Web Apollo: a web-based genomic annotation editing platform

被引：261

作者：

Lee, Eduardo ^{[1
]}

Helt, Gregg A. ^{[1
]}

Reese, Justin T. ^{[2
]}

Munoz-Torres, Monica C. ^{[1
]}

Childers, Chris P. ^{[2
]}

Buels, Robert M. ^{[3
]}

Stein, Lincoln ^{[4
,5
]}

Holmes, Ian H. ^{[1
,3
]}

Elsik, Christine G. ^{[2
,6
]}

Lewis, Suzanna E. ^{[1
]}

机构：

[1] Univ Calif Berkeley, Lawrence Berkeley Natl Lab, Genom Div, Berkeley, CA 94720 USA

[2] Univ Missouri, Div Anim Sci, Columbia, MO 65211 USA

[3] Univ Calif Berkeley, Dept Bioengn, Berkeley, CA 94720 USA

[4] MaRS Ctr, Ontario Inst Canc Res, Toronto, ON M5G 0A3, Canada

[5] Univ Toronto, Dept Mol Genet, Toronto, ON M5R 0A3, Canada

[6] Univ Missouri, Div Plant Sci, Columbia, MO 65211 USA

来源：

GENOME BIOLOGY | 2013年 / 14卷 / 08期

基金：

美国国家卫生研究院;

关键词：

GENOME; COLLABORATIVE; EDITOR; COMMUNITY ANNOTATION; GENE ANNOTATION; SEQUENCE; RESOURCE; DATABASE; RNA; GENERATION; PREDICTION; INSIGHTS; BROWSER;

D O I：

10.1186/gb-2013-14-8-r93

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

Web Apollo is the first instantaneous, collaborative genomic annotation editor available on the web. One of the natural consequences following from current advances in sequencing technology is that there are more and more researchers sequencing new genomes. These researchers require tools to describe the functional features of their newly sequenced genomes. With Web Apollo researchers can use any of the common browsers (for example, Chrome or Firefox) to jointly analyze and precisely describe the features of a genome in real time, whether they are in the same room or working from opposite sides of the world.

引用

页数：13

共 61 条

[1] Limitations of next-generation genome sequence assembly [J].

Alkan, Can ;

Sajjadian, Saba ;

Eichler, Evan E. .

NATURE METHODS, 2011, 8 (01) :61-65

[2]

[Anonymous], 2002, GENOME BIOL

[3]

[Anonymous], ISMB

[4]

[Anonymous], HDB STAT GENETICS

[5]

[Anonymous], DATABASE OXFORD

[6]

Bateman A, 2004, NUCLEIC ACIDS RES, V32, pD138, DOI [10.1093/nar/gkp985, 10.1093/nar/gkh121, 10.1093/nar/gkr1065]

[7] The Mouse Genome Database: Genotypes, Phenotypes, and Models of Human Disease [J].

Bult, Carol J. ;

Eppig, Janan T. ;

Blake, Judith A. ;

Kadin, James A. ;

Richardson, Joel E. .

NUCLEIC ACIDS RESEARCH, 2013, 41 (D1) :D885-D891

[8] MAKER: An easy-to-use annotation pipeline designed for emerging model organism genomes [J].

Cantarel, Brandi L. ;

Korf, Ian ;

Robb, Sofia M. C. ;

Parra, Genis ;

Ross, Eric ;

Moore, Barry ;

Holt, Carson ;

Alvarado, Alejandro Sanchez ;

Yandell, Mark .

GENOME RESEARCH, 2008, 18 (01) :188-196

[9] Saccharomyces Genome Database: the genomics resource of budding yeast [J].

Cherry, J. Michael ;

Hong, Eurie L. ;

Amundsen, Craig ;

Balakrishnan, Rama ;

Binkley, Gail ;

Chan, Esther T. ;

Christie, Karen R. ;

Costanzo, Maria C. ;

Dwight, Selina S. ;

Engel, Stacia R. ;

Fisk, Dianna G. ;

Hirschman, Jodi E. ;

Hitz, Benjamin C. ;

Karra, Kalpana ;

Krieger, Cynthia J. ;

Miyasato, Stuart R. ;

Nash, Rob S. ;

Park, Julie ;

Skrzypek, Marek S. ;

Simison, Matt ;

Weng, Shuai ;

Wong, Edith D. .

NUCLEIC ACIDS RESEARCH, 2012, 40 (D1) :D700-D705

[10] Lineage-Specific Biology Revealed by a Finished Genome Assembly of the Mouse [J].

Church, Deanna M. ;

Goodstadt, Leo ;

Hillier, LaDeana W. ;

Zody, Michael C. ;

Goldstein, Steve ;

She, Xinwe ;

Bult, Carol J. ;

Agarwala, Richa ;

Cherry, Joshua L. ;

DiCuccio, Michael ;

Hlavina, Wratko ;

Kapustin, Yuri ;

Meric, Peter ;

Maglott, Donna ;

Birtle, Zoe ;

Marques, Ana C. ;

Graves, Tina ;

Zhou, Shiguo ;

Teague, Brian ;

Potamousis, Konstantinos ;

Churas, Christopher ;

Place, Michael ;

Herschleb, Jill ;

Runnheim, Ron ;

Forrest, Daniel ;

Amos-Landgraf, James ;

Schwartz, David C. ;

Cheng, Ze ;

Lindblad-Toh, Kerstin ;

Eichler, Evan E. ;

Ponting, Chris P. .

PLOS BIOLOGY, 2009, 7 (05)

← 1 2 3 4 5 6 7 →