B
Brian D. Eads
Researcher at Indiana University
Publications - 21
Citations - 4716
Brian D. Eads is an academic researcher from Indiana University. The author has contributed to research in topics: Gene & Daphnia pulex. The author has an hindex of 17, co-authored 21 publications receiving 4218 citations. Previous affiliations of Brian D. Eads include University of Wisconsin-Madison & Mount Desert Island Biological Laboratory.
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Journal ArticleDOI
The developmental transcriptome of Drosophila melanogaster
Brenton R. Graveley,Angela N. Brooks,Joseph W. Carlson,Michael O. Duff,Jane M. Landolin,Li Yang,Carlo G. Artieri,Marijke J. van Baren,Nathan Boley,Benjamin W. Booth,James B. Brown,Lucy Cherbas,Carrie A. Davis,Alexander Dobin,Renhua Li,Wei Lin,John H. Malone,Nicolas R. Mattiuzzo,David Scott Miller,David Sturgill,Brian B. Tuch,Brian B. Tuch,Chris Zaleski,Dayu Zhang,Marco Blanchette,Marco Blanchette,Sandrine Dudoit,Brian D. Eads,Richard E. Green,Ann S. Hammonds,Lichun Jiang,Phil Kapranov,Laura Langton,Norbert Perrimon,Jeremy E. Sandler,Kenneth H. Wan,Aarron T. Willingham,Yu Zhang,Yi Zou,Justen Andrews,Peter J. Bickel,Steven E. Brenner,Michael R. Brent,Peter Cherbas,Thomas R. Gingeras,Thomas R. Gingeras,Roger A. Hoskins,Thomas C. Kaufman,Brian Oliver,Susan E. Celniker +49 more
TL;DR: 111,195 new elements are identified, including thousands of genes, coding and non-coding transcripts, exons, splicing and editing events and inferred protein isoforms that previously eluded discovery using established experimental, prediction and conservation-based approaches.
Journal ArticleDOI
The ecoresponsive genome of Daphnia pulex
John K. Colbourne,Michael E. Pfrender,Michael E. Pfrender,Donald L. Gilbert,W. Kelley Thomas,Abraham E. Tucker,Abraham E. Tucker,Todd H. Oakley,Shin-ichi Tokishita,Andrea Aerts,Georg J. Arnold,Malay Kumar Basu,Malay Kumar Basu,Darren J Bauer,Carla E. Cáceres,Liran Carmel,Liran Carmel,Claudio Casola,Jeong Hyeon Choi,John C. Detter,Qunfeng Dong,Qunfeng Dong,Serge Dusheyko,Brian D. Eads,Thomas Fröhlich,Kerry Geiler-Samerotte,Kerry Geiler-Samerotte,Daniel Gerlach,Daniel Gerlach,Phil Hatcher,Sanjuro Jogdeo,Sanjuro Jogdeo,Jeroen Krijgsveld,Evgenia V. Kriventseva,Dietmar Kültz,Christian Laforsch,Erika Lindquist,Jacqueline Lopez,J. Robert Manak,J. Robert Manak,Jean Muller,Jasmyn Pangilinan,Rupali P Patwardhan,Rupali P Patwardhan,Samuel Pitluck,Ellen J. Pritham,Andreas Rechtsteiner,Andreas Rechtsteiner,Mina Rho,Igor B. Rogozin,Onur Sakarya,Onur Sakarya,Asaf Salamov,Sarah Schaack,Sarah Schaack,Harris Shapiro,Yasuhiro Shiga,Courtney Skalitzky,Zachary Smith,Alexander Souvorov,Way Sung,Zuojian Tang,Zuojian Tang,Dai Tsuchiya,Hank Tu,Hank Tu,Harmjan R. Vos,Mei Wang,Yuri I. Wolf,Hideo Yamagata,Takuji Yamada,Yuzhen Ye,Joseph R. Shaw,Justen Andrews,Teresa J. Crease,Haixu Tang,Susan Lucas,Hugh M. Robertson,Peer Bork,Eugene V. Koonin,Evgeny M. Zdobnov,Evgeny M. Zdobnov,Igor V. Grigoriev,Michael Lynch,Jeffrey L. Boore,Jeffrey L. Boore +85 more
TL;DR: The Daphnia genome reveals a multitude of genes and shows adaptation through gene family expansions, and the coexpansion of gene families interacting within metabolic pathways suggests that the maintenance of duplicated genes is not random.
Journal ArticleDOI
Diversity and dynamics of the Drosophila transcriptome
James B. Brown,James B. Brown,Nathan Boley,Robert C. Eisman,Gemma E. May,Marcus H. Stoiber,Michael O. Duff,Ben W. Booth,Jiayu Wen,Soo Park,Ana Maria Suzuki,Kenneth H. Wan,Charles Yu,Dayu Zhang,Joseph W. Carlson,Lucy Cherbas,Brian D. Eads,David C. Miller,Keithanne Mockaitis,Johnny Roberts,Carrie A. Davis,Erwin Frise,Ann S. Hammonds,Sara Olson,Solomon Shenker,David Sturgill,Anastasia Samsonova,Anastasia Samsonova,Richard Weiszmann,Garret Robinson,Juan Hernandez,Justen Andrews,Peter J. Bickel,Piero Carninci,Peter Cherbas,Thomas R. Gingeras,Roger A. Hoskins,Thomas C. Kaufman,Eric C. Lai,Brian Oliver,Norbert Perrimon,Norbert Perrimon,Brenton R. Graveley,Susan E. Celniker +43 more
TL;DR: It is found that a small set of mostly neural-specific genes has the potential to encode thousands of transcripts each through extensive alternative promoter usage and RNA splicing in Drosophila melanogaster.
Journal ArticleDOI
The transcriptional diversity of 25 Drosophila cell lines
Lucy Cherbas,Aarron T. Willingham,Aarron T. Willingham,Dayu Zhang,Li Yang,Yi Zou,Brian D. Eads,Joseph W. Carlson,Jane M. Landolin,Philipp Kapranov,Philipp Kapranov,Jacqueline Dumais,Anastasia Samsonova,Jeong Hyeon Choi,Johnny Roberts,Carrie A. Davis,Haixu Tang,Marijke J. van Baren,Marijke J. van Baren,Srinka Ghosh,Srinka Ghosh,Alexander Dobin,Kim Bell,Wei Lin,Laura Langton,Michael O. Duff,Aaron Tenney,Chris Zaleski,Michael R. Brent,Roger A. Hoskins,Thomas C. Kaufman,Justen Andrews,Brenton R. Graveley,Norbert Perrimon,Norbert Perrimon,Susan E. Celniker,Thomas R. Gingeras,Thomas R. Gingeras,Peter Cherbas +38 more
TL;DR: Drosophila melanogaster cell lines are cataloged to conclude that each line has retained features of an individual founder cell superimposed on a common "cell line" gene expression pattern, revealing unexpected stability of even fine-grained spatial determination.
Journal ArticleDOI
Global Patterns of Tissue-Specific Alternative Polyadenylation in Drosophila
Peter Smibert,Pedro Miura,Jakub Orzechowski Westholm,Solomon Shenker,Gemma E. May,Michael O. Duff,Dayu Zhang,Brian D. Eads,Joe Carlson,James B. Brown,Robert C. Eisman,Justen Andrews,Thomas C. Kaufman,Peter Cherbas,Susan E. Celniker,Brenton R. Graveley,Eric C. Lai +16 more
TL;DR: This paper analyzed the usage and consequences of alternative cleavage and polyadenylation (APA) in Drosophila melanogaster by using >1 billion reads of stranded mRNA-seq across a variety of dissected tissues.