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Dawn Thompson
Researcher at Massachusetts Institute of Technology
Publications - 15
Citations - 17853
Dawn Thompson is an academic researcher from Massachusetts Institute of Technology. The author has contributed to research in topics: Genome & Regulation of gene expression. The author has an hindex of 10, co-authored 14 publications receiving 14621 citations. Previous affiliations of Dawn Thompson include Harvard University.
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Journal ArticleDOI
Full-length transcriptome assembly from RNA-Seq data without a reference genome.
Manfred Grabherr,Brian J. Haas,Moran Yassour,Moran Yassour,Joshua Z. Levin,Dawn Thompson,Ido Amit,Xian Adiconis,Lin Fan,Raktima Raychowdhury,Qiandong Zeng,Zehua Chen,Evan Mauceli,Nir Hacohen,Andreas Gnirke,Nicholas Rhind,Federica Di Palma,Bruce W. Birren,Chad Nusbaum,Kerstin Lindblad-Toh,Kerstin Lindblad-Toh,Nir Friedman,Aviv Regev +22 more
TL;DR: The Trinity method for de novo assembly of full-length transcripts and evaluate it on samples from fission yeast, mouse and whitefly, whose reference genome is not yet available, providing a unified solution for transcriptome reconstruction in any sample.
Journal ArticleDOI
Comprehensive comparative analysis of strand-specific RNA sequencing methods
Joshua Z. Levin,Moran Yassour,Moran Yassour,Xian Adiconis,Chad Nusbaum,Dawn Thompson,Nir Friedman,Andreas Gnirke,Aviv Regev +8 more
TL;DR: In this paper, the authors developed a comprehensive computational pipeline to compare library quality metrics from any RNA-seq method, using the well-annotated Saccharomyces cerevisiae transcriptome as a benchmark.
Comprehensive comparative analysis of strand-specific RNA sequencing methods
Joshua Z. Levin,Moran Yassour,Moran Yassour,Xian Adiconis,Chad Nusbaum,Dawn Thompson,Nir Friedman,Andreas Gnirke,Aviv Regev +8 more
TL;DR: A comprehensive computational pipeline is developed to compare library quality metrics from any RNA-seq method and identified the dUTP second-strand marking and the Illumina RNA ligation methods as the leading protocols, with the former benefitting from the current availability of paired-end sequencing.
Journal ArticleDOI
Comparative functional genomics of the fission yeasts
Nicholas Rhind,Zehua Chen,Moran Yassour,Moran Yassour,Dawn Thompson,Brian J. Haas,Naomi Habib,Ilan Wapinski,Ilan Wapinski,Sushmita Roy,Michael F. Lin,David I. Heiman,Sarah Young,Kanji Furuya,Yabin Guo,Alison L. Pidoux,Huei Mei Chen,Barbara Robbertse,Jonathan M. Goldberg,Keita Aoki,Elizabeth H. Bayne,Aaron M. Berlin,Christopher A. Desjardins,Edward Dobbs,Livio Dukaj,Lin Fan,Michael Fitzgerald,Courtney French,Sharvari Gujja,Klavs R. Hansen,Daniel Keifenheim,Joshua Z. Levin,Rebecca A. Mosher,Carolin A. Müller,Jenna Pfiffner,Margaret Priest,Carsten Russ,Agata Smialowska,Agata Smialowska,Peter Swoboda,Sean M. Sykes,Matthew W. Vaughn,Sonya Vengrova,Ryan J. Yoder,Qiandong Zeng,Robin C. Allshire,David C. Baulcombe,Bruce W. Birren,William Brown,Karl Ekwall,Karl Ekwall,Manolis Kellis,Janet Leatherwood,Henry L. Levin,Hanah Margalit,Robert A. Martienssen,Conrad A. Nieduszynski,Joseph W. Spatafora,Nir Friedman,Jacob Z. Dalgaard,Peter Baumann,Peter Baumann,Peter Baumann,Hironori Niki,Aviv Regev,Aviv Regev,Chad Nusbaum +66 more
TL;DR: Differences in gene content and regulation explain why, unlike the budding yeast of Saccharomycotina, fission yeasts cannot use ethanol as a primary carbon source and provide tools for investigation across the Schizosaccharomyces clade.
Journal ArticleDOI
Ploidy Controls the Success of Mutators and Nature of Mutations during Budding Yeast Evolution
TL;DR: It is concluded that the advantage of mutators depends on ploidy and that diploid mutators can give rise to beneficial mutations that are inaccessible to nonmutators and haploidmutators.