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Items: 27

1.

Role of Epigenomics in Bone and Cartilage Disease.

van Meurs JB, Boer CG, Lopez-Delgado L, Riancho JA.

J Bone Miner Res. 2019 Feb;34(2):215-230. doi: 10.1002/jbmr.3662. Epub 2019 Feb 4. Review.

PMID:
30715766
2.

Defining T Cell States Associated with Response to Checkpoint Immunotherapy in Melanoma.

Sade-Feldman M, Yizhak K, Bjorgaard SL, Ray JP, de Boer CG, Jenkins RW, Lieb DJ, Chen JH, Frederick DT, Barzily-Rokni M, Freeman SS, Reuben A, Hoover PJ, Villani AC, Ivanova E, Portell A, Lizotte PH, Aref AR, Eliane JP, Hammond MR, Vitzthum H, Blackmon SM, Li B, Gopalakrishnan V, Reddy SM, Cooper ZA, Paweletz CP, Barbie DA, Stemmer-Rachamimov A, Flaherty KT, Wargo JA, Boland GM, Sullivan RJ, Getz G, Hacohen N.

Cell. 2019 Jan 10;176(1-2):404. doi: 10.1016/j.cell.2018.12.034. No abstract available.

PMID:
30633907
3.

Heterogeneous Responses of Hematopoietic Stem Cells to Inflammatory Stimuli Are Altered with Age.

Mann M, Mehta A, de Boer CG, Kowalczyk MS, Lee K, Haldeman P, Rogel N, Knecht AR, Farouq D, Regev A, Baltimore D.

Cell Rep. 2018 Dec 11;25(11):2992-3005.e5. doi: 10.1016/j.celrep.2018.11.056.

4.

Defining T Cell States Associated with Response to Checkpoint Immunotherapy in Melanoma.

Sade-Feldman M, Yizhak K, Bjorgaard SL, Ray JP, de Boer CG, Jenkins RW, Lieb DJ, Chen JH, Frederick DT, Barzily-Rokni M, Freeman SS, Reuben A, Hoover PJ, Villani AC, Ivanova E, Portell A, Lizotte PH, Aref AR, Eliane JP, Hammond MR, Vitzthum H, Blackmon SM, Li B, Gopalakrishnan V, Reddy SM, Cooper ZA, Paweletz CP, Barbie DA, Stemmer-Rachamimov A, Flaherty KT, Wargo JA, Boland GM, Sullivan RJ, Getz G, Hacohen N.

Cell. 2018 Nov 1;175(4):998-1013.e20. doi: 10.1016/j.cell.2018.10.038. Erratum in: Cell. 2019 Jan 10;176(1-2):404.

PMID:
30388456
5.

Genome-wide meta-analysis of 158,000 individuals of European ancestry identifies three loci associated with chronic back pain.

Suri P, Palmer MR, Tsepilov YA, Freidin MB, Boer CG, Yau MS, Evans DS, Gelemanovic A, Bartz TM, Nethander M, Arbeeva L, Karssen L, Neogi T, Campbell A, Mellstrom D, Ohlsson C, Marshall LM, Orwoll E, Uitterlinden A, Rotter JI, Lauc G, Psaty BM, Karlsson MK, Lane NE, Jarvik GP, Polasek O, Hochberg M, Jordan JM, Van Meurs JBJ, Jackson R, Nielson CM, Mitchell BD, Smith BH, Hayward C, Smith NL, Aulchenko YS, Williams FMK.

PLoS Genet. 2018 Sep 27;14(9):e1007601. doi: 10.1371/journal.pgen.1007601. eCollection 2018 Sep.

6.

Association between Human Papillomavirus and Non-cervical Genital Cancers in Brazil: A Systematic Review and Meta-Analysis

Peder LD, Silva CM, Boeira VL, Plewka J, Turkiewicz M, Consolaro MEL, Sela VR, Boer CG, Gimenes F, Teixeira JJV.

Asian Pac J Cancer Prev. 2018 Sep 26;19(9):2359-2371. Review.

7.

BROCKMAN: deciphering variance in epigenomic regulators by k-mer factorization.

de Boer CG, Regev A.

BMC Bioinformatics. 2018 Jul 3;19(1):253. doi: 10.1186/s12859-018-2255-6.

8.

Genome-wide association study identifies nine novel loci for 2D:4D finger ratio, a putative retrospective biomarker of testosterone exposure in utero.

Warrington NM, Shevroja E, Hemani G, Hysi PG, Jiang Y, Auton A, Boer CG, Mangino M, Wang CA, Kemp JP, McMahon G, Medina-Gomez C, Hickey M, Trajanoska K, Wolke D, Ikram MA; 23andMe Research Team, Montgomery GW, Felix JF, Wright MJ, Mackey DA, Jaddoe VW, Martin NG, Tung JY, Davey Smith G, Pennell CE, Spector TD, van Meurs J, Rivadeneira F, Medland SE, Evans DM.

Hum Mol Genet. 2018 Jun 1;27(11):2025-2038. doi: 10.1093/hmg/ddy121.

9.

Genome-wide analyses using UK Biobank data provide insights into the genetic architecture of osteoarthritis.

Zengini E, Hatzikotoulas K, Tachmazidou I, Steinberg J, Hartwig FP, Southam L, Hackinger S, Boer CG, Styrkarsdottir U, Gilly A, Suveges D, Killian B, Ingvarsson T, Jonsson H, Babis GC, McCaskie A, Uitterlinden AG, van Meurs JBJ, Thorsteinsdottir U, Stefansson K, Davey Smith G, Wilkinson JM, Zeggini E.

Nat Genet. 2018 Apr;50(4):549-558. doi: 10.1038/s41588-018-0079-y. Epub 2018 Mar 20.

10.

A systematic analysis highlights multiple long non-coding RNAs associated with cardiometabolic disorders.

Ghanbari M, Peters MJ, de Vries PS, Boer CG, van Rooij JGJ, Lee YC, Kumar V, Uitterlinden AG, Ikram MA, Wijmenga C, Ordovas JM, Smith CE, van Meurs JBJ, Erkeland SJ, Franco OH, Dehghan A.

J Hum Genet. 2018 Apr;63(4):431-446. doi: 10.1038/s10038-017-0403-x. Epub 2018 Jan 30.

11.

Development of a prediction model for future risk of radiographic hip osteoarthritis.

Saberi Hosnijeh F, Kavousi M, Boer CG, Uitterlinden AG, Hofman A, Reijman M, Oei EHG, Bierma-Zeinstra SM, van Meurs JBJ.

Osteoarthritis Cartilage. 2018 Apr;26(4):540-546. doi: 10.1016/j.joca.2018.01.015. Epub 2018 Jan 31.

PMID:
29382605
12.

Life-Course Genome-wide Association Study Meta-analysis of Total Body BMD and Assessment of Age-Specific Effects.

Medina-Gomez C, Kemp JP, Trajanoska K, Luan J, Chesi A, Ahluwalia TS, Mook-Kanamori DO, Ham A, Hartwig FP, Evans DS, Joro R, Nedeljkovic I, Zheng HF, Zhu K, Atalay M, Liu CT, Nethander M, Broer L, Porleifsson G, Mullin BH, Handelman SK, Nalls MA, Jessen LE, Heppe DHM, Richards JB, Wang C, Chawes B, Schraut KE, Amin N, Wareham N, Karasik D, Van der Velde N, Ikram MA, Zemel BS, Zhou Y, Carlsson CJ, Liu Y, McGuigan FE, Boer CG, Bønnelykke K, Ralston SH, Robbins JA, Walsh JP, Zillikens MC, Langenberg C, Li-Gao R, Williams FMK, Harris TB, Akesson K, Jackson RD, Sigurdsson G, den Heijer M, van der Eerden BCJ, van de Peppel J, Spector TD, Pennell C, Horta BL, Felix JF, Zhao JH, Wilson SG, de Mutsert R, Bisgaard H, Styrkársdóttir U, Jaddoe VW, Orwoll E, Lakka TA, Scott R, Grant SFA, Lorentzon M, van Duijn CM, Wilson JF, Stefansson K, Psaty BM, Kiel DP, Ohlsson C, Ntzani E, van Wijnen AJ, Forgetta V, Ghanbari M, Logan JG, Williams GR, Bassett JHD, Croucher PI, Evangelou E, Uitterlinden AG, Ackert-Bicknell CL, Tobias JH, Evans DM, Rivadeneira F.

Am J Hum Genet. 2018 Jan 4;102(1):88-102. doi: 10.1016/j.ajhg.2017.12.005.

13.

Genome-wide association and functional studies identify a role for matrix Gla protein in osteoarthritis of the hand.

den Hollander W, Boer CG, Hart DJ, Yau MS, Ramos YFM, Metrustry S, Broer L, Deelen J, Cupples LA, Rivadeneira F, Kloppenburg M, Peters M, Spector TD, Hofman A, Slagboom PE, Nelissen RGHH, Uitterlinden AG, Felson DT, Valdes AM, Meulenbelt I, van Meurs JJB.

Ann Rheum Dis. 2017 Dec;76(12):2046-2053. doi: 10.1136/annrheumdis-2017-211214. Epub 2017 Aug 30.

14.

Bivariate genome-wide association meta-analysis of pediatric musculoskeletal traits reveals pleiotropic effects at the SREBF1/TOM1L2 locus.

Medina-Gomez C, Kemp JP, Dimou NL, Kreiner E, Chesi A, Zemel BS, Bønnelykke K, Boer CG, Ahluwalia TS, Bisgaard H, Evangelou E, Heppe DHM, Bonewald LF, Gorski JP, Ghanbari M, Demissie S, Duque G, Maurano MT, Kiel DP, Hsu YH, C J van der Eerden B, Ackert-Bicknell C, Reppe S, Gautvik KM, Raastad T, Karasik D, van de Peppel J, Jaddoe VWV, Uitterlinden AG, Tobias JH, Grant SFA, Bagos PG, Evans DM, Rivadeneira F.

Nat Commun. 2017 Jul 25;8(1):121. doi: 10.1038/s41467-017-00108-3.

15.

Measles virus infection of human keratinocytes: Possible link between measles and atopic dermatitis.

Gourru-Lesimple G, Mathieu C, Thevenet T, Guillaume-Vasselin V, Jégou JF, Boer CG, Tomczak K, Bloyet LM, Giraud C, Grande S, Goujon C, Cornu C, Horvat B.

J Dermatol Sci. 2017 May;86(2):97-105. doi: 10.1016/j.jdermsci.2017.01.015. Epub 2017 Feb 10.

PMID:
28233587
16.

A DNA methylation biomarker of alcohol consumption.

Liu C, Marioni RE, Hedman ÅK, Pfeiffer L, Tsai PC, Reynolds LM, Just AC, Duan Q, Boer CG, Tanaka T, Elks CE, Aslibekyan S, Brody JA, Kühnel B, Herder C, Almli LM, Zhi D, Wang Y, Huan T, Yao C, Mendelson MM, Joehanes R, Liang L, Love SA, Guan W, Shah S, McRae AF, Kretschmer A, Prokisch H, Strauch K, Peters A, Visscher PM, Wray NR, Guo X, Wiggins KL, Smith AK, Binder EB, Ressler KJ, Irvin MR, Absher DM, Hernandez D, Ferrucci L, Bandinelli S, Lohman K, Ding J, Trevisi L, Gustafsson S, Sandling JH, Stolk L, Uitterlinden AG, Yet I, Castillo-Fernandez JE, Spector TD, Schwartz JD, Vokonas P, Lind L, Li Y, Fornage M, Arnett DK, Wareham NJ, Sotoodehnia N, Ong KK, van Meurs JBJ, Conneely KN, Baccarelli AA, Deary IJ, Bell JT, North KE, Liu Y, Waldenberger M, London SJ, Ingelsson E, Levy D.

Mol Psychiatry. 2018 Feb;23(2):422-433. doi: 10.1038/mp.2016.192. Epub 2016 Nov 15.

17.

Novel Genetic Variants for Cartilage Thickness and Hip Osteoarthritis.

Castaño-Betancourt MC, Evans DS, Ramos YF, Boer CG, Metrustry S, Liu Y, den Hollander W, van Rooij J, Kraus VB, Yau MS, Mitchell BD, Muir K, Hofman A, Doherty M, Doherty S, Zhang W, Kraaij R, Rivadeneira F, Barrett-Connor E, Maciewicz RA, Arden N, Nelissen RG, Kloppenburg M, Jordan JM, Nevitt MC, Slagboom EP, Hart DJ, Lafeber F, Styrkarsdottir U, Zeggini E, Evangelou E, Spector TD, Uitterlinden AG, Lane NE, Meulenbelt I, Valdes AM, van Meurs JB.

PLoS Genet. 2016 Oct 4;12(10):e1006260. doi: 10.1371/journal.pgen.1006260. eCollection 2016 Oct.

18.

Core Circadian Clock Genes Regulate Leukemia Stem Cells in AML.

Puram RV, Kowalczyk MS, de Boer CG, Schneider RK, Miller PG, McConkey M, Tothova Z, Tejero H, Heckl D, Järås M, Chen MC, Li H, Tamayo A, Cowley GS, Rozenblatt-Rosen O, Al-Shahrour F, Regev A, Ebert BL.

Cell. 2016 Apr 7;165(2):303-16. doi: 10.1016/j.cell.2016.03.015.

19.

Natural variation in non-coding regions underlying phenotypic diversity in budding yeast.

Salinas F, de Boer CG, Abarca V, García V, Cuevas M, Araos S, Larrondo LF, Martínez C, Cubillos FA.

Sci Rep. 2016 Feb 22;6:21849. doi: 10.1038/srep21849.

20.

Human leukocyte antigen (HLA)-G and cervical cancer immunoediting: a candidate molecule for therapeutic intervention and prognostic biomarker?

Gimenes F, Teixeira JJ, de Abreu AL, Souza RP, Pereira MW, da Silva VR, Bôer CG, Maria-Engler SS, Bonini MG, Borelli SD, Consolaro ME.

Biochim Biophys Acta. 2014 Dec;1846(2):576-89. doi: 10.1016/j.bbcan.2014.10.004. Epub 2014 Oct 23. Review.

PMID:
25453366
21.

Poly-dA:dT tracts form an in vivo nucleosomal turnstile.

de Boer CG, Hughes TR.

PLoS One. 2014 Oct 29;9(10):e110479. doi: 10.1371/journal.pone.0110479. eCollection 2014.

22.

A unified model for yeast transcript definition.

de Boer CG, van Bakel H, Tsui K, Li J, Morris QD, Nislow C, Greenblatt JF, Hughes TR.

Genome Res. 2014 Jan;24(1):154-66. doi: 10.1101/gr.164327.113. Epub 2013 Oct 29.

23.

Mapping yeast transcriptional networks.

Hughes TR, de Boer CG.

Genetics. 2013 Sep;195(1):9-36. doi: 10.1534/genetics.113.153262. Review.

24.

Evaluation of the efficacy of flaxseed meal and flaxseed extract in reducing menopausal symptoms.

Colli MC, Bracht A, Soares AA, de Oliveira AL, Bôer CG, de Souza CG, Peralta RM.

J Med Food. 2012 Sep;15(9):840-5. doi: 10.1089/jmf.2011.0228.

PMID:
22925074
25.

YeTFaSCo: a database of evaluated yeast transcription factor sequence specificities.

de Boer CG, Hughes TR.

Nucleic Acids Res. 2012 Jan;40(Database issue):D169-79. doi: 10.1093/nar/gkr993. Epub 2011 Nov 18.

26.

Purification and characterization of an efficient poultry feather degrading-protease from Myrothecium verrucaria.

Moreira-Gasparin FG, de Souza CG, Costa AM, Alexandrino AM, Bracht CK, Boer CG, Peralta RM.

Biodegradation. 2009 Sep;20(5):727-36. doi: 10.1007/s10532-009-9260-4. Epub 2009 Apr 18.

PMID:
19381452
27.

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