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Items: 1 to 50 of 204

1.

A simple dialysis device for large DNA molecules.

Krerowicz SJ, Hernandez-Ortiz JP, Schwartz DC.

Biotechniques. 2019 Feb;66(2):93-95. doi: 10.2144/btn-2018-0133.

2.

Microscale Objects via Restructuring of Large, Double-Stranded DNA Molecules.

Krerowicz SJW, Hernandez-Ortiz JP, Schwartz DC.

ACS Appl Mater Interfaces. 2018 Nov 19. doi: 10.1021/acsami.8b18157. [Epub ahead of print]

PMID:
30403478
3.

Discrete and Continuum Models for the Salt in Crowded Environments of Suspended Charged Particles.

Molina JE, Vasquez-Echeverri A, Schwartz DC, Hernández-Ortiz JP.

J Chem Theory Comput. 2018 Sep 11;14(9):4901-4913. doi: 10.1021/acs.jctc.8b00221. Epub 2018 Aug 15.

PMID:
30044624
4.

Methamphetamine augment HIV-1 Tat mediated memory deficits by altering the expression of synaptic proteins and neurotrophic factors.

Nookala AR, Schwartz DC, Chaudhari NS, Glazyrin A, Stephens EB, Berman NEJ, Kumar A.

Brain Behav Immun. 2018 Jul;71:37-51. doi: 10.1016/j.bbi.2018.04.018. Epub 2018 May 2.

PMID:
29729322
5.

Electrostatic confinement and manipulation of DNA molecules for genome analysis.

Kounovsky-Shafer KL, Hernandez-Ortiz JP, Potamousis K, Tsvid G, Place M, Ravindran P, Jo K, Zhou S, Odijk T, de Pablo JJ, Schwartz DC.

Proc Natl Acad Sci U S A. 2017 Dec 19;114(51):13400-13405. doi: 10.1073/pnas.1711069114. Epub 2017 Dec 4.

6.

In silico evidence for sequence-dependent nucleosome sliding.

Lequieu J, Schwartz DC, de Pablo JJ.

Proc Natl Acad Sci U S A. 2017 Oct 31;114(44):E9197-E9205. doi: 10.1073/pnas.1705685114. Epub 2017 Oct 18.

7.

Gapless genome assembly of Colletotrichum higginsianum reveals chromosome structure and association of transposable elements with secondary metabolite gene clusters.

Dallery JF, Lapalu N, Zampounis A, Pigné S, Luyten I, Amselem J, Wittenberg AHJ, Zhou S, de Queiroz MV, Robin GP, Auger A, Hainaut M, Henrissat B, Kim KT, Lee YH, Lespinet O, Schwartz DC, Thon MR, O'Connell RJ.

BMC Genomics. 2017 Aug 29;18(1):667. doi: 10.1186/s12864-017-4083-x.

8.

Tension-Dependent Free Energies of Nucleosome Unwrapping.

Lequieu J, Córdoba A, Schwartz DC, de Pablo JJ.

ACS Cent Sci. 2016 Sep 28;2(9):660-666. Epub 2016 Aug 23.

9.

Genome Sequence and Annotation of Colletotrichum higginsianum, a Causal Agent of Crucifer Anthracnose Disease.

Zampounis A, Pigné S, Dallery JF, Wittenberg AH, Zhou S, Schwartz DC, Thon MR, O'Connell RJ.

Genome Announc. 2016 Aug 18;4(4). pii: e00821-16. doi: 10.1128/genomeA.00821-16.

10.

Allele-Specific Quantification of Structural Variations in Cancer Genomes.

Li Y, Zhou S, Schwartz DC, Ma J.

Cell Syst. 2016 Jul;3(1):21-34. doi: 10.1016/j.cels.2016.05.007. Epub 2016 Jul 21.

11.

A gapless genome sequence of the fungus Botrytis cinerea.

Van Kan JA, Stassen JH, Mosbach A, Van Der Lee TA, Faino L, Farmer AD, Papasotiriou DG, Zhou S, Seidl MF, Cottam E, Edel D, Hahn M, Schwartz DC, Dietrich RA, Widdison S, Scalliet G.

Mol Plant Pathol. 2017 Jan;18(1):75-89. doi: 10.1111/mpp.12384. Epub 2016 Jun 9.

PMID:
26913498
12.

Comparative Genomic Analyses of the Human NPHP1 Locus Reveal Complex Genomic Architecture and Its Regional Evolution in Primates.

Yuan B, Liu P, Gupta A, Beck CR, Tejomurtula A, Campbell IM, Gambin T, Simmons AD, Withers MA, Harris RA, Rogers J, Schwartz DC, Lupski JR.

PLoS Genet. 2015 Dec 7;11(12):e1005686. doi: 10.1371/journal.pgen.1005686. eCollection 2015 Dec.

13.

Maligner: a fast ordered restriction map aligner.

Mendelowitz LM, Schwartz DC, Pop M.

Bioinformatics. 2016 Apr 1;32(7):1016-22. doi: 10.1093/bioinformatics/btv711. Epub 2015 Dec 3.

14.

A clone-free, single molecule map of the domestic cow (Bos taurus) genome.

Zhou S, Goldstein S, Place M, Bechner M, Patino D, Potamousis K, Ravindran P, Pape L, Rincon G, Hernandez-Ortiz J, Medrano JF, Schwartz DC.

BMC Genomics. 2015 Aug 28;16:644. doi: 10.1186/s12864-015-1823-7.

15.

DNA binding fluorescent proteins for the direct visualization of large DNA molecules.

Lee S, Oh Y, Lee J, Choe S, Lim S, Lee HS, Jo K, Schwartz DC.

Nucleic Acids Res. 2016 Jan 8;44(1):e6. doi: 10.1093/nar/gkv834. Epub 2015 Aug 11.

16.

A Substance Called Food: Long-Term Psychodynamic Group Treatment for Compulsive Overeating.

Schwartz DC, Nickow MS, Arseneau R, Gisslow MT.

Int J Group Psychother. 2015 Jul;65(3):386-409. doi: 10.1521/ijgp.2015.65.3.386.

PMID:
26076205
17.

Single-molecule analysis reveals widespread structural variation in multiple myeloma.

Gupta A, Place M, Goldstein S, Sarkar D, Zhou S, Potamousis K, Kim J, Flanagan C, Li Y, Newton MA, Callander NS, Hematti P, Bresnick EH, Ma J, Asimakopoulos F, Schwartz DC.

Proc Natl Acad Sci U S A. 2015 Jun 23;112(25):7689-94. doi: 10.1073/pnas.1418577112. Epub 2015 Jun 8.

18.

Chromosome-level genome map provides insights into diverse defense mechanisms in the medicinal fungus Ganoderma sinense.

Zhu Y, Xu J, Sun C, Zhou S, Xu H, Nelson DR, Qian J, Song J, Luo H, Xiang L, Li Y, Xu Z, Ji A, Wang L, Lu S, Hayward A, Sun W, Li X, Schwartz DC, Wang Y, Chen S.

Sci Rep. 2015 Jun 5;5:11087. doi: 10.1038/srep11087.

19.

High-coverage sequencing and annotated assemblies of the budgerigar genome.

Ganapathy G, Howard JT, Ward JM, Li J, Li B, Li Y, Xiong Y, Zhang Y, Zhou S, Schwartz DC, Schatz M, Aboukhalil R, Fedrigo O, Bukovnik L, Wang T, Wray G, Rasolonjatovo I, Winer R, Knight JR, Koren S, Warren WC, Zhang G, Phillippy AM, Jarvis ED.

Gigascience. 2014 Jul 8;3:11. doi: 10.1186/2047-217X-3-11. eCollection 2014.

20.

An improved genome release (version Mt4.0) for the model legume Medicago truncatula.

Tang H, Krishnakumar V, Bidwell S, Rosen B, Chan A, Zhou S, Gentzbittel L, Childs KL, Yandell M, Gundlach H, Mayer KF, Schwartz DC, Town CD.

BMC Genomics. 2014 Apr 27;15:312. doi: 10.1186/1471-2164-15-312.

21.

Presentation of large DNA molecules for analysis as nanoconfined dumbbells.

Kounovsky-Shafer KL, Hernández-Ortiz JP, Jo K, Odijk T, de Pablo JJ, Schwartz DC.

Macromolecules. 2013 Oct 22;46(20):8356-8368.

22.

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.

23.

Discovery of structural alterations in solid tumor oligodendroglioma by single molecule analysis.

Ray M, Goldstein S, Zhou S, Potamousis K, Sarkar D, Newton MA, Esterberg E, Kendziorski C, Bogler O, Schwartz DC.

BMC Genomics. 2013 Jul 26;14:505. doi: 10.1186/1471-2164-14-505.

24.

Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species.

Bradnam KR, Fass JN, Alexandrov A, Baranay P, Bechner M, Birol I, Boisvert S, Chapman JA, Chapuis G, Chikhi R, Chitsaz H, Chou WC, Corbeil J, Del Fabbro C, Docking TR, Durbin R, Earl D, Emrich S, Fedotov P, Fonseca NA, Ganapathy G, Gibbs RA, Gnerre S, Godzaridis E, Goldstein S, Haimel M, Hall G, Haussler D, Hiatt JB, Ho IY, Howard J, Hunt M, Jackman SD, Jaffe DB, Jarvis ED, Jiang H, Kazakov S, Kersey PJ, Kitzman JO, Knight JR, Koren S, Lam TW, Lavenier D, Laviolette F, Li Y, Li Z, Liu B, Liu Y, Luo R, Maccallum I, Macmanes MD, Maillet N, Melnikov S, Naquin D, Ning Z, Otto TD, Paten B, Paulo OS, Phillippy AM, Pina-Martins F, Place M, Przybylski D, Qin X, Qu C, Ribeiro FJ, Richards S, Rokhsar DS, Ruby JG, Scalabrin S, Schatz MC, Schwartz DC, Sergushichev A, Sharpe T, Shaw TI, Shendure J, Shi Y, Simpson JT, Song H, Tsarev F, Vezzi F, Vicedomini R, Vieira BM, Wang J, Worley KC, Yin S, Yiu SM, Yuan J, Zhang G, Zhang H, Zhou S, Korf IF.

Gigascience. 2013 Jul 22;2(1):10. doi: 10.1186/2047-217X-2-10.

25.

Comparative genomics of cryptosporidium.

Mazurie AJ, Alves JM, Ozaki LS, Zhou S, Schwartz DC, Buck GA.

Int J Genomics. 2013;2013:832756. doi: 10.1155/2013/832756. Epub 2013 May 2.

26.

Using latent class analysis to model prescription medications in the measurement of falling among a community elderly population.

Hardigan PC, Schwartz DC, Hardigan WD.

BMC Med Inform Decis Mak. 2013 May 25;13:60. doi: 10.1186/1472-6947-13-60.

27.

Improving mammalian genome scaffolding using large insert mate-pair next-generation sequencing.

van Heesch S, Kloosterman WP, Lansu N, Ruzius FP, Levandowsky E, Lee CC, Zhou S, Goldstein S, Schwartz DC, Harkins TT, Guryev V, Cuppen E.

BMC Genomics. 2013 Apr 16;14:257. doi: 10.1186/1471-2164-14-257.

28.

Comparative genomics of a plant-pathogenic fungus, Pyrenophora tritici-repentis, reveals transduplication and the impact of repeat elements on pathogenicity and population divergence.

Manning VA, Pandelova I, Dhillon B, Wilhelm LJ, Goodwin SB, Berlin AM, Figueroa M, Freitag M, Hane JK, Henrissat B, Holman WH, Kodira CD, Martin J, Oliver RP, Robbertse B, Schackwitz W, Schwartz DC, Spatafora JW, Turgeon BG, Yandava C, Young S, Zhou S, Zeng Q, Grigoriev IV, Ma LJ, Ciuffetti LM.

G3 (Bethesda). 2013 Jan;3(1):41-63. doi: 10.1534/g3.112.004044. Epub 2013 Jan 1.

29.

Lifestyle transitions in plant pathogenic Colletotrichum fungi deciphered by genome and transcriptome analyses.

O'Connell RJ, Thon MR, Hacquard S, Amyotte SG, Kleemann J, Torres MF, Damm U, Buiate EA, Epstein L, Alkan N, Altmüller J, Alvarado-Balderrama L, Bauser CA, Becker C, Birren BW, Chen Z, Choi J, Crouch JA, Duvick JP, Farman MA, Gan P, Heiman D, Henrissat B, Howard RJ, Kabbage M, Koch C, Kracher B, Kubo Y, Law AD, Lebrun MH, Lee YH, Miyara I, Moore N, Neumann U, Nordström K, Panaccione DG, Panstruga R, Place M, Proctor RH, Prusky D, Rech G, Reinhardt R, Rollins JA, Rounsley S, Schardl CL, Schwartz DC, Shenoy N, Shirasu K, Sikhakolli UR, Stüber K, Sukno SA, Sweigard JA, Takano Y, Takahara H, Trail F, van der Does HC, Voll LM, Will I, Young S, Zeng Q, Zhang J, Zhou S, Dickman MB, Schulze-Lefert P, Ver Loren van Themaat E, Ma LJ, Vaillancourt LJ.

Nat Genet. 2012 Sep;44(9):1060-5. doi: 10.1038/ng.2372. Epub 2012 Aug 12.

PMID:
22885923
30.

AGORA: Assembly Guided by Optical Restriction Alignment.

Lin HC, Goldstein S, Mendelowitz L, Zhou S, Wetzel J, Schwartz DC, Pop M.

BMC Bioinformatics. 2012 Aug 2;13:189. doi: 10.1186/1471-2105-13-189.

31.

Genome sequence of the model medicinal mushroom Ganoderma lucidum.

Chen S, Xu J, Liu C, Zhu Y, Nelson DR, Zhou S, Li C, Wang L, Guo X, Sun Y, Luo H, Li Y, Song J, Henrissat B, Levasseur A, Qian J, Li J, Luo X, Shi L, He L, Xiang L, Xu X, Niu Y, Li Q, Han MV, Yan H, Zhang J, Chen H, Lv A, Wang Z, Liu M, Schwartz DC, Sun C.

Nat Commun. 2012 Jun 26;3:913. doi: 10.1038/ncomms1923.

32.

Statistical significance of optical map alignments.

Sarkar D, Goldstein S, Schwartz DC, Newton MA.

J Comput Biol. 2012 May;19(5):478-92. doi: 10.1089/cmb.2011.0221. Epub 2012 Apr 16.

33.

Genome sequencing of ovine isolates of Mycobacterium avium subspecies paratuberculosis offers insights into host association.

Bannantine JP, Wu CW, Hsu C, Zhou S, Schwartz DC, Bayles DO, Paustian ML, Alt DP, Sreevatsan S, Kapur V, Talaat AM.

BMC Genomics. 2012 Mar 12;13:89. doi: 10.1186/1471-2164-13-89.

34.

The Medicago genome provides insight into the evolution of rhizobial symbioses.

Young ND, Debellé F, Oldroyd GE, Geurts R, Cannon SB, Udvardi MK, Benedito VA, Mayer KF, Gouzy J, Schoof H, Van de Peer Y, Proost S, Cook DR, Meyers BC, Spannagl M, Cheung F, De Mita S, Krishnakumar V, Gundlach H, Zhou S, Mudge J, Bharti AK, Murray JD, Naoumkina MA, Rosen B, Silverstein KA, Tang H, Rombauts S, Zhao PX, Zhou P, Barbe V, Bardou P, Bechner M, Bellec A, Berger A, Bergès H, Bidwell S, Bisseling T, Choisne N, Couloux A, Denny R, Deshpande S, Dai X, Doyle JJ, Dudez AM, Farmer AD, Fouteau S, Franken C, Gibelin C, Gish J, Goldstein S, González AJ, Green PJ, Hallab A, Hartog M, Hua A, Humphray SJ, Jeong DH, Jing Y, Jöcker A, Kenton SM, Kim DJ, Klee K, Lai H, Lang C, Lin S, Macmil SL, Magdelenat G, Matthews L, McCorrison J, Monaghan EL, Mun JH, Najar FZ, Nicholson C, Noirot C, O'Bleness M, Paule CR, Poulain J, Prion F, Qin B, Qu C, Retzel EF, Riddle C, Sallet E, Samain S, Samson N, Sanders I, Saurat O, Scarpelli C, Schiex T, Segurens B, Severin AJ, Sherrier DJ, Shi R, Sims S, Singer SR, Sinharoy S, Sterck L, Viollet A, Wang BB, Wang K, Wang M, Wang X, Warfsmann J, Weissenbach J, White DD, White JD, Wiley GB, Wincker P, Xing Y, Yang L, Yao Z, Ying F, Zhai J, Zhou L, Zuber A, Dénarié J, Dixon RA, May GD, Schwartz DC, Rogers J, Quétier F, Town CD, Roe BA.

Nature. 2011 Nov 16;480(7378):520-4. doi: 10.1038/nature10625.

35.

Complete genome sequence of Rhodospirillum rubrum type strain (S1).

Munk AC, Copeland A, Lucas S, Lapidus A, Del Rio TG, Barry K, Detter JC, Hammon N, Israni S, Pitluck S, Brettin T, Bruce D, Han C, Tapia R, Gilna P, Schmutz J, Larimer F, Land M, Kyrpides NC, Mavromatis K, Richardson P, Rohde M, Göker M, Klenk HP, Zhang Y, Roberts GP, Reslewic S, Schwartz DC.

Stand Genomic Sci. 2011 Jul 1;4(3):293-302. doi: 10.4056/sigs.1804360. Epub 2011 Jun 30.

36.

Nanochannel confinement: DNA stretch approaching full contour length.

Kim Y, Kim KS, Kounovsky KL, Chang R, Jung GY, dePablo JJ, Jo K, Schwartz DC.

Lab Chip. 2011 May 21;11(10):1721-9. doi: 10.1039/c0lc00680g. Epub 2011 Mar 23.

37.

A large and complex structural polymorphism at 16p12.1 underlies microdeletion disease risk.

Antonacci F, Kidd JM, Marques-Bonet T, Teague B, Ventura M, Girirajan S, Alkan C, Campbell CD, Vives L, Malig M, Rosenfeld JA, Ballif BC, Shaffer LG, Graves TA, Wilson RK, Schwartz DC, Eichler EE.

Nat Genet. 2010 Sep;42(9):745-50. doi: 10.1038/ng.643. Epub 2010 Aug 22.

38.

High-resolution human genome structure by single-molecule analysis.

Teague B, Waterman MS, Goldstein S, Potamousis K, Zhou S, Reslewic S, Sarkar D, Valouev A, Churas C, Kidd JM, Kohn S, Runnheim R, Lamers C, Forrest D, Newton MA, Eichler EE, Kent-First M, Surti U, Livny M, Schwartz DC.

Proc Natl Acad Sci U S A. 2010 Jun 15;107(24):10848-53. doi: 10.1073/pnas.0914638107. Epub 2010 Jun 1.

39.

Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium.

Ma LJ, van der Does HC, Borkovich KA, Coleman JJ, Daboussi MJ, Di Pietro A, Dufresne M, Freitag M, Grabherr M, Henrissat B, Houterman PM, Kang S, Shim WB, Woloshuk C, Xie X, Xu JR, Antoniw J, Baker SE, Bluhm BH, Breakspear A, Brown DW, Butchko RA, Chapman S, Coulson R, Coutinho PM, Danchin EG, Diener A, Gale LR, Gardiner DM, Goff S, Hammond-Kosack KE, Hilburn K, Hua-Van A, Jonkers W, Kazan K, Kodira CD, Koehrsen M, Kumar L, Lee YH, Li L, Manners JM, Miranda-Saavedra D, Mukherjee M, Park G, Park J, Park SY, Proctor RH, Regev A, Ruiz-Roldan MC, Sain D, Sakthikumar S, Sykes S, Schwartz DC, Turgeon BG, Wapinski I, Yoder O, Young S, Zeng Q, Zhou S, Galagan J, Cuomo CA, Kistler HC, Rep M.

Nature. 2010 Mar 18;464(7287):367-73. doi: 10.1038/nature08850.

40.

New Generations: Sequencing Machines and Their Computational Challenges.

Schwartz DC, Waterman MS.

J Comput Sci Technol. 2010 Jan 1;25(1):3-9.

41.

The B73 maize genome: complexity, diversity, and dynamics.

Schnable PS, Ware D, Fulton RS, Stein JC, Wei F, Pasternak S, Liang C, Zhang J, Fulton L, Graves TA, Minx P, Reily AD, Courtney L, Kruchowski SS, Tomlinson C, Strong C, Delehaunty K, Fronick C, Courtney B, Rock SM, Belter E, Du F, Kim K, Abbott RM, Cotton M, Levy A, Marchetto P, Ochoa K, Jackson SM, Gillam B, Chen W, Yan L, Higginbotham J, Cardenas M, Waligorski J, Applebaum E, Phelps L, Falcone J, Kanchi K, Thane T, Scimone A, Thane N, Henke J, Wang T, Ruppert J, Shah N, Rotter K, Hodges J, Ingenthron E, Cordes M, Kohlberg S, Sgro J, Delgado B, Mead K, Chinwalla A, Leonard S, Crouse K, Collura K, Kudrna D, Currie J, He R, Angelova A, Rajasekar S, Mueller T, Lomeli R, Scara G, Ko A, Delaney K, Wissotski M, Lopez G, Campos D, Braidotti M, Ashley E, Golser W, Kim H, Lee S, Lin J, Dujmic Z, Kim W, Talag J, Zuccolo A, Fan C, Sebastian A, Kramer M, Spiegel L, Nascimento L, Zutavern T, Miller B, Ambroise C, Muller S, Spooner W, Narechania A, Ren L, Wei S, Kumari S, Faga B, Levy MJ, McMahan L, Van Buren P, Vaughn MW, Ying K, Yeh CT, Emrich SJ, Jia Y, Kalyanaraman A, Hsia AP, Barbazuk WB, Baucom RS, Brutnell TP, Carpita NC, Chaparro C, Chia JM, Deragon JM, Estill JC, Fu Y, Jeddeloh JA, Han Y, Lee H, Li P, Lisch DR, Liu S, Liu Z, Nagel DH, McCann MC, SanMiguel P, Myers AM, Nettleton D, Nguyen J, Penning BW, Ponnala L, Schneider KL, Schwartz DC, Sharma A, Soderlund C, Springer NM, Sun Q, Wang H, Waterman M, Westerman R, Wolfgruber TK, Yang L, Yu Y, Zhang L, Zhou S, Zhu Q, Bennetzen JL, Dawe RK, Jiang J, Jiang N, Presting GG, Wessler SR, Aluru S, Martienssen RA, Clifton SW, McCombie WR, Wing RA, Wilson RK.

Science. 2009 Nov 20;326(5956):1112-5. doi: 10.1126/science.1178534. Erratum in: Science. 2012 Aug 31;337(6098):1040.

42.

A single molecule scaffold for the maize genome.

Zhou S, Wei F, Nguyen J, Bechner M, Potamousis K, Goldstein S, Pape L, Mehan MR, Churas C, Pasternak S, Forrest DK, Wise R, Ware D, Wing RA, Waterman MS, Livny M, Schwartz DC.

PLoS Genet. 2009 Nov;5(11):e1000711. doi: 10.1371/journal.pgen.1000711. Epub 2009 Nov 20.

43.

The physical and genetic framework of the maize B73 genome.

Wei F, Zhang J, Zhou S, He R, Schaeffer M, Collura K, Kudrna D, Faga BP, Wissotski M, Golser W, Rock SM, Graves TA, Fulton RS, Coe E, Schnable PS, Schwartz DC, Ware D, Clifton SW, Wilson RK, Wing RA.

PLoS Genet. 2009 Nov;5(11):e1000715. doi: 10.1371/journal.pgen.1000715. Epub 2009 Nov 20.

44.

Detailed analysis of a contiguous 22-Mb region of the maize genome.

Wei F, Stein JC, Liang C, Zhang J, Fulton RS, Baucom RS, De Paoli E, Zhou S, Yang L, Han Y, Pasternak S, Narechania A, Zhang L, Yeh CT, Ying K, Nagel DH, Collura K, Kudrna D, Currie J, Lin J, Kim H, Angelova A, Scara G, Wissotski M, Golser W, Courtney L, Kruchowski S, Graves TA, Rock SM, Adams S, Fulton LA, Fronick C, Courtney W, Kramer M, Spiegel L, Nascimento L, Kalyanaraman A, Chaparro C, Deragon JM, Miguel PS, Jiang N, Wessler SR, Green PJ, Yu Y, Schwartz DC, Meyers BC, Bennetzen JL, Martienssen RA, McCombie WR, Aluru S, Clifton SW, Schnable PS, Ware D, Wilson RK, Wing RA.

PLoS Genet. 2009 Nov;5(11):e1000728. doi: 10.1371/journal.pgen.1000728. Epub 2009 Nov 20.

45.

The challenges of sequencing by synthesis.

Fuller CW, Middendorf LR, Benner SA, Church GM, Harris T, Huang X, Jovanovich SB, Nelson JR, Schloss JA, Schwartz DC, Vezenov DV.

Nat Biotechnol. 2009 Nov;27(11):1013-23. doi: 10.1038/nbt.1585. Epub 2009 Nov 6. Review.

PMID:
19898456
46.

Uncovering pathways in DNA oligonucleotide hybridization via transition state analysis.

Sambriski EJ, Schwartz DC, de Pablo JJ.

Proc Natl Acad Sci U S A. 2009 Oct 27;106(43):18125-30. doi: 10.1073/pnas.0904721106. Epub 2009 Oct 8. Erratum in: Proc Natl Acad Sci U S A. 2009 Dec 8;106(49):21007.

47.

Engineering BspQI nicking enzymes and application of N.BspQI in DNA labeling and production of single-strand DNA.

Zhang P, Too PH, Samuelson JC, Chan SH, Vincze T, Doucette S, Bäckström S, Potamousis KD, Schramm TM, Forrest D, Schwartz DC, Xu SY.

Protein Expr Purif. 2010 Feb;69(2):226-34. doi: 10.1016/j.pep.2009.09.003. Epub 2009 Sep 9.

48.

Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans.

Haas BJ, Kamoun S, Zody MC, Jiang RH, Handsaker RE, Cano LM, Grabherr M, Kodira CD, Raffaele S, Torto-Alalibo T, Bozkurt TO, Ah-Fong AM, Alvarado L, Anderson VL, Armstrong MR, Avrova A, Baxter L, Beynon J, Boevink PC, Bollmann SR, Bos JI, Bulone V, Cai G, Cakir C, Carrington JC, Chawner M, Conti L, Costanzo S, Ewan R, Fahlgren N, Fischbach MA, Fugelstad J, Gilroy EM, Gnerre S, Green PJ, Grenville-Briggs LJ, Griffith J, Grünwald NJ, Horn K, Horner NR, Hu CH, Huitema E, Jeong DH, Jones AM, Jones JD, Jones RW, Karlsson EK, Kunjeti SG, Lamour K, Liu Z, Ma L, Maclean D, Chibucos MC, McDonald H, McWalters J, Meijer HJ, Morgan W, Morris PF, Munro CA, O'Neill K, Ospina-Giraldo M, Pinzón A, Pritchard L, Ramsahoye B, Ren Q, Restrepo S, Roy S, Sadanandom A, Savidor A, Schornack S, Schwartz DC, Schumann UD, Schwessinger B, Seyer L, Sharpe T, Silvar C, Song J, Studholme DJ, Sykes S, Thines M, van de Vondervoort PJ, Phuntumart V, Wawra S, Weide R, Win J, Young C, Zhou S, Fry W, Meyers BC, van West P, Ristaino J, Govers F, Birch PR, Whisson SC, Judelson HS, Nusbaum C.

Nature. 2009 Sep 17;461(7262):393-8. doi: 10.1038/nature08358. Epub 2009 Sep 9.

PMID:
19741609
49.

The genome of Nectria haematococca: contribution of supernumerary chromosomes to gene expansion.

Coleman JJ, Rounsley SD, Rodriguez-Carres M, Kuo A, Wasmann CC, Grimwood J, Schmutz J, Taga M, White GJ, Zhou S, Schwartz DC, Freitag M, Ma LJ, Danchin EG, Henrissat B, Coutinho PM, Nelson DR, Straney D, Napoli CA, Barker BM, Gribskov M, Rep M, Kroken S, Molnár I, Rensing C, Kennell JC, Zamora J, Farman ML, Selker EU, Salamov A, Shapiro H, Pangilinan J, Lindquist E, Lamers C, Grigoriev IV, Geiser DM, Covert SF, Temporini E, Vanetten HD.

PLoS Genet. 2009 Aug;5(8):e1000618. doi: 10.1371/journal.pgen.1000618. Epub 2009 Aug 28.

50.

Elongation and migration of single DNA molecules in microchannels using oscillatory shear flows.

Jo K, Chen YL, de Pablo JJ, Schwartz DC.

Lab Chip. 2009 Aug 21;9(16):2348-55. doi: 10.1039/b902292a. Epub 2009 Jun 10.

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