| Year |
Citation |
Score |
| 2023 |
Winden E, Vasquez-Echeverri A, Calle-Castañeda S, Lian Y, Hernandez Ortiz JP, Schwartz DC. A database of restriction maps to expand the utility of bacterial artificial chromosomes. Gigabyte (Hong Kong, China). 2023: gigabyte93. PMID 37753479 DOI: 10.46471/gigabyte.93 |
0.366 |
|
| 2019 |
Schwartz DC. Biophysics and the Genomic Sciences. Biophysical Journal. PMID 31409480 DOI: 10.1016/J.Bpj.2019.07.038 |
0.433 |
|
| 2019 |
Krerowicz SJ, Hernandez-Ortiz JP, Schwartz DC. A simple dialysis device for large DNA molecules. Biotechniques. 66: 93-95. PMID 30744406 DOI: 10.2144/Btn-2018-0133 |
0.375 |
|
| 2018 |
Krerowicz SJW, Hernandez-Ortiz JP, Schwartz DC. Microscale Objects via Restructuring of Large, Double-Stranded DNA Molecules. Acs Applied Materials & Interfaces. PMID 30403478 DOI: 10.1021/Acsami.8B18157 |
0.39 |
|
| 2017 |
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. Electrostatic confinement and manipulation of DNA molecules for genome analysis. Proceedings of the National Academy of Sciences of the United States of America. PMID 29203667 DOI: 10.1073/Pnas.1711069114 |
0.677 |
|
| 2017 |
Lequieu J, Schwartz DC, de Pablo JJ. In silico evidence for sequence-dependent nucleosome sliding. Proceedings of the National Academy of Sciences of the United States of America. PMID 29078285 DOI: 10.1073/Pnas.1705685114 |
0.406 |
|
| 2017 |
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, ... ... Schwartz DC, et al. Gapless genome assembly of Colletotrichum higginsianum reveals chromosome structure and association of transposable elements with secondary metabolite gene clusters. Bmc Genomics. 18: 667. PMID 28851275 DOI: 10.1186/S12864-017-4083-X |
0.451 |
|
| 2016 |
Lequieu J, Córdoba A, Schwartz DC, de Pablo JJ. Tension-Dependent Free Energies of Nucleosome Unwrapping. Acs Central Science. 2: 660-666. PMID 27725965 DOI: 10.1021/Acscentsci.6B00201 |
0.336 |
|
| 2016 |
Zampounis A, Pigné S, Dallery JF, Wittenberg AH, Zhou S, Schwartz DC, Thon MR, O'Connell RJ. Genome Sequence and Annotation of Colletotrichum higginsianum, a Causal Agent of Crucifer Anthracnose Disease. Genome Announcements. 4. PMID 27540062 DOI: 10.1128/Genomea.00821-16 |
0.438 |
|
| 2016 |
Li Y, Zhou S, Schwartz DC, Ma J. Allele-Specific Quantification of Structural Variations in Cancer Genomes. Cell Systems. PMID 27453446 DOI: 10.1016/J.Cels.2016.05.007 |
0.472 |
|
| 2016 |
van Kan JA, Stassen JH, Mosbach A, van der Lee TA, Faino L, Farmer AD, Papasotiriou D, Zhou S, Seidl MF, Cottam E, Edel D, Hahn M, Schwartz DC, Dietrich RA, Widdison S, et al. A gapless genome sequence of the fungus Botrytis cinerea. Molecular Plant Pathology. PMID 26913498 DOI: 10.1111/Mpp.12384 |
0.476 |
|
| 2016 |
Gupta A, Kounovsky-Shafer KL, Ravindran P, Schwartz DC. Optical mapping and nanocoding approaches to whole-genome analysis Microfluidics and Nanofluidics. 20. DOI: 10.1007/S10404-015-1685-Y |
0.525 |
|
| 2015 |
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. Comparative Genomic Analyses of the Human NPHP1 Locus Reveal Complex Genomic Architecture and Its Regional Evolution in Primates. Plos Genetics. 11: e1005686. PMID 26641089 DOI: 10.1371/Journal.Pgen.1005686 |
0.489 |
|
| 2015 |
Mendelowitz LM, Schwartz DC, Pop M. Maligner: a fast ordered restriction map aligner. Bioinformatics (Oxford, England). PMID 26637292 DOI: 10.1093/Bioinformatics/Btv711 |
0.436 |
|
| 2015 |
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. A clone-free, single molecule map of the domestic cow (Bos taurus) genome. Bmc Genomics. 16: 644. PMID 26314885 DOI: 10.1186/S12864-015-1823-7 |
0.513 |
|
| 2015 |
Lee S, Oh Y, Lee J, Choe S, Lim S, Lee HS, Jo K, Schwartz DC. DNA binding fluorescent proteins for the direct visualization of large DNA molecules. Nucleic Acids Research. PMID 26264666 DOI: 10.1093/Nar/Gkv834 |
0.592 |
|
| 2015 |
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, et al. Single-molecule analysis reveals widespread structural variation in multiple myeloma. Proceedings of the National Academy of Sciences of the United States of America. 112: 7689-94. PMID 26056298 DOI: 10.1073/Pnas.1418577112 |
0.513 |
|
| 2015 |
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, ... ... Schwartz DC, et al. Chromosome-level genome map provides insights into diverse defense mechanisms in the medicinal fungus Ganoderma sinense. Scientific Reports. 5: 11087. PMID 26046933 DOI: 10.1038/Srep11087 |
0.487 |
|
| 2014 |
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, et al. High-coverage sequencing and annotated assemblies of the budgerigar genome. Gigascience. 3: 11. PMID 25061512 DOI: 10.1186/2047-217X-3-11 |
0.428 |
|
| 2014 |
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. An improved genome release (version Mt4.0) for the model legume Medicago truncatula. Bmc Genomics. 15: 312. PMID 24767513 DOI: 10.1186/1471-2164-15-312 |
0.476 |
|
| 2013 |
Kounovsky-Shafer KL, Hernández-Ortiz JP, Jo K, Odijk T, de Pablo JJ, Schwartz DC. Presentation of large DNA molecules for analysis as nanoconfined dumbbells. Macromolecules. 46: 8356-8368. PMID 24683272 DOI: 10.1021/Ma400926H |
0.639 |
|
| 2013 |
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, et al. Improvement of the Oryza sativa Nipponbare reference genome using next generation sequence and optical map data. Rice (New York, N.Y.). 6: 4. PMID 24280374 DOI: 10.1186/1939-8433-6-4 |
0.5 |
|
| 2013 |
Ray M, Goldstein S, Zhou S, Potamousis K, Sarkar D, Newton MA, Esterberg E, Kendziorski C, Bogler O, Schwartz DC. Discovery of structural alterations in solid tumor oligodendroglioma by single molecule analysis. Bmc Genomics. 14: 505. PMID 23885787 DOI: 10.1186/1471-2164-14-505 |
0.483 |
|
| 2013 |
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, ... ... Schwartz DC, et al. Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species. Gigascience. 2: 10. PMID 23870653 DOI: 10.1186/2047-217X-2-10 |
0.464 |
|
| 2013 |
Mazurie AJ, Alves JM, Ozaki LS, Zhou S, Schwartz DC, Buck GA. Comparative genomics of cryptosporidium. International Journal of Genomics. 2013: 832756. PMID 23738321 DOI: 10.1155/2013/832756 |
0.436 |
|
| 2013 |
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. Improving mammalian genome scaffolding using large insert mate-pair next-generation sequencing. Bmc Genomics. 14: 257. PMID 23590730 DOI: 10.1186/1471-2164-14-257 |
0.497 |
|
| 2013 |
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, ... ... Schwartz DC, et al. Comparative genomics of a plant-pathogenic fungus, Pyrenophora tritici-repentis, reveals transduplication and the impact of repeat elements on pathogenicity and population divergence. G3 (Bethesda, Md.). 3: 41-63. PMID 23316438 DOI: 10.1534/G3.112.004044 |
0.438 |
|
| 2012 |
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, ... ... Schwartz DC, et al. Lifestyle transitions in plant pathogenic Colletotrichum fungi deciphered by genome and transcriptome analyses. Nature Genetics. 44: 1060-5. PMID 22885923 DOI: 10.1038/Ng.2372 |
0.336 |
|
| 2012 |
Lin HC, Goldstein S, Mendelowitz L, Zhou S, Wetzel J, Schwartz DC, Pop M. AGORA: Assembly Guided by Optical Restriction Alignment. Bmc Bioinformatics. 13: 189. PMID 22856673 DOI: 10.1186/1471-2105-13-189 |
0.469 |
|
| 2012 |
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, ... ... Schwartz DC, et al. Genome sequence of the model medicinal mushroom Ganoderma lucidum. Nature Communications. 3: 913. PMID 22735441 DOI: 10.1038/Ncomms1923 |
0.443 |
|
| 2012 |
Sarkar D, Goldstein S, Schwartz DC, Newton MA. Statistical significance of optical map alignments. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 19: 478-92. PMID 22506568 DOI: 10.1089/Cmb.2011.0221 |
0.504 |
|
| 2012 |
Bannantine JP, Wu CW, Hsu C, Zhou S, Schwartz DC, Bayles DO, Paustian ML, Alt DP, Sreevatsan S, Kapur V, Talaat AM. Genome sequencing of ovine isolates of Mycobacterium avium subspecies paratuberculosis offers insights into host association. Bmc Genomics. 13: 89. PMID 22409516 DOI: 10.1186/1471-2164-13-89 |
0.489 |
|
| 2012 |
Gupta A, Kim J, Hope C, Jensen J, Callander N, Hematti P, Bresnick EH, Schwartz DC, Asimakopoulos F. Optical Mapping of the Myeloma Cancer Genome to Elucidate Mechanisms of Acquired Resistance to Proteasome Inhibitors. Blood. 120: 2444-2444. DOI: 10.1182/Blood.V120.21.2444.2444 |
0.507 |
|
| 2011 |
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, ... ... Schwartz DC, et al. The Medicago genome provides insight into the evolution of rhizobial symbioses. Nature. 480: 520-4. PMID 22089132 DOI: 10.1038/Nature10625 |
0.447 |
|
| 2011 |
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, ... ... Schwartz DC, et al. Complete genome sequence of Rhodospirillum rubrum type strain (S1). Standards in Genomic Sciences. 4: 293-302. PMID 21886856 DOI: 10.4056/Sigs.1804360 |
0.795 |
|
| 2011 |
Kim Y, Kim KS, Kounovsky KL, Chang R, Jung GY, dePablo JJ, Jo K, Schwartz DC. Nanochannel confinement: DNA stretch approaching full contour length. Lab On a Chip. 11: 1721-9. PMID 21431167 DOI: 10.1039/C0Lc00680G |
0.611 |
|
| 2010 |
Schwartz DC, Waterman MS. New Generations: Sequencing Machines and Their Computational Challenges. Journal of Computer Science and Technology. 25: 3-9. PMID 22121326 DOI: 10.1007/S11390-010-9300-X |
0.385 |
|
| 2010 |
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, et al. A large and complex structural polymorphism at 16p12.1 underlies microdeletion disease risk. Nature Genetics. 42: 745-50. PMID 20729854 DOI: 10.1038/Ng.643 |
0.784 |
|
| 2010 |
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, ... ... Schwartz DC, et al. High-resolution human genome structure by single-molecule analysis. Proceedings of the National Academy of Sciences of the United States of America. 107: 10848-53. PMID 20534489 DOI: 10.1073/Pnas.0914638107 |
0.798 |
|
| 2010 |
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, ... ... Schwartz DC, et al. Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium. Nature. 464: 367-73. PMID 20237561 DOI: 10.1038/Nature08850 |
0.374 |
|
| 2010 |
Zhang P, Too PH, Samuelson JC, Chan SH, Vincze T, Doucette S, Bäckström S, Potamousis KD, Schramm TM, Forrest D, Schwartz DC, Xu SY. Engineering BspQI nicking enzymes and application of N.BspQI in DNA labeling and production of single-strand DNA. Protein Expression and Purification. 69: 226-34. PMID 19747545 DOI: 10.1016/J.Pep.2009.09.003 |
0.392 |
|
| 2009 |
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, ... Schwartz DC, et al. The B73 maize genome: complexity, diversity, and dynamics. Science (New York, N.Y.). 326: 1112-5. PMID 19965430 DOI: 10.1126/Science.1178534 |
0.453 |
|
| 2009 |
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, ... ... Schwartz DC, et al. A single molecule scaffold for the maize genome. Plos Genetics. 5: e1000711. PMID 19936062 DOI: 10.1371/Journal.Pgen.1000711 |
0.514 |
|
| 2009 |
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, et al. The physical and genetic framework of the maize B73 genome. Plos Genetics. 5: e1000715. PMID 19936061 DOI: 10.1371/Journal.Pgen.1000715 |
0.466 |
|
| 2009 |
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, ... Schwartz DC, et al. Detailed analysis of a contiguous 22-Mb region of the maize genome. Plos Genetics. 5: e1000728. PMID 19936048 DOI: 10.1371/Journal.Pgen.1000728 |
0.506 |
|
| 2009 |
Fuller CW, Middendorf LR, Benner SA, Church GM, Harris T, Huang X, Jovanovich SB, Nelson JR, Schloss JA, Schwartz DC, Vezenov DV. The challenges of sequencing by synthesis. Nature Biotechnology. 27: 1013-23. PMID 19898456 DOI: 10.1038/Nbt.1585 |
0.426 |
|
| 2009 |
Sambriski EJ, Schwartz DC, de Pablo JJ. Uncovering pathways in DNA oligonucleotide hybridization via transition state analysis. Proceedings of the National Academy of Sciences of the United States of America. 106: 18125-30. PMID 19815517 DOI: 10.1073/Pnas.0904721106 |
0.403 |
|
| 2009 |
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, ... ... Schwartz DC, et al. Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans. Nature. 461: 393-8. PMID 19741609 DOI: 10.1038/Nature08358 |
0.447 |
|
| 2009 |
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, et al. The genome of Nectria haematococca: contribution of supernumerary chromosomes to gene expansion. Plos Genetics. 5: e1000618. PMID 19714214 DOI: 10.1371/Journal.Pgen.1000618 |
0.373 |
|
| 2009 |
Jo K, Chen YL, de Pablo JJ, Schwartz DC. Elongation and migration of single DNA molecules in microchannels using oscillatory shear flows. Lab On a Chip. 9: 2348-55. PMID 19636466 DOI: 10.1039/B902292A |
0.6 |
|
| 2009 |
Jo K, Schramm TM, Schwartz DC. A single-molecule barcoding system using nanoslits for DNA analysis : nanocoding. Methods in Molecular Biology (Clifton, N.J.). 544: 29-42. PMID 19488691 DOI: 10.1007/978-1-59745-483-4_3 |
0.67 |
|
| 2009 |
Church DM, Goodstadt L, Hillier LW, Zody MC, Goldstein S, She X, Bult CJ, Agarwala R, Cherry JL, DiCuccio M, Hlavina W, Kapustin Y, Meric P, Maglott D, Birtle Z, ... ... Schwartz DC, et al. Lineage-specific biology revealed by a finished genome assembly of the mouse. Plos Biology. 7: e1000112. PMID 19468303 DOI: 10.1371/Journal.Pbio.1000112 |
0.783 |
|
| 2009 |
Sidorova JM, Li N, Schwartz DC, Folch A, Monnat RJ. Microfluidic-assisted analysis of replicating DNA molecules. Nature Protocols. 4: 849-61. PMID 19444242 DOI: 10.1038/Nprot.2009.54 |
0.399 |
|
| 2009 |
Yu H, Jo K, Kounovsky KL, de Pablo JJ, Schwartz DC. Molecular propulsion: chemical sensing and chemotaxis of DNA driven by RNA polymerase. Journal of the American Chemical Society. 131: 5722-3. PMID 19351109 DOI: 10.1021/Ja900372M |
0.616 |
|
| 2009 |
Sambriski EJ, Schwartz DC, de Pablo JJ. A mesoscale model of DNA and its renaturation. Biophysical Journal. 96: 1675-90. PMID 19254530 DOI: 10.1016/J.Bpj.2008.09.061 |
0.354 |
|
| 2009 |
Wu CW, Schramm TM, Zhou S, Schwartz DC, Talaat AM. Optical mapping of the Mycobacterium avium subspecies paratuberculosis genome. Bmc Genomics. 10: 25. PMID 19146697 DOI: 10.1186/1471-2164-10-25 |
0.354 |
|
| 2008 |
Ananiev GE, Goldstein S, Runnheim R, Forrest DK, Zhou S, Potamousis K, Churas CP, Bergendahl V, Thomson JA, Schwartz DC. Optical mapping discerns genome wide DNA methylation profiles. Bmc Molecular Biology. 9: 68. PMID 18667073 DOI: 10.1186/1471-2199-9-68 |
0.786 |
|
| 2008 |
Yu H, Schwartz DC. Imaging and analysis of transcription on large, surface-mounted single template DNA molecules. Analytical Biochemistry. 380: 111-21. PMID 18570883 DOI: 10.1016/J.Ab.2008.05.028 |
0.478 |
|
| 2008 |
Kidd JM, Cooper GM, Donahue WF, Hayden HS, Sampas N, Graves T, Hansen N, Teague B, Alkan C, Antonacci F, Haugen E, Zerr T, Yamada NA, Tsang P, Newman TL, ... ... Schwartz D, et al. Mapping and sequencing of structural variation from eight human genomes. Nature. 453: 56-64. PMID 18451855 DOI: 10.1038/Nature06862 |
0.807 |
|
| 2008 |
Izmitli A, Schwartz DC, Graham MD, de Pablo JJ. The effect of hydrodynamic interactions on the dynamics of DNA translocation through pores. The Journal of Chemical Physics. 128: 085102. PMID 18315085 DOI: 10.1063/1.2831777 |
0.337 |
|
| 2008 |
Zhou S, Pape L, Schwartz DC. Optical Sequencing: Acquisition from Mapped Single-Molecule Templates Next Generation Genome Sequencing: Towards Personalized Medicine. 133-151. DOI: 10.1002/9783527625130.ch11 |
0.316 |
|
| 2007 |
Zhou S, Bechner MC, Place M, Churas CP, Pape L, Leong SA, Runnheim R, Forrest DK, Goldstein S, Livny M, Schwartz DC. Validation of rice genome sequence by optical mapping. Bmc Genomics. 8: 278. PMID 17697381 DOI: 10.1186/1471-2164-8-278 |
0.493 |
|
| 2007 |
Schwartz DC, Felberbaum R, Hochstrasser M. The Ulp2 SUMO protease is required for cell division following termination of the DNA damage checkpoint. Molecular and Cellular Biology. 27: 6948-61. PMID 17664284 DOI: 10.1128/Mcb.00774-07 |
0.312 |
|
| 2007 |
Li H, Valouev A, Schwartz DC, Waterman MS, Li LM. A quantile method for sizing optical maps. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 14: 255-66. PMID 17563310 DOI: 10.1089/Cmb.2006.0006 |
0.421 |
|
| 2007 |
Herschleb J, Ananiev G, Schwartz DC. Pulsed-field gel electrophoresis. Nature Protocols. 2: 677-84. PMID 17406630 DOI: 10.1038/Nprot.2007.94 |
0.771 |
|
| 2007 |
Knotts TA, Rathore N, Schwartz DC, de Pablo JJ. A coarse grain model for DNA. The Journal of Chemical Physics. 126: 084901. PMID 17343470 DOI: 10.1063/1.2431804 |
0.339 |
|
| 2007 |
Jo K, Dhingra DM, Odijk T, de Pablo JJ, Graham MD, Runnheim R, Forrest D, Schwartz DC. A single-molecule barcoding system using nanoslits for DNA analysis. Proceedings of the National Academy of Sciences of the United States of America. 104: 2673-8. PMID 17296933 DOI: 10.1073/Pnas.0611151104 |
0.799 |
|
| 2007 |
Wu T, Schwartz DC. Transchip: single-molecule detection of transcriptional elongation complexes. Analytical Biochemistry. 361: 31-46. PMID 17187751 DOI: 10.1016/J.Ab.2006.10.042 |
0.587 |
|
| 2007 |
Zhou S, Herschleb J, Schwartz DC. Chapter 9 A Single Molecule System for Whole Genome Analysis Perspectives in Bioanalysis. 2: 265-300. DOI: 10.1016/S1871-0069(06)02009-X |
0.831 |
|
| 2006 |
Valouev A, Schwartz DC, Zhou S, Waterman MS. An algorithm for assembly of ordered restriction maps from single DNA molecules. Proceedings of the National Academy of Sciences of the United States of America. 103: 15770-5. PMID 17043225 DOI: 10.1073/Pnas.0604040103 |
0.489 |
|
| 2006 |
Zody MC, Garber M, Adams DJ, Sharpe T, Harrow J, Lupski JR, Nicholson C, Searle SM, Wilming L, Young SK, Abouelleil A, Allen NR, Bi W, Bloom T, Borowsky ML, ... ... Schwartz DC, et al. DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage. Nature. 440: 1045-9. PMID 16625196 DOI: 10.1038/Nature04689 |
0.401 |
|
| 2006 |
Valouev A, Li L, Liu YC, Schwartz DC, Yang Y, Zhang Y, Waterman MS. Alignment of optical maps. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 13: 442-62. PMID 16597251 DOI: 10.1089/Cmb.2006.13.442 |
0.308 |
|
| 2006 |
Valouev A, Zhang Y, Schwartz DC, Waterman MS. Refinement of optical map assemblies. Bioinformatics (Oxford, England). 22: 1217-24. PMID 16500933 DOI: 10.1093/Bioinformatics/Btl063 |
0.492 |
|
| 2005 |
Chen YL, Graham MD, de Pablo JJ, Jo K, Schwartz DC. DNA Molecules in Microfluidic Oscillatory Flow. Macromolecules. 38: 6680-6687. PMID 19057656 DOI: 10.1021/Ma050238D |
0.533 |
|
| 2005 |
Reslewic S, Zhou S, Place M, Zhang Y, Briska A, Goldstein S, Churas C, Runnheim R, Forrest D, Lim A, Lapidus A, Han CS, Roberts GP, Schwartz DC. Whole-genome shotgun optical mapping of Rhodospirillum rubrum. Applied and Environmental Microbiology. 71: 5511-22. PMID 16151144 DOI: 10.1128/Aem.71.9.5511-5522.2005 |
0.818 |
|
| 2005 |
Ivens AC, Peacock CS, Worthey EA, Murphy L, Aggarwal G, Berriman M, Sisk E, Rajandream MA, Adlem E, Aert R, Anupama A, Apostolou Z, Attipoe P, Bason N, Bauser C, ... ... Schwartz DC, et al. The genome of the kinetoplastid parasite, Leishmania major. Science (New York, N.Y.). 309: 436-42. PMID 16020728 DOI: 10.1126/Science.1112680 |
0.387 |
|
| 2005 |
Ramanathan A, Pape L, Schwartz DC. High-density polymerase-mediated incorporation of fluorochrome-labeled nucleotides. Analytical Biochemistry. 337: 1-11. PMID 15649370 DOI: 10.1016/J.Ab.2004.09.043 |
0.365 |
|
| 2005 |
Reslewic S, Herschleb J, Schwartz DC. Looking at whole genomes one molecule at a time American Biotechnology Laboratory. 23: 26-29. |
0.808 |
|
| 2004 |
Zhou S, Kile A, Bechner M, Place M, Kvikstad E, Deng W, Wei J, Severin J, Runnheim R, Churas C, Forrest D, Dimalanta ET, Lamers C, Burland V, Blattner FR, ... Schwartz DC, et al. Single-molecule approach to bacterial genomic comparisons via optical mapping. Journal of Bacteriology. 186: 7773-82. PMID 15516592 DOI: 10.1128/Jb.186.22.7773-7782.2004 |
0.796 |
|
| 2004 |
Zhou S, Kile A, Kvikstad E, Bechner M, Severin J, Forrest D, Runnheim R, Churas C, Anantharaman TS, Myler P, Vogt C, Ivens A, Stuart K, Schwartz DC. Shotgun optical mapping of the entire Leishmania major Friedlin genome. Molecular and Biochemical Parasitology. 138: 97-106. PMID 15500921 DOI: 10.1016/J.Molbiopara.2004.08.002 |
0.479 |
|
| 2004 |
Armbrust EV, Berges JA, Bowler C, Green BR, Martinez D, Putnam NH, Zhou S, Allen AE, Apt KE, Bechner M, Brzezinski MA, Chaal BK, Chiovitti A, Davis AK, Demarest MS, ... ... Schwartz DC, et al. The genome of the diatom Thalassiosira pseudonana: ecology, evolution, and metabolism. Science (New York, N.Y.). 306: 79-86. PMID 15459382 DOI: 10.1126/Science.1101156 |
0.449 |
|
| 2004 |
Dimalanta ET, Lim A, Runnheim R, Lamers C, Churas C, Forrest DK, de Pablo JJ, Graham MD, Coppersmith SN, Goldstein S, Schwartz DC. A microfluidic system for large DNA molecule arrays. Analytical Chemistry. 76: 5293-301. PMID 15362885 DOI: 10.1021/Ac0496401 |
0.769 |
|
| 2004 |
Ramanathan A, Huff EJ, Lamers CC, Potamousis KD, Forrest DK, Schwartz DC. An integrative approach for the optical sequencing of single DNA molecules. Analytical Biochemistry. 330: 227-41. PMID 15203328 DOI: 10.1016/J.Ab.2004.03.029 |
0.41 |
|
| 2004 |
Zhou S, Schwartz DC. The optical mapping of microbial genomes Asm News. 70: 323-330. |
0.336 |
|
| 2003 |
Zhou S, Kvikstad E, Kile A, Severin J, Forrest D, Runnheim R, Churas C, Hickman JW, Mackenzie C, Choudhary M, Donohue T, Kaplan S, Schwartz DC. Whole-genome shotgun optical mapping of Rhodobacter sphaeroides strain 2.4.1 and its use for whole-genome shotgun sequence assembly. Genome Research. 13: 2142-51. PMID 12952882 DOI: 10.1101/Gr.1128803 |
0.517 |
|
| 2003 |
Jendrejack RM, Dimalanta ET, Schwartz DC, Graham MD, de Pablo JJ. DNA dynamics in a microchannel. Physical Review Letters. 91: 038102. PMID 12906459 DOI: 10.1103/Physrevlett.91.038102 |
0.728 |
|
| 2003 |
Wei J, Goldberg MB, Burland V, Venkatesan MM, Deng W, Fournier G, Mayhew GF, Plunkett G, Rose DJ, Darling A, Mau B, Perna NT, Payne SM, Runyen-Janecky LJ, Zhou S, ... Schwartz DC, et al. Complete genome sequence and comparative genomics of Shigella flexneri serotype 2a strain 2457T. Infection and Immunity. 71: 2775-86. PMID 12704152 DOI: 10.1128/Iai.71.5.2775-2786.2003 |
0.45 |
|
| 2003 |
Deng W, Liou SR, Plunkett G, Mayhew GF, Rose DJ, Burland V, Kodoyianni V, Schwartz DC, Blattner FR. Comparative genomics of Salmonella enterica serovar Typhi strains Ty2 and CT18. Journal of Bacteriology. 185: 2330-7. PMID 12644504 DOI: 10.1128/Jb.185.7.2330-2337.2003 |
0.375 |
|
| 2003 |
Wei J, Goldberg MB, Burland V, Venkatesan MM, Deng W, Fournier G, Mayhew GF, Plunkett G, Rose DJ, Darling A, Mau B, Perna NT, Payne SM, Runyen-Janecky LJ, Zhou S, ... Schwartz DC, et al. Complete Genome Sequence and Comparative Genomics of Shigella flexneri Serotype 2a Strain 2457T Infection and Immunity. 71: 4223-4223. DOI: 10.1128/Iai.71.7.4223.2003 |
0.431 |
|
| 2002 |
Welch RA, Burland V, Plunkett G, Redford P, Roesch P, Rasko D, Buckles EL, Liou SR, Boutin A, Hackett J, Stroud D, Mayhew GF, Rose DJ, Zhou S, Schwartz DC, et al. Extensive mosaic structure revealed by the complete genome sequence of uropathogenic Escherichia coli. Proceedings of the National Academy of Sciences of the United States of America. 99: 17020-4. PMID 12471157 DOI: 10.1073/Pnas.252529799 |
0.389 |
|
| 2002 |
Zhou S, Deng W, Anantharaman TS, Lim A, Dimalanta ET, Wang J, Wu T, Chunhong T, Creighton R, Kile A, Kvikstad E, Bechner M, Yen G, Garic-Stankovic A, Severin J, ... ... Schwartz DC, et al. A whole-genome shotgun optical map of Yersinia pestis strain KIM. Applied and Environmental Microbiology. 68: 6321-31. PMID 12450857 DOI: 10.1128/Aem.68.12.6321-6331.2002 |
0.807 |
|
| 2002 |
Deng W, Burland V, Plunkett G, Boutin A, Mayhew GF, Liss P, Perna NT, Rose DJ, Mau B, Zhou S, Schwartz DC, Fetherston JD, Lindler LE, Brubaker RR, Plano GV, et al. Genome sequence of Yersinia pestis KIM. Journal of Bacteriology. 184: 4601-11. PMID 12142430 DOI: 10.1128/Jb.184.16.4601-4611.2002 |
0.472 |
|
| 2001 |
Lim A, Dimalanta ET, Potamousis KD, Yen G, Apodoca J, Tao C, Lin J, Qi R, Skiadas J, Ramanathan A, Perna NT, Plunkett G, Burland V, Mau B, Hackett J, ... ... Schwartz DC, et al. Shotgun optical maps of the whole Escherichia coli O157:H7 genome. Genome Research. 11: 1584-93. PMID 11544203 DOI: 10.1101/Gr.172101 |
0.795 |
|
| 2001 |
Perna NT, Plunkett G, Burland V, Mau B, Glasner JD, Rose DJ, Mayhew GF, Evans PS, Gregor J, Kirkpatrick HA, Pósfai G, Hackett J, Klink S, Boutin A, Shao Y, ... ... Schwartz DC, et al. Genome sequence of enterohaemorrhagic Escherichia coli O157:H7. Nature. 409: 529-33. PMID 11206551 DOI: 10.1038/35054089 |
0.739 |
|
| 2001 |
Perna NT, Plunkett G, Burland V, Mau B, Glasner JD, Rose DJ, Mayhew GF, Evans PS, Gregor J, Kirkpatrick HA, Pósfai G, Hackett J, Klink S, Boutin A, Shao Y, ... ... Schwartz DC, et al. erratum Genome sequence of enterohaemorrhagic Escherichia coli 0157:H7 Nature. 410: 240-240. DOI: 10.1038/35065664 |
0.775 |
|
| 2000 |
Giacalone J, Delobette S, Gibaja V, Ni L, Skiadas Y, Qi R, Edington J, Lai Z, Gebauer D, Zhao H, Anantharaman T, Mishra B, Brown LG, Saxena R, Page DC, ... Schwartz DC, et al. Optical mapping of BAC clones from the human Y chromosome DAZ locus. Genome Research. 10: 1421-9. PMID 10984460 DOI: 10.1101/Gr.112100 |
0.444 |
|
| 1999 |
Lai Z, Jing J, Aston C, Clarke V, Apodaca J, Dimalanta ET, Carucci DJ, Gardner MJ, Mishra B, Anantharaman TS, Paxia S, Hoffman SL, Craig Venter J, Huff EJ, Schwartz DC. A shotgun optical map of the entire Plasmodium falciparum genome. Nature Genetics. 23: 309-13. PMID 10610179 DOI: 10.1038/15484 |
0.814 |
|
| 1999 |
Skiadas J, Aston C, Samad A, Anantharaman TS, Mishra B, Schwartz DC. Optical PCR: genomic analysis by long-range PCR and optical mapping. Mammalian Genome : Official Journal of the International Mammalian Genome Society. 10: 1005-9. PMID 10501971 DOI: 10.1007/S003359901148 |
0.484 |
|
| 1999 |
Lin J, Qi R, Aston C, Jing J, Anantharaman TS, Mishra B, White O, Daly MJ, Minton KW, Venter JC, Schwartz DC. Whole-genome shotgun optical mapping of Deinococcus radiodurans. Science (New York, N.Y.). 285: 1558-62. PMID 10477518 DOI: 10.1126/Science.285.5433.1558 |
0.482 |
|
| 1999 |
Aston C, Mishra B, Schwartz DC. Optical mapping and its potential for large-scale sequencing projects. Trends in Biotechnology. 17: 297-302. PMID 10370237 DOI: 10.1016/S0167-7799(99)01326-8 |
0.465 |
|
| 1999 |
Aston C, Hiort C, Schwartz DC. Optical mapping: an approach for fine mapping. Methods in Enzymology. 303: 55-73. PMID 10349638 DOI: 10.1016/S0076-6879(99)03006-2 |
0.467 |
|
| 1999 |
Kantor RM, Guo XH, Huff EJ, Schwartz DC. Dynamics of DNA molecules in gel studied by fluorescence microscopy. Biochemical and Biophysical Research Communications. 258: 102-8. PMID 10222242 DOI: 10.1006/Bbrc.1999.0592 |
0.382 |
|
| 1999 |
Jing J, Lai Z, Aston C, Lin J, Carucci DJ, Gardner MJ, Mishra B, Anantharaman TS, Tettelin H, Cummings LM, Hoffman SL, Venter JC, Schwartz DC. Optical mapping of Plasmodium falciparum chromosome 2. Genome Research. 9: 175-81. PMID 10022982 DOI: 10.1101/Gr.9.2.175 |
0.505 |
|
| 1999 |
Hu X, Aston C, Schwartz DC. Optical mapping of DNA polymerase I action and products. Biochemical and Biophysical Research Communications. 254: 466-73. PMID 9918862 DOI: 10.1006/Bbrc.1998.9971 |
0.409 |
|
| 1998 |
Gardner MJ, Tettelin H, Carucci DJ, Cummings LM, Aravind L, Koonin EV, Shallom S, Mason T, Yu K, Fujii C, Pederson J, Shen K, Jing J, Aston C, Lai Z, ... Schwartz DC, et al. Chromosome 2 sequence of the human malaria parasite Plasmodium falciparum. Science (New York, N.Y.). 282: 1126-32. PMID 9804551 DOI: 10.1126/Science.282.5391.1126 |
0.418 |
|
| 1998 |
Jing J, Reed J, Huang J, Hu X, Clarke V, Edington J, Housman D, Anantharaman TS, Huff EJ, Mishra B, Porter B, Shenker A, Wolfson E, Hiort C, Kantor R, ... ... Schwartz DC, et al. Automated high resolution optical mapping using arrayed, fluid-fixed DNA molecules. Proceedings of the National Academy of Sciences of the United States of America. 95: 8046-51. PMID 9653137 DOI: 10.1073/Pnas.95.14.8046 |
0.451 |
|
| 1998 |
Wang W, Lin J, Schwartz DC. Scanning force microscopy of DNA molecules elongated by convective fluid flow in an evaporating droplet. Biophysical Journal. 75: 513-20. PMID 9649413 DOI: 10.1016/S0006-3495(98)77540-X |
0.42 |
|
| 1998 |
Reed J, Singer E, Kresbach G, Schwartz DC. A quantitative study of optical mapping surfaces by atomic force microscopy and restriction endonuclease digestion assays. Analytical Biochemistry. 259: 80-8. PMID 9606147 DOI: 10.1006/Abio.1998.2640 |
0.388 |
|
| 1998 |
Philipp WJ, Schwartz DC, Telenti A, Cole ST. Mycobacterial genome structure. Electrophoresis. 19: 573-6. PMID 9588804 DOI: 10.1002/Elps.1150190418 |
0.396 |
|
| 1998 |
Cai W, Jing J, Irvin B, Ohler L, Rose E, Shizuya H, Kim UJ, Simon M, Anantharaman T, Mishra B, Schwartz DC. High-resolution restriction maps of bacterial artificial chromosomes constructed by optical mapping. Proceedings of the National Academy of Sciences of the United States of America. 95: 3390-5. PMID 9520376 DOI: 10.1073/Pnas.95.7.3390 |
0.443 |
|
| 1998 |
Schwartz DC, Anantharaman T, Aston C, Mishra B, Clarke V, Gebauer D, Delobette S, Dimalanta E, Edington J, Evenzehav A, Giacalone J, Hiort C, Huff E, Jing J, Lail Z. New approaches to genomic analysis using single molecules Proceedings of the Annual International Conference On Computational Molecular Biology, Recomb. 248-250. |
0.769 |
|
| 1997 |
Schwartz DC, Samad A. Optical mapping approaches to molecular genomics. Current Opinion in Biotechnology. 8: 70-4. PMID 9013651 DOI: 10.1016/S0958-1669(97)80160-7 |
0.481 |
|
| 1996 |
Morozov VN, Morozova TY, Hiort C, Schwartz DC. New polyacrylamide gel-based methods of sample preparation for optical microscopy: immobilization of DNA molecules for optical mapping. Journal of Microscopy. 183: 205-14. PMID 8858858 DOI: 10.1046/J.1365-2818.1996.940652.X |
0.335 |
|
| 1996 |
Meng X, Cai W, Schwartz DC. Inhibition of restriction endonuclease activity by DNA binding fluorochromes. Journal of Biomolecular Structure & Dynamics. 13: 945-51. PMID 8832377 DOI: 10.1080/07391102.1996.10508909 |
0.324 |
|
| 1995 |
Samad A, Huff EF, Cai W, Schwartz DC. Optical mapping: a novel, single-molecule approach to genomic analysis. Genome Research. 5: 1-4. PMID 8717049 DOI: 10.1101/Gr.5.1.1 |
0.533 |
|
| 1995 |
Wang YK, Huff EJ, Schwartz DC. Optical mapping of site-directed cleavages on single DNA molecules by the RecA-assisted restriction endonuclease technique. Proceedings of the National Academy of Sciences of the United States of America. 92: 165-9. PMID 7816810 DOI: 10.1073/Pnas.92.1.165 |
0.421 |
|
| 1995 |
Meng X, Benson K, Chada K, Huff EJ, Schwartz DC. Optical mapping of lambda bacteriophage clones using restriction endonucleases. Nature Genetics. 9: 432-8. PMID 7795651 DOI: 10.1038/Ng0495-432 |
0.381 |
|
| 1995 |
Cai W, Aburatani H, Stanton VP, Housman DE, Wang YK, Schwartz DC. Ordered restriction endonuclease maps of yeast artificial chromosomes created by optical mapping on surfaces. Proceedings of the National Academy of Sciences of the United States of America. 92: 5164-8. PMID 7761468 DOI: 10.1073/Pnas.92.11.5164 |
0.428 |
|
| 1993 |
Wang Yk, Schwartz DC. Chopped inserts: A convenient alternative to agarose/DNA inserts or beads Nucleic Acids Research. 21: 2528. PMID 8506154 DOI: 10.1093/Nar/21.10.2528 |
0.347 |
|
| 1993 |
Guo XH, Huff EJ, Schwartz DC. Sizing of large dna molecules by hook formation in a loose matrix Journal of Biomolecular Structure and Dynamics. 11: 01-10. PMID 8216938 DOI: 10.1080/07391102.1993.10508705 |
0.394 |
|
| 1992 |
Guo XH, Huff EJ, Schwartz DC. Sizing single DNA molecules. Nature. 359: 783-4. PMID 1436055 DOI: 10.1038/359783A0 |
0.368 |
|
| 1991 |
Arn PH, Li X, Smith C, Hsu M, Schwartz DC, Jabs EW. Analysis of DNA restriction fragments greater than 5.7 Mb in size from the centromeric region of human chromosomes Mammalian Genome. 1: 249-254. PMID 1665375 DOI: 10.1007/Bf00352332 |
0.432 |
|
| 1990 |
Gabriel A, Yen TJ, Schwartz DC, Smith CL, Boeke JD, Sollner-Webb B, Cleveland DW. A rapidly rearranging retrotransposon within the miniexon gene locus of Crithidia fasciculata. Molecular and Cellular Biology. 10: 615-24. PMID 2153919 DOI: 10.1128/mcb.10.2.615-624.1990 |
0.304 |
|
| 1989 |
Schwartz DC, Koval M. Conformational dynamics of individual DNA molecules during gel electrophoresis Nature. 338: 520-522. PMID 2927511 DOI: 10.1038/338520A0 |
0.365 |
|
| 1984 |
Schwartz DC, Cantor CR. Separation of yeast chromosome-sized DNAs by pulsed field gradient gel electrophoresis. Cell. 37: 67-75. PMID 6373014 DOI: 10.1016/0092-8674(84)90301-5 |
0.557 |
|
| 1984 |
Van der Ploeg LH, Schwartz DC, Cantor CR, Borst P. Antigenic variation in Trypanosoma brucei analyzed by electrophoretic separation of chromosome-sized DNA molecules. Cell. 37: 77-84. PMID 6202420 DOI: 10.1016/0092-8674(84)90302-7 |
0.559 |
|
| 1983 |
Schwartz DC, Saffran W, Welsh J, Haas R, Goldenberg M, Cantor CR. New techniques for purifying large DNAs and studying their properties and packaging. Cold Spring Harbor Symposia On Quantitative Biology. 47: 189-95. PMID 6222863 DOI: 10.1101/Sqb.1983.047.01.024 |
0.504 |
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