G
Geoffrey B. Nilsen
Researcher at International Computer Science Institute
Publications - 11
Citations - 4005
Geoffrey B. Nilsen is an academic researcher from International Computer Science Institute. The author has contributed to research in topics: Human genome & Haplotype. The author has an hindex of 11, co-authored 11 publications receiving 3817 citations. Previous affiliations of Geoffrey B. Nilsen include University of California, San Diego.
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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
Whole-Genome Patterns of Common DNA Variation in Three Human Populations
David A. Hinds,David A. Hinds,Laura L. Stuve,Laura L. Stuve,Geoffrey B. Nilsen,Geoffrey B. Nilsen,Eran Halperin,Eran Halperin,Eleazar Eskin,Eleazar Eskin,Dennis G. Ballinger,Dennis G. Ballinger,Kelly A. Frazer,Kelly A. Frazer,David R. Cox,David R. Cox +15 more
TL;DR: This work has characterized whole-genome patterns of common human DNA variation by genotyping 1,586,383 single-nucleotide polymorphisms (SNPs) in 71 Americans of European, African, and Asian ancestry and indicates that these SNPs capture most common genetic variation as a result of linkage disequilibrium.
Journal ArticleDOI
A sequence-based variation map of 8.27 million SNPs in inbred mouse strains
Kelly A. Frazer,Eleazar Eskin,Hyun Min Kang,Molly A. Bogue,David A. Hinds,Erica Beilharz,Robert V. Gupta,Julie Montgomery,Matt Morenzoni,Geoffrey B. Nilsen,Charit L. Pethiyagoda,Laura L. Stuve,F. M. Johnson,Mark J. Daly,Mark J. Daly,Claire M. Wade,Claire M. Wade,David Cox +17 more
TL;DR: A dense map of genetic variation in the laboratory mouse genome will provide insights into the evolutionary history of the species and lead to an improved understanding of the relationship between inter-strain genotypic and phenotypic differences.
Journal ArticleDOI
Accurate whole-genome sequencing and haplotyping from 10 to 20 human cells.
Brock A. Peters,Bahram Ghaffarzadeh Kermani,Andrew B. Sparks,Oleg Alferov,Peter Hong,Andrei Alexeev,Yuan Jiang,Fredrik A. Dahl,Y. Tom Tang,Juergen Haas,Kimberly Robasky,Kimberly Robasky,Alexander Wait Zaranek,Je-Hyuk Lee,Je-Hyuk Lee,Madeleine Ball,Joseph E. Peterson,Helena Perazich,George Yeung,Jia Liu,Linsu Chen,Michael I. Kennemer,Kaliprasad Pothuraju,Karel Konvicka,Mike Tsoupko-Sitnikov,Krishna Pant,Jessica Ebert,Geoffrey B. Nilsen,Jonathan Baccash,Aaron L. Halpern,George M. Church,Radoje Drmanac +31 more
TL;DR: A low-cost DNA sequencing and haplotyping process, long fragment read (LFR) technology, which is similar to sequencing long single DNA molecules without cloning or separation of metaphase chromosomes is described.
Journal ArticleDOI
A public resource facilitating clinical use of genomes
Madeleine Ball,Joseph V. Thakuria,Alexander Wait Zaranek,Tom Clegg,Abraham M. Rosenbaum,Xiaodi Wu,Misha Angrist,Jong Bhak,Jason Bobe,Matthew J. Callow,Carlos Cano,Michael F. Chou,Wendy K. Chung,Shawn M. Douglas,Preston W. Estep,Athurva Gore,Peter J. Hulick,Alberto Labarga,Je-Hyuk Lee,Jeantine E. Lunshof,Byung Chul Kim,Jong Il Kim,Zhe Li,Michael F. Murray,Geoffrey B. Nilsen,Brock A. Peters,Anugraha M. Raman,Hugh Y. Rienhoff,Kimberly Robasky,Matthew T. Wheeler,Ward Vandewege,Daniel B. Vorhaus,Joyce L. Yang,Luhan Yang,John Aach,Euan A. Ashley,Radoje Drmanac,Seong-Jin Kim,Jin Billy Li,Leonid Peshkin,Christine E. Seidman,Jeong-Sun Seo,Kun Zhang,Heidi L. Rehm,George M. Church +44 more
TL;DR: A peer production system for recording and organizing variant evaluations according to standard evidence guidelines is developed, creating a public forum for reaching consensus on interpretation of clinically relevant variants.