Hamidreza Chitsaz
Colorado State University
75 Papers
354 Citations
Hamidreza Chitsaz is an academic researcher from Colorado State University. The author has contributed to research in topics: Sequence assembly & Genome. The author has an hindex of 18, co-authored 74 publications. Previous affiliations of Hamidreza Chitsaz include Wayne State University & University of California, San Diego.
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Papers
Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species
Keith Bradnam,Joseph Fass,Anton Alexandrov,Paul Baranay,Michael Bechner,Inanc Birol,Sébastien Boisvert,Jarrod Chapman,Guillaume Chapuis,Guillaume Chapuis,Rayan Chikhi,Rayan Chikhi,Hamidreza Chitsaz,Wen-Chi Chou,Jacques Corbeil,Cristian Del Fabbro,Roderick R. Docking,Richard Durbin,Dent Earl,Scott J. Emrich,Pavel Fedotov,Nuno A. Fonseca,Ganeshkumar Ganapathy,Richard A. Gibbs,Sante Gnerre,Elenie Godzaridis,Steve Goldstein,Matthias Haimel,Giles Hall,David Haussler,Joseph B. Hiatt,Isaac Ho,Jason T. Howard,Martin Hunt,Shaun D. Jackman,David B. Jaffe,Erich D. Jarvis,Huaiyang Jiang,Sergey Kazakov,Paul J. Kersey,Jacob O. Kitzman,James R. Knight,Sergey Koren,Tak-Wah Lam,Dominique Lavenier,Dominique Lavenier,Dominique Lavenier,François Laviolette,Yingrui Li,Zhenyu Li,Binghang Liu,Yue Liu,Ruibang Luo,Iain MacCallum,Matthew D. MacManes,Nicolas Maillet,Nicolas Maillet,Sergey Melnikov,Delphine Naquin,Delphine Naquin,Zemin Ning,Thomas D. Otto,Benedict Paten,Octávio S. Paulo,Adam M. Phillippy,Francisco Pina-Martins,Michael Place,Dariusz Przybylski,Xiang Qin,Carson Qu,Filipe J. Ribeiro,Stephen Richards,Daniel S. Rokhsar,Daniel S. Rokhsar,J. Graham Ruby,J. Graham Ruby,Simone Scalabrin,Michael C. Schatz,David C. Schwartz,Alexey Sergushichev,Ted Sharpe,Timothy I. Shaw,Jay Shendure,Yujian Shi,Jared T. Simpson,Henry Song,Fedor Tsarev,Francesco Vezzi,Riccardo Vicedomini,Bruno Vieira,Jun Wang,Kim C. Worley,Shuangye Yin,Siu-Ming Yiu,Jianying Yuan,Guojie Zhang,Hao Zhang,Shiguo Zhou,Ian F Korf +98 more
TL;DR: The Assemblathon 2 as discussed by the authors presented a variety of sequence data to be assembled for three vertebrate species (a bird, a fish, and a snake) from 21 participating teams.
Time-optimal paths for a Dubins airplane
Hamidreza Chitsaz,Steven M. LaValle +1 more
- 01 Jan 2007
TL;DR: This model extends the Dubins car by L.E. Dubins (1957) to have altitude, which leads to Dubins airplane, and characterize the time-optimal trajectories for the system through the use of the Pontryagin Maximum Principle.
Candidate phylum TM6 genome recovered from a hospital sink biofilm provides genomic insights into this uncultivated phylum
Jeffrey S. McLean,Jeffrey S. McLean,Mary-Jane Lombardo,Jonathan H. Badger,Anna Edlund,Mark Novotny,Joyclyn Yee-Greenbaum,Nikolay Vyahhi,Adam P. Hall,Youngik Yang,Christopher L. Dupont,Michael G. Ziegler,Hamidreza Chitsaz,Andrew E. Allen,Shibu Yooseph,Glenn Tesler,Pavel A. Pevzner,Pavel A. Pevzner,Robert Friedman,Kenneth H. Nealson,Kenneth H. Nealson,J. Craig Venter,Roger S. Lasken +22 more
TL;DR: An approach for increasing throughput and effectively improving the likelihood of sampling rare events based on forming small random pools of single-flow–sorted cells, amplifying their DNA by multiple displacement amplification and sequencing all cells in the pool, creating a “mini-metagenome” is developed.
178
DNA methylation regulates discrimination of enhancers from promoters through a H3K4me1-H3K4me3 seesaw mechanism
Ali Sharifi-Zarchi,Daniela Gerovska,Kenjiro Adachi,Mehdi Totonchi,Hamid Pezeshk,Ryan J. Taft,Hans R. Schöler,Hans R. Schöler,Hamidreza Chitsaz,Mehdi Sadeghi,Hossein Baharvand,Hossein Baharvand,Marcos J. Araúzo-Bravo,Marcos J. Araúzo-Bravo +13 more
TL;DR: The results show that DNA methylation discriminates promoters from enhancers through H3K 4me1-H3K4me3 seesaw mechanism, and suggest its possible function in the inheritance of chromatin marks after cell division, as well as suggesting aberrant formation of promoter-like regions and ectopic transcription of hypomethylated regions of DNA.
Minimum Wheel-Rotation Paths for Differential-Drive Mobile Robots
TL;DR: This paper characterizes shortest paths for differential-drive mobile robots, with the goal of classifying solutions in the spirit of Dubins curves and Reeds—Shepp curves for car-like robots, and derives the set of optimal paths using the Pontryagin Maximum Principle.
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