeQ, a novel supervised image analysis tool for the simultaneous phenotyping of the soluble mucilage and seed morphometric parameters.

Miart F, Fontaine JX, Pineau C, Demailly H, Thomasset B, Van Wuytswinkel O, Pageau K, Mesnard F.

Plant Methods. 2018 Dec 18;14:112. doi: 10.1186/s13007-018-0377-5. eCollection 2018.


Risk of Ocular Anomalies in Children Exposed in Utero to Antimalarials: A Systematic Literature Review.

Gaffar R, Pineau CA, Bernatsky S, Scott S, Vinet E.

Arthritis Care Res (Hoboken). 2018 Nov 12. doi: 10.1002/acr.23808. [Epub ahead of print]


Persistent Disease Activity Remains a Burden for Patients with Systemic Lupus Erythematosus.

Peschken CA, Wang Y, Abrahamowicz M, Pope J, Silverman E, Sayani A, Iczkovitz S, Ross J, Zummer M, Tucker L, Pineau C, Levy D, Hudson M, Hitchon CA, Huber AM, Smith CD, Avina-Zubieta A, Arbillaga H, Chédeville G, Wynant W, Fortin PR; CaNIOS 1000 Faces Investigators.

J Rheumatol. 2018 Sep 15. pii: jrheum.171454. doi: 10.3899/jrheum.171454. [Epub ahead of print]


Canadian Rheumatology Association Recommendations for the Assessment and Monitoring of Systemic Lupus Erythematosus.

Keeling SO, Alabdurubalnabi Z, Avina-Zubieta A, Barr S, Bergeron L, Bernatsky S, Bourre-Tessier J, Clarke A, Baril-Dionne A, Dutz J, Ensworth S, Fifi-Mah A, Fortin PR, Gladman DD, Haaland D, Hanly JG, Hiraki LT, Hussein S, Legault K, Levy D, Lim L, Matsos M, McDonald EG, Medina-Rosas J, Pardo Pardi J, Peschken C, Pineau C, Pope J, Rader T, Reynolds J, Silverman E, Tselios K, Suitner M, Urowitz M, Touma Z, Vinet E, Santesso N.

J Rheumatol. 2018 Oct;45(10):1426-1439. doi: 10.3899/jrheum.171459. Epub 2018 Sep 1.


Deciphering the Dark Proteome: Use of the Testis and Characterization of Two Dark Proteins.

Melaine N, Com E, Bellaud P, Guillot L, Lagarrigue M, Morrice NA, Guével B, Lavigne R, Velez de la Calle JF, Dojahn J, Pineau C.

J Proteome Res. 2018 Aug 31. doi: 10.1021/acs.jproteome.8b00387. [Epub ahead of print]


A Prospective International Study on Adherence to Treatment in 305 Patients With Flaring SLE: Assessment by Drug Levels and Self-Administered Questionnaires.

Costedoat-Chalumeau N, Houssiau F, Izmirly P, Guern VL, Navarra S, Jolly M, Ruiz-Irastorza G, Baron G, Hachulla E, Agmon-Levin N, Shoenfeld Y, Dall'Ara F, Buyon J, Deligny C, Cervera R, Lazaro E, Bezanahary H, Leroux G, Morel N, Viallard JF, Pineau C, Galicier L, Vollenhoven RV, Tincani A, Nguyen H, Gondran G, Zahr N, Pouchot J, Piette JC, Petri M, Isenberg D.

Clin Pharmacol Ther. 2018 Aug 6. doi: 10.1002/cpt.1194. [Epub ahead of print]


Current situation and future prospects for beef production in Europe - A review.

Hocquette JF, Ellies-Oury MP, Lherm M, Pineau C, Deblitz C, Farmer L.

Asian-Australas J Anim Sci. 2018 Jul;31(7):1017-1035. doi: 10.5713/ajas.18.0196. Epub 2018 May 24.


Brief Report: Risk of Childhood Rheumatic and Nonrheumatic Autoimmune Diseases in Children Born to Women With Systemic Lupus Erythematosus.

Couture J, Bernatsky S, Scott S, Pineau CA, Vinet E.

Arthritis Rheumatol. 2018 Nov;70(11):1796-1800. doi: 10.1002/art.40570.


Serious Infections in Rheumatoid Arthritis Offspring Exposed to Tumor Necrosis Factor Inhibitors: A Cohort Study.

Vinet É, De Moura C, Pineau CA, Abrahamowicz M, Curtis JR, Bernatsky S.

Arthritis Rheumatol. 2018 Oct;70(10):1565-1571. doi: 10.1002/art.40536. Epub 2018 Aug 30.


A comparison of health-related quality of life (HRQoL) across four systemic autoimmune rheumatic diseases (SARDs).

Greenfield J, Hudson M, Vinet E, Fortin PR, Bykerk V, Pineau CA, Wang M, Bernatsky S, Baron M; Canadian Scleroderma Research Group and Canadian Inflammatory Myopathy Study Group.

PLoS One. 2017 Dec 19;12(12):e0189840. doi: 10.1371/journal.pone.0189840. eCollection 2017.


Scrambled eggs: Proteomic portraits and novel biomarkers of egg quality in zebrafish (Danio rerio).

Yilmaz O, Patinote A, Nguyen TV, Com E, Lavigne R, Pineau C, Sullivan CV, Bobe J.

PLoS One. 2017 Nov 16;12(11):e0188084. doi: 10.1371/journal.pone.0188084. eCollection 2017.


A Prospective International Study on Adherence to Treatment in 305 Patients With Flaring SLE: Assessment by Drug Levels and Self-Administered Questionnaires.

Costedoat-Chalumeau N, Houssiau F, Izmirly P, Le Guern V, Navarra S, Jolly M, Ruiz-Irastorza G, Baron G, Hachulla E, Agmon-Levin N, Shoenfeld Y, Dall'Ara F, Buyon J, Deligny C, Cervera R, Lazaro E, Bezanahary H, Leroux G, Morel N, Viallard JF, Pineau C, Galicier L, Van Vollenhoven R, Tincani A, Nguyen H, Gondran G, Zahr N, Pouchot J, Piette JC, Petri M, Isenberg D.

Clin Pharmacol Ther. 2018 Jun;103(6):1074-1082. doi: 10.1002/cpt.885. Epub 2017 Nov 9.


Validating Missing Proteins in Human Sperm Cells by Targeted Mass-Spectrometry- and Antibody-based Methods.

Carapito C, Duek P, Macron C, Seffals M, Rondel K, Delalande F, Lindskog C, Fréour T, Vandenbrouck Y, Lane L, Pineau C.

J Proteome Res. 2017 Dec 1;16(12):4340-4351. doi: 10.1021/acs.jproteome.7b00374. Epub 2017 Sep 26.


Transancestral mapping and genetic load in systemic lupus erythematosus.

Langefeld CD, Ainsworth HC, Cunninghame Graham DS, Kelly JA, Comeau ME, Marion MC, Howard TD, Ramos PS, Croker JA, Morris DL, Sandling JK, Almlöf JC, Acevedo-Vásquez EM, Alarcón GS, Babini AM, Baca V, Bengtsson AA, Berbotto GA, Bijl M, Brown EE, Brunner HI, Cardiel MH, Catoggio L, Cervera R, Cucho-Venegas JM, Dahlqvist SR, D'Alfonso S, Da Silva BM, de la Rúa Figueroa I, Doria A, Edberg JC, Endreffy E, Esquivel-Valerio JA, Fortin PR, Freedman BI, Frostegård J, García MA, de la Torre IG, Gilkeson GS, Gladman DD, Gunnarsson I, Guthridge JM, Huggins JL, James JA, Kallenberg CGM, Kamen DL, Karp DR, Kaufman KM, Kottyan LC, Kovács L, Laustrup H, Lauwerys BR, Li QZ, Maradiaga-Ceceña MA, Martín J, McCune JM, McWilliams DR, Merrill JT, Miranda P, Moctezuma JF, Nath SK, Niewold TB, Orozco L, Ortego-Centeno N, Petri M, Pineau CA, Pons-Estel BA, Pope J, Raj P, Ramsey-Goldman R, Reveille JD, Russell LP, Sabio JM, Aguilar-Salinas CA, Scherbarth HR, Scorza R, Seldin MF, Sjöwall C, Svenungsson E, Thompson SD, Toloza SMA, Truedsson L, Tusié-Luna T, Vasconcelos C, Vilá LM, Wallace DJ, Weisman MH, Wither JE, Bhangale T, Oksenberg JR, Rioux JD, Gregersen PK, Syvänen AC, Rönnblom L, Criswell LA, Jacob CO, Sivils KL, Tsao BP, Schanberg LE, Behrens TW, Silverman ED, Alarcón-Riquelme ME, Kimberly RP, Harley JB, Wakeland EK, Graham RR, Gaffney PM, Vyse TJ.

Nat Commun. 2017 Jul 17;8:16021. doi: 10.1038/ncomms16021.


Clinically Apparent Arterial Thrombosis in Persons with Systemic Vasculitis.

Tsoukas A, Bernatsky S, Joseph L, Buckeridge DL, Bélisle P, Pineau CA.

Int J Rheumatol. 2017;2017:3572768. doi: 10.1155/2017/3572768. Epub 2017 Jun 21.


Large scale phosphoprotein profiling to explore Drosophila cold acclimation regulatory mechanisms.

Colinet H, Pineau C, Com E.

Sci Rep. 2017 May 10;7(1):1713. doi: 10.1038/s41598-017-01974-z.


Risk of Allergic Conditions in Children Born to Women With Systemic Lupus Erythematosus.

Couture J, Ben-Shoshan M, Pineau CA, Scott S, Clarke AE, Bernatsky S, Vinet E.

Arthritis Care Res (Hoboken). 2018 Feb;70(2):315-319. doi: 10.1002/acr.23251. Epub 2018 Jan 22.


Risk of Autism Spectrum Disorders in Children Born to Mothers With Rheumatoid Arthritis: A Systematic Literature Review.

Wojcik S, Bernatsky S, Platt RW, Pineau CA, Clarke AE, Fombonne É, Bérard A, Vinet É.

Arthritis Care Res (Hoboken). 2017 Dec;69(12):1926-1931. doi: 10.1002/acr.23235. Epub 2017 Nov 7. Review.


Multiple signals at the extended 8p23 locus are associated with susceptibility to systemic lupus erythematosus.

Demirci FY, Wang X, Morris DL, Feingold E, Bernatsky S, Pineau C, Clarke A, Ramsey-Goldman R, Manzi S, Vyse TJ, Kamboh MI.

J Med Genet. 2017 Jun;54(6):381-389. doi: 10.1136/jmedgenet-2016-104247. Epub 2017 Mar 13.


Belimumab use, clinical outcomes and glucocorticoid reduction in patients with systemic lupus erythematosus receiving belimumab in clinical practice settings: results from the OBSErve Canada Study.

Touma Z, Sayani A, Pineau CA, Fortin I, Matsos M, Ecker GA, Chow A, Iczkovitz S.

Rheumatol Int. 2017 Jun;37(6):865-873. doi: 10.1007/s00296-017-3682-9. Epub 2017 Mar 9.


Structural and functional changes during epileptogenesis in the mouse model of medial temporal lobe epilepsy.

Dietrich Y, Eliat PA, Dieuset G, Saint-Jalmes H, Pineau C, Wendling F, Martin B.

Conf Proc IEEE Eng Med Biol Soc. 2016 Aug;2016:4005-4008. doi: 10.1109/EMBC.2016.7591605.


The protein expression landscape of mitosis and meiosis in diploid budding yeast.

Becker E, Com E, Lavigne R, Guilleux MH, Evrard B, Pineau C, Primig M.

J Proteomics. 2017 Mar 6;156:5-19. doi: 10.1016/j.jprot.2016.12.016. Epub 2017 Jan 3.


FDR-controlled metabolite annotation for high-resolution imaging mass spectrometry.

Palmer A, Phapale P, Chernyavsky I, Lavigne R, Fay D, Tarasov A, Kovalev V, Fuchser J, Nikolenko S, Pineau C, Becker M, Alexandrov T.

Nat Methods. 2017 Jan;14(1):57-60. doi: 10.1038/nmeth.4072. Epub 2016 Nov 14.


Looking for Missing Proteins in the Proteome of Human Spermatozoa: An Update.

Vandenbrouck Y, Lane L, Carapito C, Duek P, Rondel K, Bruley C, Macron C, Gonzalez de Peredo A, Couté Y, Chaoui K, Com E, Gateau A, Hesse AM, Marcellin M, Méar L, Mouton-Barbosa E, Robin T, Burlet-Schiltz O, Cianferani S, Ferro M, Fréour T, Lindskog C, Garin J, Pineau C.

J Proteome Res. 2016 Nov 4;15(11):3998-4019. Epub 2016 Aug 23.


Quantitative proteome profiling of dystrophic dog skeletal muscle reveals a stabilized muscular architecture and protection against oxidative stress after systemic delivery of MuStem cells.

Lardenois A, Jagot S, Lagarrigue M, Guével B, Ledevin M, Larcher T, Dubreil L, Pineau C, Rouger K, Guével L.

Proteomics. 2016 Jul;16(14):2028-42. doi: 10.1002/pmic.201600002.


Development of the Lupus Interactive Navigator as an Empowering Web-Based eHealth Tool to Facilitate Lupus Management: Users Perspectives on Usability and Acceptability.

Neville C, Da Costa D, Rochon M, Peschken CA, Pineau CA, Bernatsky S, Keeling S, Avina-Zubieta A, Lye E, Eng D, Fortin PR.

JMIR Res Protoc. 2016 May 30;5(2):e44. doi: 10.2196/resprot.4219.


Potential of MALDI imaging for the toxicological evaluation of environmental pollutants.

Lagarrigue M, Caprioli RM, Pineau C.

J Proteomics. 2016 Jul 20;144:133-9. doi: 10.1016/j.jprot.2016.05.008. Epub 2016 May 10. Review.


Brief Report: Causes of Stillbirths in Women With Systemic Lupus Erythematosus.

Vinet É, Genest G, Scott S, Pineau CA, Clarke AE, Platt RW, Bernatsky S.

Arthritis Rheumatol. 2016 Oct;68(10):2487-91. doi: 10.1002/art.39742.


Influence of Education on Disease Activity and Damage in Systemic Lupus Erythematosus: Data From the 1000 Canadian Faces of Lupus.

George A, Wong-Pak A, Peschken CA, Silverman E, Pineau C, Smith CD, Arbillaga H, Zummer M, Bernatsky S, Hudson M, Hitchon C, Fortin PR, Nevskaya T, Pope JE; 1000 Canadian Faces of Lupus Investigators.

Arthritis Care Res (Hoboken). 2017 Jan;69(1):124-132. doi: 10.1002/acr.22922. Epub 2016 Nov 21. Erratum in: Arthritis Care Res (Hoboken). 2017 Mar;69(3):458.


Activation of EGFR by small compounds through coupling the generation of hydrogen peroxide to stable dimerization of Cu/Zn SOD1.

Sakanyan V, Hulin P, Alves de Sousa R, Silva VA, Hambardzumyan A, Nedellec S, Tomasoni C, Logé C, Pineau C, Roussakis C, Fleury F, Artaud I.

Sci Rep. 2016 Feb 17;6:21088. doi: 10.1038/srep21088.


Comparison of the effect of semen from HIV-infected and uninfected men on CD4+ T-cell infection.

Camus C, Matusali G, Bourry O, Mahe D, Aubry F, Bujan L, Pasquier C, Massip P, Ravel C, Zirafi O, Munch J, Roan NR, Pineau C, Dejucq-Rainsford N.

AIDS. 2016 May 15;30(8):1197-208. doi: 10.1097/QAD.0000000000001048.


CanVasc recommendations for the management of antineutrophil cytoplasm antibody (ANCA)-associated vasculitides - Executive summary.

McGeoch L, Twilt M, Famorca L, Bakowsky V, Barra L, Benseler S, Cabral DA, Carette S, Cox GP, Dhindsa N, Dipchand C, Fifi-Mah A, Goulet M, Khalidi N, Khraishi MM, Liang P, Milman N, Pineau CA, Reich H, Samadi N, Shojania K, Taylor-Gjevre R, Towheed TE, Trudeau J, Walsh M, Yacyshyn E, Pagnoux C; Canadian Vasculitis research network (CanVasc).

Can J Kidney Health Dis. 2015 Nov 9;2:43. doi: 10.1186/s40697-015-0078-1. eCollection 2015. Review.


CanVasc Recommendations for the Management of Antineutrophil Cytoplasm Antibody-associated Vasculitides.

McGeoch L, Twilt M, Famorca L, Bakowsky V, Barra L, Benseler SM, Cabral DA, Carette S, Cox GP, Dhindsa N, Dipchand CS, Fifi-Mah A, Goulet M, Khalidi N, Khraishi MM, Liang P, Milman N, Pineau CA, Reich HN, Samadi N, Shojania K, Taylor-Gjevre R, Towheed TE, Trudeau J, Walsh M, Yacyshyn E, Pagnoux C; Canadian Vasculitis Research Network.

J Rheumatol. 2016 Jan;43(1):97-120. doi: 10.3899/jrheum.150376. Epub 2015 Nov 1. Review.


Identification of a New Susceptibility Locus for Systemic Lupus Erythematosus on Chromosome 12 in Individuals of European Ancestry.

Demirci FY, Wang X, Kelly JA, Morris DL, Barmada MM, Feingold E, Kao AH, Sivils KL, Bernatsky S, Pineau C, Clarke AE, Ramsey-Goldman R, Vyse TJ, Gaffney PM, Manzi S, Kamboh MI.

Arthritis Rheumatol. 2016 Jan;68(1):174-83. doi: 10.1002/art.39403.


Increased Risk of Autism Spectrum Disorders in Children Born to Women With Systemic Lupus Erythematosus: Results From a Large Population-Based Cohort.

Vinet É, Pineau CA, Clarke AE, Scott S, Fombonne É, Joseph L, Platt RW, Bernatsky S.

Arthritis Rheumatol. 2015 Dec;67(12):3201-8. doi: 10.1002/art.39320.


Human Spermatozoa as a Model for Detecting Missing Proteins in the Context of the Chromosome-Centric Human Proteome Project.

Jumeau F, Com E, Lane L, Duek P, Lagarrigue M, Lavigne R, Guillot L, Rondel K, Gateau A, Melaine N, Guével B, Sergeant N, Mitchell V, Pineau C.

J Proteome Res. 2015 Sep 4;14(9):3606-20. doi: 10.1021/acs.jproteome.5b00170. Epub 2015 Jul 30.


Using collective expert judgements to evaluate quality measures of mass spectrometry images.

Palmer A, Ovchinnikova E, Thuné M, Lavigne R, Guével B, Dyatlov A, Vitek O, Pineau C, Borén M, Alexandrov T.

Bioinformatics. 2015 Jun 15;31(12):i375-84. doi: 10.1093/bioinformatics/btv266.


Development of Canadian Recommendations for the Management of ANCA-Associated Vasculitides: Results of the National Needs Assessment Questionnaire.

Famorca L, Twilt M, Barra L, Bakowsky V, Benseler S, Cabral D, Carette S, Dhindsa N, Fifi-Mah A, Goulet M, Khalidi N, Khraishi M, McGeoch L, Milman N, Pineau C, Shojania K, Taylor-Gjevre R, Towheed T, Trudeau J, Yacyshyn E, Liang P, Pagnoux C; Canadian Vasculitis network (CanVasc).

Open Rheumatol J. 2015 Apr 14;9:16-20. doi: 10.2174/18743129014090100016. eCollection 2015.


What investigations are needed to optimally monitor for malignancies in SLE?

Tessier-Cloutier B, Clarke AE, Pineau CA, Keeling S, Bissonauth A, Ramsey-Goldman R, Lee J, Bernatsky S.

Lupus. 2015 Jul;24(8):781-7. doi: 10.1177/0961203315575587. Epub 2015 Mar 4. Review.


Humor in systemic lupus erythematosus.

Moura CS, Li R, Lawrie S, Bar-Or A, Clarke AE, Da Costa D, Banerjee D, Bernatsky S, Lee JL, Pineau CA.

Eur J Rheumatol. 2015 Mar;2(1):5-9. Epub 2015 Mar 1.


An investigation of the endocrine-disruptive effects of bisphenol a in human and rat fetal testes.

Ben Maamar M, Lesné L, Desdoits-Lethimonier C, Coiffec I, Lassurguère J, Lavoué V, Deceuninck Y, Antignac JP, Le Bizec B, Perdu E, Zalko D, Pineau C, Chevrier C, Dejucq-Rainsford N, Mazaud-Guittot S, Jégou B.

PLoS One. 2015 Feb 23;10(2):e0117226. doi: 10.1371/journal.pone.0117226. eCollection 2015. Erratum in: PLoS One. 2015;10(5):e0128051.


Integrated RNA- and protein profiling of fermentation and respiration in diploid budding yeast provides insight into nutrient control of cell growth and development.

Becker E, Liu Y, Lardenois A, Walther T, Horecka J, Stuparevic I, Law MJ, Lavigne R, Evrard B, Demougin P, Riffle M, Strich R, Davis RW, Pineau C, Primig M.

J Proteomics. 2015 Apr 24;119:30-44. doi: 10.1016/j.jprot.2015.01.015. Epub 2015 Feb 4.


Rheumatoid arthritis prevalence in Quebec.

Bernatsky S, Dekis A, Hudson M, Pineau CA, Boire G, Fortin PR, Bessette L, Jean S, Chetaille AL, Belisle P, Bergeron L, Feldman DE, Joseph L.

BMC Res Notes. 2014 Dec 19;7:937. doi: 10.1186/1756-0500-7-937.


Increased congenital heart defects in children born to women with systemic lupus erythematosus: results from the offspring of Systemic Lupus Erythematosus Mothers Registry Study.

Vinet É, Pineau CA, Scott S, Clarke AE, Platt RW, Bernatsky S.

Circulation. 2015 Jan 13;131(2):149-56. doi: 10.1161/CIRCULATIONAHA.114.010027. Epub 2014 Oct 29.


Forty-four novel protein-coding loci discovered using a proteomics informed by transcriptomics (PIT) approach in rat male germ cells.

Chocu S, Evrard B, Lavigne R, Rolland AD, Aubry F, Jégou B, Chalmel F, Pineau C.

Biol Reprod. 2014 Nov;91(5):123. doi: 10.1095/biolreprod.114.122416. Epub 2014 Sep 10.


Absence of an association between anti-Ro antibodies and prolonged QTc interval in systemic sclerosis: a multicenter study of 689 patients.

Massie C, Hudson M, Tatibouet S, Steele R, Huynh T, Fritzler MJ, Baron M, Pineau CA; Canadian Scleroderma Research Group (CSRG).

Semin Arthritis Rheum. 2014 Dec;44(3):338-44. doi: 10.1016/j.semarthrit.2014.07.001. Epub 2014 Jul 15.


An integrative omics strategy to assess the germ cell secretome and to decipher sertoli-germ cell crosstalk in the Mammalian testis.

Chalmel F, Com E, Lavigne R, Hernio N, Teixeira-Gomes AP, Dacheux JL, Pineau C.

PLoS One. 2014 Aug 11;9(8):e104418. doi: 10.1371/journal.pone.0104418. eCollection 2014.


Substrate recognition by the bacterial type II secretion system: more than a simple interaction.

Pineau C, Guschinskaya N, Robert X, Gouet P, Ballut L, Shevchik VE.

Mol Microbiol. 2014 Oct;94(1):126-40. doi: 10.1111/mmi.12744. Epub 2014 Aug 31.


Neurodevelopmental disorders in children born to mothers with systemic lupus erythematosus.

Vinet É, Pineau CA, Clarke AE, Fombonne É, Platt RW, Bernatsky S.

Lupus. 2014 Oct;23(11):1099-104. doi: 10.1177/0961203314541691. Epub 2014 Jun 26. Review.


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