R
Rama Maiti
Researcher at J. Craig Venter Institute
Publications - 16
Citations - 4611
Rama Maiti is an academic researcher from J. Craig Venter Institute. The author has contributed to research in topics: Genome & Gene. The author has an hindex of 14, co-authored 15 publications receiving 4078 citations.
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Journal ArticleDOI
Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies
Brian J. Haas,Arthur L. Delcher,Stephen M. Mount,Jennifer R. Wortman,Roger Smith,Linda Hannick,Rama Maiti,Catherine M. Ronning,Douglas B. Rusch,Christopher D. Town,Steven L. Salzberg,Owen White +11 more
TL;DR: The algorithm of the Program to Assemble Spliced Alignments (PASA) tool is described, as well as the results of automated updates to Arabidopsis gene annotations.
Journal ArticleDOI
The Genome of the Basidiomycetous Yeast and Human Pathogen Cryptococcus Neoformans
Brendan J. Loftus,Eula Fung,Paola Roncaglia,Don Rowley,Paolo Amedeo,Dan Bruno,Jessica Vamathevan,Molly Miranda,Iain J. Anderson,James A. Fraser,Jonathan E. Allen,Ian Bosdet,Michael R. Brent,Readman Chiu,Tamara L. Doering,Maureen J. Donlin,Cletus D'Souza,Deborah S. Fox,Deborah S. Fox,Viktoriya Grinberg,Jianmin Fu,Marilyn Fukushima,Brian J. Haas,James Huang,Guilhem Janbon,Steven J.M. Jones,Hean L. Koo,Martin Krzywinski,June Kwon-Chung,Klaus B. Lengeler,Klaus B. Lengeler,Rama Maiti,Marco A. Marra,Robert E. Marra,Robert E. Marra,Carrie Mathewson,Thomas G. Mitchell,Mihaela Pertea,Florenta R. Riggs,Steven L. Salzberg,Jacqueline E. Schein,Alla Shvartsbeyn,Heesun Shin,Martin Shumway,Charles A. Specht,Bernard B. Suh,Aaron Tenney,T. Utterback,Brian L. Wickes,Jennifer R. Wortman,Natasja Wye,James W. Kronstad,Jennifer K. Lodge,Joseph Heitman,Ronald W. Davis,Claire M. Fraser,Richard W. Hyman +56 more
TL;DR: Comparison of two phenotypically distinct strains reveals variation in gene content in addition to sequence polymorphisms between the genomes, and the genome is rich in transposons, many of which cluster at candidate centromeric regions.
Journal ArticleDOI
Genomic islands in the pathogenic filamentous fungus Aspergillus fumigatus
Natalie D. Fedorova,Nora Khaldi,Vinita Joardar,Rama Maiti,Paolo Amedeo,Michael J. Anderson,Jonathan Crabtree,Joana C. Silva,Jonathan H. Badger,Ahmed A. Albarraq,Samuel V. Angiuoli,Howard Bussey,Paul Bowyer,Peter J. Cotty,Paul S. Dyer,Amy Egan,Kevin Galens,Claire M. Fraser-Liggett,Brian J. Haas,Jason M. Inman,Richard Kent,Sébastien Lemieux,Iran Malavazi,Joshua Orvis,Terry Roemer,Catherine M. Ronning,Jaideep P. Sundaram,Granger G. Sutton,G Turner,J. Craig Venter,Owen White,Brett R Whitty,Phil Youngman,Kenneth H. Wolfe,Gustavo H. Goldman,Jennifer R. Wortman,Bo Jiang,David W. Denning,William C. Nierman,William C. Nierman +39 more
TL;DR: The genome sequences of a new clinical isolate of the important human pathogen, Aspergillus fumigatus, A1163, and two closely related but rarely pathogenic species, Neosartorya fischeri NRRL181 and As pergillus clavatus NRRL1 are presented.
Journal ArticleDOI
Comparative Genomics of Brassica oleracea and Arabidopsis thaliana Reveal Gene Loss, Fragmentation, and Dispersal after Polyploidy
Christopher D. Town,Foo Cheung,Rama Maiti,Jonathan Crabtree,Brian J. Haas,Jennifer R. Wortman,Erin Hine,Ryan Althoff,Tamara S. Arbogast,Luke J. Tallon,Marielle Vigouroux,Martin Trick,Ian Bancroft +12 more
TL;DR: Analysis of synonymous base substitution rates indicated that the triplicated Brassica genome segments diverged from a common ancestor soon after divergence of the Arabidopsis and Brassica lineages.
Journal ArticleDOI
Comparative genomic analyses of the human fungal pathogens Coccidioides and their relatives
Thomas J. Sharpton,Jason E. Stajich,Steven D. Rounsley,Malcolm J. Gardner,Jennifer R. Wortman,Vinita S. Jordar,Rama Maiti,Chinnappa D. Kodira,Daniel E. Neafsey,Qiandong Zeng,Chiung Yu Hung,Cody McMahan,Anna Muszewska,Marcin Grynberg,M. Alejandra Mandel,Ellen M. Kellner,Bridget M. Barker,John N. Galgiani,Marc J. Orbach,Theo N. Kirkland,Garry T. Cole,Matthew R. Henn,Bruce W. Birren,John W. Taylor +23 more
TL;DR: The results suggest that Coccidioides species are not soil saprophytes, but that they have evolved to remain associated with their dead animal hosts in soil, and that C Occidioide metabolism genes, membrane-related proteins, and putatively antigenic compounds have evolved in response to interaction with an animal host.