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Results: 1 to 20 of 125

1.

Assembly and diploid architecture of an individual human genome via single-molecule technologies.

Pendleton M, Sebra R, Pang AW, Ummat A, Franzen O, Rausch T, Stütz AM, Stedman W, Anantharaman T, Hastie A, Dai H, Fritz MH, Cao H, Cohain A, Deikus G, Durrett RE, Blanchard SC, Altman R, Chin CS, Guo Y, Paxinos EE, Korbel JO, Darnell RB, McCombie WR, Kwok PY, Mason CE, Schadt EE, Bashir A.

Nat Methods. 2015 Aug;12(8):780-786. doi: 10.1038/nmeth.3454. Epub 2015 Jun 29.

PMID:
26121404
2.

The histone methyltransferase SDG8 mediates the epigenetic modification of light and carbon responsive genes in plants.

Li Y, Mukherjee I, Thum KE, Tanurdzic M, Katari MS, Obertello M, Edwards MB, McCombie WR, Martienssen RA, Coruzzi GM.

Genome Biol. 2015 Apr 19;16:79. doi: 10.1186/s13059-015-0640-2.

3.

A trimming-and-retrieving alignment scheme for reduced representation bisulfite sequencing.

Wang X, Yu X, Zhu W, McCombie WR, Antoniou E, Powers RS, Davidson NO, Li E, Williams J.

Bioinformatics. 2015 Jun 15;31(12):2040-2. doi: 10.1093/bioinformatics/btv089. Epub 2015 Feb 13.

PMID:
25681254
4.

Whole genome de novo assemblies of three divergent strains of rice, Oryza sativa, document novel gene space of aus and indica.

Schatz MC, Maron LG, Stein JC, Hernandez Wences A, Gurtowski J, Biggers E, Lee H, Kramer M, Antoniou E, Ghiban E, Wright MH, Chia JM, Ware D, McCouch SR, McCombie WR.

Genome Biol. 2014;15(11):506.

5.

The contribution of de novo coding mutations to autism spectrum disorder.

Iossifov I, O'Roak BJ, Sanders SJ, Ronemus M, Krumm N, Levy D, Stessman HA, Witherspoon KT, Vives L, Patterson KE, Smith JD, Paeper B, Nickerson DA, Dea J, Dong S, Gonzalez LE, Mandell JD, Mane SM, Murtha MT, Sullivan CA, Walker MF, Waqar Z, Wei L, Willsey AJ, Yamrom B, Lee YH, Grabowska E, Dalkic E, Wang Z, Marks S, Andrews P, Leotta A, Kendall J, Hakker I, Rosenbaum J, Ma B, Rodgers L, Troge J, Narzisi G, Yoon S, Schatz MC, Ye K, McCombie WR, Shendure J, Eichler EE, State MW, Wigler M.

Nature. 2014 Nov 13;515(7526):216-21. doi: 10.1038/nature13908. Epub 2014 Oct 29.

6.

Validation and assessment of variant calling pipelines for next-generation sequencing.

Pirooznia M, Kramer M, Parla J, Goes FS, Potash JB, McCombie WR, Zandi PP.

Hum Genomics. 2014 Jul 30;8:14. doi: 10.1186/1479-7364-8-14.

7.

Two waves of de novo methylation during mouse germ cell development.

Molaro A, Falciatori I, Hodges E, Aravin AA, Marran K, Rafii S, McCombie WR, Smith AD, Hannon GJ.

Genes Dev. 2014 Jul 15;28(14):1544-9. doi: 10.1101/gad.244350.114.

8.

Hit-and-run transcriptional control by bZIP1 mediates rapid nutrient signaling in Arabidopsis.

Para A, Li Y, Marshall-Colón A, Varala K, Francoeur NJ, Moran TM, Edwards MB, Hackley C, Bargmann BO, Birnbaum KD, McCombie WR, Krouk G, Coruzzi GM.

Proc Natl Acad Sci U S A. 2014 Jul 15;111(28):10371-6. doi: 10.1073/pnas.1404657111. Epub 2014 Jun 23.

9.

De novo mutations in schizophrenia implicate chromatin remodeling and support a genetic overlap with autism and intellectual disability.

McCarthy SE, Gillis J, Kramer M, Lihm J, Yoon S, Berstein Y, Mistry M, Pavlidis P, Solomon R, Ghiban E, Antoniou E, Kelleher E, O'Brien C, Donohoe G, Gill M, Morris DW, McCombie WR, Corvin A.

Mol Psychiatry. 2014 Jun;19(6):652-8. doi: 10.1038/mp.2014.29. Epub 2014 Apr 29.

10.

Sugarcane genome sequencing by methylation filtration provides tools for genomic research in the genus Saccharum.

Grativol C, Regulski M, Bertalan M, McCombie WR, da Silva FR, Zerlotini Neto A, Vicentini R, Farinelli L, Hemerly AS, Martienssen RA, Ferreira PC.

Plant J. 2014 Jul;79(1):162-72. doi: 10.1111/tpj.12539. Epub 2014 Jun 17.

11.

Unlocking the treasure trove: from genes to schizophrenia biology.

McCarthy SE, McCombie WR, Corvin A.

Schizophr Bull. 2014 May;40(3):492-6. doi: 10.1093/schbul/sbu042. Epub 2014 Mar 27. Review.

12.

DISC1 as a genetic risk factor for schizophrenia and related major mental illness: response to Sullivan.

Porteous DJ, Thomson PA, Millar JK, Evans KL, Hennah W, Soares DC, McCarthy S, McCombie WR, Clapcote SJ, Korth C, Brandon NJ, Sawa A, Kamiya A, Roder JC, Lawrie SM, McIntosh AM, St Clair D, Blackwood DH.

Mol Psychiatry. 2014 Feb;19(2):141-3. doi: 10.1038/mp.2013.160. No abstract available.

13.

FamAnn: an automated variant annotation pipeline to facilitate target discovery for family-based sequencing studies.

Yao J, Zhang KX, Kramer M, Pellegrini M, McCombie WR.

Bioinformatics. 2014 Jan 13. [Epub ahead of print]

PMID:
24395755
14.

Improvement of the Oryza sativa Nipponbare reference genome using next generation sequence and optical map data.

Kawahara Y, de la Bastide M, Hamilton JP, Kanamori H, McCombie WR, Ouyang S, Schwartz DC, Tanaka T, Wu J, Zhou S, Childs KL, Davidson RM, Lin H, Quesada-Ocampo L, Vaillancourt B, Sakai H, Lee SS, Kim J, Numa H, Itoh T, Buell CR, Matsumoto T.

Rice (N Y). 2013 Feb 6;6(1):4. doi: 10.1186/1939-8433-6-4.

PMID:
24280374
15.

Integrated RNA-seq and sRNA-seq analysis identifies novel nitrate-responsive genes in Arabidopsis thaliana roots.

Vidal EA, Moyano TC, Krouk G, Katari MS, Tanurdzic M, McCombie WR, Coruzzi GM, Gutiérrez RA.

BMC Genomics. 2013 Oct 11;14:701. doi: 10.1186/1471-2164-14-701.

16.

Parallel comparison of Illumina RNA-Seq and Affymetrix microarray platforms on transcriptomic profiles generated from 5-aza-deoxy-cytidine treated HT-29 colon cancer cells and simulated datasets.

Xu X, Zhang Y, Williams J, Antoniou E, McCombie WR, Wu S, Zhu W, Davidson NO, Denoya P, Li E.

BMC Bioinformatics. 2013;14 Suppl 9:S1. doi: 10.1186/1471-2105-14-S9-S1. Epub 2013 Jun 28.

17.

The effects of carbon dioxide and temperature on microRNA expression in Arabidopsis development.

May P, Liao W, Wu Y, Shuai B, McCombie WR, Zhang MQ, Liu QA.

Nat Commun. 2013;4:2145. doi: 10.1038/ncomms3145.

PMID:
23900278
18.

Translating next generation sequencing to practice: opportunities and necessary steps.

Kamalakaran S, Varadan V, Janevski A, Banerjee N, Tuck D, McCombie WR, Dimitrova N, Harris LN.

Mol Oncol. 2013 Aug;7(4):743-55. doi: 10.1016/j.molonc.2013.04.008. Epub 2013 May 15. Review.

19.

The maize methylome influences mRNA splice sites and reveals widespread paramutation-like switches guided by small RNA.

Regulski M, Lu Z, Kendall J, Donoghue MT, Reinders J, Llaca V, Deschamps S, Smith A, Levy D, McCombie WR, Tingey S, Rafalski A, Hicks J, Ware D, Martienssen RA.

Genome Res. 2013 Oct;23(10):1651-62. doi: 10.1101/gr.153510.112. Epub 2013 Jun 5.

20.

708 Common and 2010 rare DISC1 locus variants identified in 1542 subjects: analysis for association with psychiatric disorder and cognitive traits.

Thomson PA, Parla JS, McRae AF, Kramer M, Ramakrishnan K, Yao J, Soares DC, McCarthy S, Morris SW, Cardone L, Cass S, Ghiban E, Hennah W, Evans KL, Rebolini D, Millar JK, Harris SE, Starr JM, MacIntyre DJ; Generation Scotland, McIntosh AM, Watson JD, Deary IJ, Visscher PM, Blackwood DH, McCombie WR, Porteous DJ.

Mol Psychiatry. 2014 Jun;19(6):668-75. doi: 10.1038/mp.2013.68. Epub 2013 Jun 4.

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