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Items: 42

1.

Next Steps for Access to Safe, Secure DNA Synthesis.

Diggans J, Leproust E.

Front Bioeng Biotechnol. 2019 Apr 24;7:86. doi: 10.3389/fbioe.2019.00086. eCollection 2019.

2.

Structure-guided SCHEMA recombination generates diverse chimeric channelrhodopsins.

Bedbrook CN, Rice AJ, Yang KK, Ding X, Chen S, LeProust EM, Gradinaru V, Arnold FH.

Proc Natl Acad Sci U S A. 2017 Mar 28;114(13):E2624-E2633. doi: 10.1073/pnas.1700269114. Epub 2017 Mar 10.

3.

Polycomb repressive complex PRC1 spatially constrains the mouse embryonic stem cell genome.

Schoenfelder S, Sugar R, Dimond A, Javierre BM, Armstrong H, Mifsud B, Dimitrova E, Matheson L, Tavares-Cadete F, Furlan-Magaril M, Segonds-Pichon A, Jurkowski W, Wingett SW, Tabbada K, Andrews S, Herman B, LeProust E, Osborne CS, Koseki H, Fraser P, Luscombe NM, Elderkin S.

Nat Genet. 2015 Oct;47(10):1179-1186. doi: 10.1038/ng.3393. Epub 2015 Aug 31.

4.

Mapping long-range promoter contacts in human cells with high-resolution capture Hi-C.

Mifsud B, Tavares-Cadete F, Young AN, Sugar R, Schoenfelder S, Ferreira L, Wingett SW, Andrews S, Grey W, Ewels PA, Herman B, Happe S, Higgs A, LeProust E, Follows GA, Fraser P, Luscombe NM, Osborne CS.

Nat Genet. 2015 Jun;47(6):598-606. doi: 10.1038/ng.3286. Epub 2015 May 4.

PMID:
25938943
5.

The pluripotent regulatory circuitry connecting promoters to their long-range interacting elements.

Schoenfelder S, Furlan-Magaril M, Mifsud B, Tavares-Cadete F, Sugar R, Javierre BM, Nagano T, Katsman Y, Sakthidevi M, Wingett SW, Dimitrova E, Dimond A, Edelman LB, Elderkin S, Tabbada K, Darbo E, Andrews S, Herman B, Higgs A, LeProust E, Osborne CS, Mitchell JA, Luscombe NM, Fraser P.

Genome Res. 2015 Apr;25(4):582-97. doi: 10.1101/gr.185272.114. Epub 2015 Mar 9.

6.

Utilizing ethnic-specific differences in minor allele frequency to recategorize reported pathogenic deafness variants.

Shearer AE, Eppsteiner RW, Booth KT, Ephraim SS, Gurrola J 2nd, Simpson A, Black-Ziegelbein EA, Joshi S, Ravi H, Giuffre AC, Happe S, Hildebrand MS, Azaiez H, Bayazit YA, Erdal ME, Lopez-Escamez JA, Gazquez I, Tamayo ML, Gelvez NY, Leal GL, Jalas C, Ekstein J, Yang T, Usami S, Kahrizi K, Bazazzadegan N, Najmabadi H, Scheetz TE, Braun TA, Casavant TL, LeProust EM, Smith RJ.

Am J Hum Genet. 2014 Oct 2;95(4):445-53. doi: 10.1016/j.ajhg.2014.09.001. Epub 2014 Sep 25.

7.

Systematic identification of barriers to human iPSC generation.

Qin H, Diaz A, Blouin L, Lebbink RJ, Patena W, Tanbun P, LeProust EM, McManus MT, Song JS, Ramalho-Santos M.

Cell. 2014 Jul 17;158(2):449-461. doi: 10.1016/j.cell.2014.05.040.

8.

A high-coverage shRNA screen identifies TMEM129 as an E3 ligase involved in ER-associated protein degradation.

van de Weijer ML, Bassik MC, Luteijn RD, Voorburg CM, Lohuis MA, Kremmer E, Hoeben RC, LeProust EM, Chen S, Hoelen H, Ressing ME, Patena W, Weissman JS, McManus MT, Wiertz EJ, Lebbink RJ.

Nat Commun. 2014 May 8;5:3832. doi: 10.1038/ncomms4832.

9.

Evidence for the biogenesis of more than 1,000 novel human microRNAs.

Friedländer MR, Lizano E, Houben AJ, Bezdan D, Báñez-Coronel M, Kudla G, Mateu-Huertas E, Kagerbauer B, González J, Chen KC, LeProust EM, Martí E, Estivill X.

Genome Biol. 2014 Apr 7;15(4):R57. doi: 10.1186/gb-2014-15-4-r57.

10.

Exonic transcription factor binding directs codon choice and affects protein evolution.

Stergachis AB, Haugen E, Shafer A, Fu W, Vernot B, Reynolds A, Raubitschek A, Ziegler S, LeProust EM, Akey JM, Stamatoyannopoulos JA.

Science. 2013 Dec 13;342(6164):1367-72. doi: 10.1126/science.1243490.

11.

Advancing genetic testing for deafness with genomic technology.

Shearer AE, Black-Ziegelbein EA, Hildebrand MS, Eppsteiner RW, Ravi H, Joshi S, Guiffre AC, Sloan CM, Happe S, Howard SD, Novak B, Deluca AP, Taylor KR, Scheetz TE, Braun TA, Casavant TL, Kimberling WJ, Leproust EM, Smith RJ.

J Med Genet. 2013 Sep;50(9):627-34. doi: 10.1136/jmedgenet-2013-101749. Epub 2013 Jun 26.

12.

Targeted genome enrichment for efficient purification of endosymbiont DNA from host DNA.

Geniez S, Foster JM, Kumar S, Moumen B, Leproust E, Hardy O, Guadalupe M, Thomas SJ, Boone B, Hendrickson C, Bouchon D, Grève P, Slatko BE.

Symbiosis. 2012 Dec;58(1-3):201-207. Epub 2013 Jan 6.

13.

A systematic mammalian genetic interaction map reveals pathways underlying ricin susceptibility.

Bassik MC, Kampmann M, Lebbink RJ, Wang S, Hein MY, Poser I, Weibezahn J, Horlbeck MA, Chen S, Mann M, Hyman AA, Leproust EM, McManus MT, Weissman JS.

Cell. 2013 Feb 14;152(4):909-22. doi: 10.1016/j.cell.2013.01.030. Epub 2013 Feb 8.

14.

Towards practical, high-capacity, low-maintenance information storage in synthesized DNA.

Goldman N, Bertone P, Chen S, Dessimoz C, LeProust EM, Sipos B, Birney E.

Nature. 2013 Feb 7;494(7435):77-80. doi: 10.1038/nature11875. Epub 2013 Jan 23.

15.

Mitochondrial disease genetic diagnostics: optimized whole-exome analysis for all MitoCarta nuclear genes and the mitochondrial genome.

Falk MJ, Pierce EA, Consugar M, Xie MH, Guadalupe M, Hardy O, Rappaport EF, Wallace DC, LeProust E, Gai X.

Discov Med. 2012 Dec;14(79):389-99.

16.

Pre-capture multiplexing improves efficiency and cost-effectiveness of targeted genomic enrichment.

Shearer AE, Hildebrand MS, Ravi H, Joshi S, Guiffre AC, Novak B, Happe S, LeProust EM, Smith RJ.

BMC Genomics. 2012 Nov 14;13:618. doi: 10.1186/1471-2164-13-618.

17.

Target enrichment strategies for next generation sequencing.

Leproust E.

MLO Med Lab Obs. 2012 Jun;44(6):26-7. No abstract available.

PMID:
22792641
18.

Myofibrillar myopathy caused by a mutation in the motor domain of mouse MyHC IIb.

Kurapati R, McKenna C, Lindqvist J, Williams D, Simon M, LeProust E, Baker J, Cheeseman M, Carroll N, Denny P, Laval S, Lochmüller H, Ochala J, Blanco G.

Hum Mol Genet. 2012 Apr 15;21(8):1706-24. doi: 10.1093/hmg/ddr605. Epub 2011 Dec 23.

PMID:
22199023
19.

Specific capture and whole-genome sequencing of viruses from clinical samples.

Depledge DP, Palser AL, Watson SJ, Lai IY, Gray ER, Grant P, Kanda RK, Leproust E, Kellam P, Breuer J.

PLoS One. 2011;6(11):e27805. doi: 10.1371/journal.pone.0027805. Epub 2011 Nov 18. Erratum in: PLoS One. 2012;7(1). doi:10.1371/annotation/3f1444bc-ab9d-4112-958a-2e068792f26f.

20.

Autoantigen discovery with a synthetic human peptidome.

Larman HB, Zhao Z, Laserson U, Li MZ, Ciccia A, Gakidis MA, Church GM, Kesari S, Leproust EM, Solimini NL, Elledge SJ.

Nat Biotechnol. 2011 May 22;29(6):535-41. doi: 10.1038/nbt.1856.

21.

Efficient and cost effective population resequencing by pooling and in-solution hybridization.

Bansal V, Tewhey R, Leproust EM, Schork NJ.

PLoS One. 2011 Mar 30;6(3):e18353. doi: 10.1371/journal.pone.0018353.

22.

The GENCODE exome: sequencing the complete human exome.

Coffey AJ, Kokocinski F, Calafato MS, Scott CE, Palta P, Drury E, Joyce CJ, Leproust EM, Harrow J, Hunt S, Lehesjoki AE, Turner DJ, Hubbard TJ, Palotie A.

Eur J Hum Genet. 2011 Jul;19(7):827-31. doi: 10.1038/ejhg.2011.28. Epub 2011 Mar 2.

23.

Scalable gene synthesis by selective amplification of DNA pools from high-fidelity microchips.

Kosuri S, Eroshenko N, Leproust EM, Super M, Way J, Li JB, Church GM.

Nat Biotechnol. 2010 Dec;28(12):1295-9. doi: 10.1038/nbt.1716. Epub 2010 Nov 28.

24.

Temporal and spatial profile of brain diffusion-weighted MRI after cardiac arrest.

Mlynash M, Campbell DM, Leproust EM, Fischbein NJ, Bammer R, Eyngorn I, Hsia AW, Moseley M, Wijman CA.

Stroke. 2010 Aug;41(8):1665-72. doi: 10.1161/STROKEAHA.110.582452. Epub 2010 Jul 1.

25.

Synthesis of high-quality libraries of long (150mer) oligonucleotides by a novel depurination controlled process.

LeProust EM, Peck BJ, Spirin K, McCuen HB, Moore B, Namsaraev E, Caruthers MH.

Nucleic Acids Res. 2010 May;38(8):2522-40. doi: 10.1093/nar/gkq163. Epub 2010 Mar 22.

26.

Enrichment of sequencing targets from the human genome by solution hybridization.

Tewhey R, Nakano M, Wang X, Pabón-Peña C, Novak B, Giuffre A, Lin E, Happe S, Roberts DN, LeProust EM, Topol EJ, Harismendy O, Frazer KA.

Genome Biol. 2009;10(10):R116. doi: 10.1186/gb-2009-10-10-r116. Epub 2009 Oct 16.

27.

Digital RNA allelotyping reveals tissue-specific and allele-specific gene expression in human.

Zhang K, Li JB, Gao Y, Egli D, Xie B, Deng J, Li Z, Lee JH, Aach J, Leproust EM, Eggan K, Church GM.

Nat Methods. 2009 Aug;6(8):613-8. doi: 10.1038/nmeth.1357. Epub 2009 Jul 20.

28.

Multiplex padlock targeted sequencing reveals human hypermutable CpG variations.

Li JB, Gao Y, Aach J, Zhang K, Kryukov GV, Xie B, Ahlford A, Yoon JK, Rosenbaum AM, Zaranek AW, LeProust E, Sunyaev SR, Church GM.

Genome Res. 2009 Sep;19(9):1606-15. doi: 10.1101/gr.092213.109. Epub 2009 Jun 12.

29.

Genome-wide identification of human RNA editing sites by parallel DNA capturing and sequencing.

Li JB, Levanon EY, Yoon JK, Aach J, Xie B, Leproust E, Zhang K, Gao Y, Church GM.

Science. 2009 May 29;324(5931):1210-3. doi: 10.1126/science.1170995.

30.

Rapid creation and quantitative monitoring of high coverage shRNA libraries.

Bassik MC, Lebbink RJ, Churchman LS, Ingolia NT, Patena W, LeProust EM, Schuldiner M, Weissman JS, McManus MT.

Nat Methods. 2009 Jun;6(6):443-5. doi: 10.1038/nmeth.1330. Epub 2009 May 17.

31.

Targeted bisulfite sequencing reveals changes in DNA methylation associated with nuclear reprogramming.

Deng J, Shoemaker R, Xie B, Gore A, LeProust EM, Antosiewicz-Bourget J, Egli D, Maherali N, Park IH, Yu J, Daley GQ, Eggan K, Hochedlinger K, Thomson J, Wang W, Gao Y, Zhang K.

Nat Biotechnol. 2009 Apr;27(4):353-60. doi: 10.1038/nbt.1530. Epub 2009 Mar 29.

32.

Targeted and genome-scale strategies reveal gene-body methylation signatures in human cells.

Ball MP, Li JB, Gao Y, Lee JH, LeProust EM, Park IH, Xie B, Daley GQ, Church GM.

Nat Biotechnol. 2009 Apr;27(4):361-8. doi: 10.1038/nbt.1533. Epub 2009 Mar 29. Erratum in: Nat Biotechnol. 2009 May;27(5):485.

33.

Solution hybrid selection with ultra-long oligonucleotides for massively parallel targeted sequencing.

Gnirke A, Melnikov A, Maguire J, Rogov P, LeProust EM, Brockman W, Fennell T, Giannoukos G, Fisher S, Russ C, Gabriel S, Jaffe DB, Lander ES, Nusbaum C.

Nat Biotechnol. 2009 Feb;27(2):182-9. doi: 10.1038/nbt.1523. Epub 2009 Feb 1.

34.

The DNA-encoded nucleosome organization of a eukaryotic genome.

Kaplan N, Moore IK, Fondufe-Mittendorf Y, Gossett AJ, Tillo D, Field Y, LeProust EM, Hughes TR, Lieb JD, Widom J, Segal E.

Nature. 2009 Mar 19;458(7236):362-6. doi: 10.1038/nature07667. Epub 2008 Dec 17.

35.

Multiplex amplification of large sets of human exons.

Porreca GJ, Zhang K, Li JB, Xie B, Austin D, Vassallo SL, LeProust EM, Peck BJ, Emig CJ, Dahl F, Gao Y, Church GM, Shendure J.

Nat Methods. 2007 Nov;4(11):931-6. Epub 2007 Oct 14.

PMID:
17934468
36.

Production of complex nucleic acid libraries using highly parallel in situ oligonucleotide synthesis.

Cleary MA, Kilian K, Wang Y, Bradshaw J, Cavet G, Ge W, Kulkarni A, Paddison PJ, Chang K, Sheth N, Leproust E, Coffey EM, Burchard J, McCombie WR, Linsley P, Hannon GJ.

Nat Methods. 2004 Dec;1(3):241-8. Epub 2004 Nov 18.

PMID:
15782200
37.

Effects of atmospheric ozone on microarray data quality.

Fare TL, Coffey EM, Dai H, He YD, Kessler DA, Kilian KA, Koch JE, LeProust E, Marton MJ, Meyer MR, Stoughton RB, Tokiwa GY, Wang Y.

Anal Chem. 2003 Sep 1;75(17):4672-5.

PMID:
14632079
38.

A flexible light-directed DNA chip synthesis gated by deprotection using solution photogenerated acids.

Gao X, LeProust E, Zhang H, Srivannavit O, Gulari E, Yu P, Nishiguchi C, Xiang Q, Zhou X.

Nucleic Acids Res. 2001 Nov 15;29(22):4744-50.

39.

Characterization of oligodeoxyribonucleotide synthesis on glass plates.

LeProust E, Zhang H, Yu P, Zhou X, Gao X.

Nucleic Acids Res. 2001 May 15;29(10):2171-80.

40.

Unexpected formation of parallel duplex in GAA and TTC trinucleotide repeats of Friedreich's ataxia.

LeProust EM, Pearson CE, Sinden RR, Gao X.

J Mol Biol. 2000 Oct 6;302(5):1063-80. Erratum in: J Mol Biol 2001 Jan 9;306(1):133. Pearso, CE [corrected to Pearson, CE].

PMID:
11183775
41.

Digital light-directed synthesis. A microarray platform that permits rapid reaction optimization on a combinatorial basis.

LeProust E, Pellois JP, Yu P, Zhang H, Gao X, Srivannavit O, Gulari E, Zhou X.

J Comb Chem. 2000 Jul-Aug;2(4):349-54.

PMID:
10891102
42.

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