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Anushka Brownley
Researcher at J. Craig Venter Institute
Publications - 6
Citations - 3140
Anushka Brownley is an academic researcher from J. Craig Venter Institute. The author has contributed to research in topics: Genome & In silico PCR. The author has an hindex of 6, co-authored 6 publications receiving 2908 citations. Previous affiliations of Anushka Brownley include University of Maryland, College Park.
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Journal ArticleDOI
Human Genome Sequencing Using Unchained Base Reads on Self-Assembling DNA Nanoarrays
Radoje Drmanac,Andrew B. Sparks,Matthew J. Callow,Aaron L. Halpern,Norman L. Burns,Bahram G. Kermani,Paolo Carnevali,Igor Nazarenko,Geoffrey B. Nilsen,George Yeung,Fredrik A. Dahl,Andres Fernandez,Bryan Staker,Krishna Pant,Jonathan Baccash,Adam P. Borcherding,Anushka Brownley,Ryan J. Cedeno,Linsu Chen,Daniel F. Chernikoff,Alex Cheung,Razvan Chirita,Benjamin Curson,Jessica Ebert,Coleen R. Hacker,Robert Hartlage,Brian Hauser,Steve Huang,Yuan Jiang,Vitali Karpinchyk,Mark Koenig,Calvin Kong,Tom Landers,Catherine Le,Jia Liu,Celeste E. McBride,Matt Morenzoni,Robert E. Morey,Karl Mutch,Helena Perazich,Kimberly Perry,Brock A. Peters,Joe Peterson,Charit L. Pethiyagoda,Kaliprasad Pothuraju,Claudia Richter,Abraham M. Rosenbaum,Shaunak Roy,Jay Shafto,Uladzislau Sharanhovich,Karen W. Shannon,Conrad G. Sheppy,Michel Sun,Joseph V. Thakuria,Anne Tran,Dylan Vu,Alexander Wait Zaranek,Xiaodi Wu,Snezana Drmanac,Arnold R. Oliphant,William C. Banyai,Bruce L. Martin,Dennis G. Ballinger,George M. Church,Clifford Reid +64 more
TL;DR: A genome sequencing platform that achieves efficient imaging and low reagent consumption with combinatorial probe anchor ligation chemistry to independently assay each base from patterned nanoarrays of self-assembling DNA nanoballs is described.
Journal ArticleDOI
Complete chemical synthesis, assembly, and cloning of a Mycoplasma genitalium genome.
Daniel G. Gibson,Gwynedd A. Benders,Cynthia Andrews-Pfannkoch,Evgeniya A. Denisova,Holly Baden-Tillson,Jayshree Zaveri,Timothy B. Stockwell,Anushka Brownley,David W. Thomas,Mikkel A. Algire,Chuck Merryman,Lei Young,Vladimir N. Noskov,John I. Glass,J. Craig Venter,Clyde A. Hutchison,Hamilton O. Smith +16 more
TL;DR: The methods described here will be generally useful for constructing large DNA molecules from chemically synthesized pieces and also from combinations of natural and synthetic DNA segments.
Journal ArticleDOI
Aggressive assembly of pyrosequencing reads with mates
Jason R. Miller,Arthur L. Delcher,Sergey Koren,Eli Venter,Brian P. Walenz,Anushka Brownley,Justin Johnson,Kelvin Li,Clark M. Mobarry,Granger G. Sutton +9 more
TL;DR: The revised pipeline called CABOG (Celera Assembler with the Best Overlap Graph) is robust to homopolymer run length uncertainty, high read coverage and heterogeneous read lengths, and in tests on four genomes, it generated the longest contigs among all assemblers tested.
Journal ArticleDOI
Novel computational methods for increasing PCR primer design effectiveness in directed sequencing
Kelvin Li,Anushka Brownley,Timothy B. Stockwell,Karen Beeson,Tina C McIntosh,Dana A. Busam,Steve Ferriera,Sean D. Murphy,Samuel Levy +8 more
TL;DR: A fully integrated computational PCR primer design pipeline is developed that plays a key role in the authors' high-throughput directed sequencing pipeline and novel and accurate computational methods capable of identifying primers that may lead to PCR failures are discovered.
Journal ArticleDOI
Automated degenerate PCR primer design for high-throughput sequencing improves efficiency of viral sequencing.
Kelvin Li,Susmita Shrivastava,Anushka Brownley,Dan A. Katzel,Jayati Bera,Anh Thu Nguyen,Vishal Thovarai,Rebecca A. Halpin,Timothy B. Stockwell +8 more
TL;DR: A fully automated degenerate PCR primer design system is developed that plays a key role in the J. Craig Venter Institute’s (JCVI) high-throughput viral sequencing pipeline and achieves similarly high sequencing success rates with only minor software modifications.