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Literature DB >> 19182544

Inside FlyBase: biocuration as a career.

Abstract

As research in the biological sciences continues to advance at a rapid pace, it is increasingly important that the data be captured, standardized, organized and made accessible to the scientific community. This is the job of a biocurator. Here we describe the process of biocuration from our perspective as FlyBase curators.

Entities: Chemical Disease Species

Mesh：

Year: 2009 PMID： 19182544 PMCID： PMC2837272 DOI： 10.4161/fly.3.1.7769

Source DB: PubMed Journal: Fly (Austin) ISSN： 1933-6934 Impact factor: 2.160

7 in total

1. Revisiting the protein-coding gene catalog of Drosophila melanogaster using 12 fly genomes.

Authors: Michael F Lin; Joseph W Carlson; Madeline A Crosby; Beverley B Matthews; Charles Yu; Soo Park; Kenneth H Wan; Andrew J Schroeder; L Sian Gramates; Susan E St Pierre; Margaret Roark; Kenneth L Wiley; Rob J Kulathinal; Peili Zhang; Kyl V Myrick; Jerry V Antone; Susan E Celniker; William M Gelbart; Manolis Kellis
Journal: Genome Res Date: 2007-11-07 Impact factor: 9.043

2. Big data: The future of biocuration.

Authors: Doug Howe; Maria Costanzo; Petra Fey; Takashi Gojobori; Linda Hannick; Winston Hide; David P Hill; Renate Kania; Mary Schaeffer; Susan St Pierre; Simon Twigger; Owen White; Seung Yon Rhee
Journal: Nature Date: 2008-09-04 Impact factor: 49.962

3. A genome-wide transgenic RNAi library for conditional gene inactivation in Drosophila.

Authors: Georg Dietzl; Doris Chen; Frank Schnorrer; Kuan-Chung Su; Yulia Barinova; Michaela Fellner; Beate Gasser; Kaolin Kinsey; Silvia Oppel; Susanne Scheiblauer; Africa Couto; Vincent Marra; Krystyna Keleman; Barry J Dickson
Journal: Nature Date: 2007-07-12 Impact factor: 49.962

4. FlyBase: enhancing Drosophila Gene Ontology annotations.

Authors: Susan Tweedie; Michael Ashburner; Kathleen Falls; Paul Leyland; Peter McQuilton; Steven Marygold; Gillian Millburn; David Osumi-Sutherland; Andrew Schroeder; Ruth Seal; Haiyan Zhang
Journal: Nucleic Acids Res Date: 2008-10-23 Impact factor: 16.971

5. FlyBase: integration and improvements to query tools.

Authors: Robert J Wilson; Joshua L Goodman; Victor B Strelets
Journal: Nucleic Acids Res Date: 2007-12-26 Impact factor: 16.971

Review 6. Annotation of the Drosophila melanogaster euchromatic genome: a systematic review.

Authors: Sima Misra; Madeline A Crosby; Christopher J Mungall; Beverley B Matthews; Kathryn S Campbell; Pavel Hradecky; Yanmei Huang; Joshua S Kaminker; Gillian H Millburn; Simon E Prochnik; Christopher D Smith; Jonathan L Tupy; Eleanor J Whitfied; Leyla Bayraktaroglu; Benjamin P Berman; Brian R Bettencourt; Susan E Celniker; Aubrey D N J de Grey; Rachel A Drysdale; Nomi L Harris; John Richter; Susan Russo; Andrew J Schroeder; Sheng Qiang Shu; Mark Stapleton; Chihiro Yamada; Michael Ashburner; William M Gelbart; Gerald M Rubin; Suzanna E Lewis
Journal: Genome Biol Date: 2002-12-31 Impact factor: 13.583

7. Evolution of genes and genomes on the Drosophila phylogeny.

Authors: Andrew G Clark; Michael B Eisen; Douglas R Smith; Casey M Bergman; Brian Oliver; Therese A Markow; Thomas C Kaufman; Manolis Kellis; William Gelbart; Venky N Iyer; Daniel A Pollard; Timothy B Sackton; Amanda M Larracuente; Nadia D Singh; Jose P Abad; Dawn N Abt; Boris Adryan; Montserrat Aguade; Hiroshi Akashi; Wyatt W Anderson; Charles F Aquadro; David H Ardell; Roman Arguello; Carlo G Artieri; Daniel A Barbash; Daniel Barker; Paolo Barsanti; Phil Batterham; Serafim Batzoglou; Dave Begun; Arjun Bhutkar; Enrico Blanco; Stephanie A Bosak; Robert K Bradley; Adrianne D Brand; Michael R Brent; Angela N Brooks; Randall H Brown; Roger K Butlin; Corrado Caggese; Brian R Calvi; A Bernardo de Carvalho; Anat Caspi; Sergio Castrezana; Susan E Celniker; Jean L Chang; Charles Chapple; Sourav Chatterji; Asif Chinwalla; Alberto Civetta; Sandra W Clifton; Josep M Comeron; James C Costello; Jerry A Coyne; Jennifer Daub; Robert G David; Arthur L Delcher; Kim Delehaunty; Chuong B Do; Heather Ebling; Kevin Edwards; Thomas Eickbush; Jay D Evans; Alan Filipski; Sven Findeiss; Eva Freyhult; Lucinda Fulton; Robert Fulton; Ana C L Garcia; Anastasia Gardiner; David A Garfield; Barry E Garvin; Greg Gibson; Don Gilbert; Sante Gnerre; Jennifer Godfrey; Robert Good; Valer Gotea; Brenton Gravely; Anthony J Greenberg; Sam Griffiths-Jones; Samuel Gross; Roderic Guigo; Erik A Gustafson; Wilfried Haerty; Matthew W Hahn; Daniel L Halligan; Aaron L Halpern; Gillian M Halter; Mira V Han; Andreas Heger; LaDeana Hillier; Angie S Hinrichs; Ian Holmes; Roger A Hoskins; Melissa J Hubisz; Dan Hultmark; Melanie A Huntley; David B Jaffe; Santosh Jagadeeshan; William R Jeck; Justin Johnson; Corbin D Jones; William C Jordan; Gary H Karpen; Eiko Kataoka; Peter D Keightley; Pouya Kheradpour; Ewen F Kirkness; Leonardo B Koerich; Karsten Kristiansen; Dave Kudrna; Rob J Kulathinal; Sudhir Kumar; Roberta Kwok; Eric Lander; Charles H Langley; Richard Lapoint; Brian P Lazzaro; So-Jeong Lee; Lisa Levesque; Ruiqiang Li; Chiao-Feng Lin; Michael F Lin; Kerstin Lindblad-Toh; Ana Llopart; Manyuan Long; Lloyd Low; Elena Lozovsky; Jian Lu; Meizhong Luo; Carlos A Machado; Wojciech Makalowski; Mar Marzo; Muneo Matsuda; Luciano Matzkin; Bryant McAllister; Carolyn S McBride; Brendan McKernan; Kevin McKernan; Maria Mendez-Lago; Patrick Minx; Michael U Mollenhauer; Kristi Montooth; Stephen M Mount; Xu Mu; Eugene Myers; Barbara Negre; Stuart Newfeld; Rasmus Nielsen; Mohamed A F Noor; Patrick O'Grady; Lior Pachter; Montserrat Papaceit; Matthew J Parisi; Michael Parisi; Leopold Parts; Jakob S Pedersen; Graziano Pesole; Adam M Phillippy; Chris P Ponting; Mihai Pop; Damiano Porcelli; Jeffrey R Powell; Sonja Prohaska; Kim Pruitt; Marta Puig; Hadi Quesneville; Kristipati Ravi Ram; David Rand; Matthew D Rasmussen; Laura K Reed; Robert Reenan; Amy Reily; Karin A Remington; Tania T Rieger; Michael G Ritchie; Charles Robin; Yu-Hui Rogers; Claudia Rohde; Julio Rozas; Marc J Rubenfield; Alfredo Ruiz; Susan Russo; Steven L Salzberg; Alejandro Sanchez-Gracia; David J Saranga; Hajime Sato; Stephen W Schaeffer; Michael C Schatz; Todd Schlenke; Russell Schwartz; Carmen Segarra; Rama S Singh; Laura Sirot; Marina Sirota; Nicholas B Sisneros; Chris D Smith; Temple F Smith; John Spieth; Deborah E Stage; Alexander Stark; Wolfgang Stephan; Robert L Strausberg; Sebastian Strempel; David Sturgill; Granger Sutton; Granger G Sutton; Wei Tao; Sarah Teichmann; Yoshiko N Tobari; Yoshihiko Tomimura; Jason M Tsolas; Vera L S Valente; Eli Venter; J Craig Venter; Saverio Vicario; Filipe G Vieira; Albert J Vilella; Alfredo Villasante; Brian Walenz; Jun Wang; Marvin Wasserman; Thomas Watts; Derek Wilson; Richard K Wilson; Rod A Wing; Mariana F Wolfner; Alex Wong; Gane Ka-Shu Wong; Chung-I Wu; Gabriel Wu; Daisuke Yamamoto; Hsiao-Pei Yang; Shiaw-Pyng Yang; James A Yorke; Kiyohito Yoshida; Evgeny Zdobnov; Peili Zhang; Yu Zhang; Aleksey V Zimin; Jennifer Baldwin; Amr Abdouelleil; Jamal Abdulkadir; Adal Abebe; Brikti Abera; Justin Abreu; St Christophe Acer; Lynne Aftuck; Allen Alexander; Peter An; Erica Anderson; Scott Anderson; Harindra Arachi; Marc Azer; Pasang Bachantsang; Andrew Barry; Tashi Bayul; Aaron Berlin; Daniel Bessette; Toby Bloom; Jason Blye; Leonid Boguslavskiy; Claude Bonnet; Boris Boukhgalter; Imane Bourzgui; Adam Brown; Patrick Cahill; Sheridon Channer; Yama Cheshatsang; Lisa Chuda; Mieke Citroen; Alville Collymore; Patrick Cooke; Maura Costello; Katie D'Aco; Riza Daza; Georgius De Haan; Stuart DeGray; Christina DeMaso; Norbu Dhargay; Kimberly Dooley; Erin Dooley; Missole Doricent; Passang Dorje; Kunsang Dorjee; Alan Dupes; Richard Elong; Jill Falk; Abderrahim Farina; Susan Faro; Diallo Ferguson; Sheila Fisher; Chelsea D Foley; Alicia Franke; Dennis Friedrich; Loryn Gadbois; Gary Gearin; Christina R Gearin; Georgia Giannoukos; Tina Goode; Joseph Graham; Edward Grandbois; Sharleen Grewal; Kunsang Gyaltsen; Nabil Hafez; Birhane Hagos; Jennifer Hall; Charlotte Henson; Andrew Hollinger; Tracey Honan; Monika D Huard; Leanne Hughes; Brian Hurhula; M Erii Husby; Asha Kamat; Ben Kanga; Seva Kashin; Dmitry Khazanovich; Peter Kisner; Krista Lance; Marcia Lara; William Lee; Niall Lennon; Frances Letendre; Rosie LeVine; Alex Lipovsky; Xiaohong Liu; Jinlei Liu; Shangtao Liu; Tashi Lokyitsang; Yeshi Lokyitsang; Rakela Lubonja; Annie Lui; Pen MacDonald; Vasilia Magnisalis; Kebede Maru; Charles Matthews; William McCusker; Susan McDonough; Teena Mehta; James Meldrim; Louis Meneus; Oana Mihai; Atanas Mihalev; Tanya Mihova; Rachel Mittelman; Valentine Mlenga; Anna Montmayeur; Leonidas Mulrain; Adam Navidi; Jerome Naylor; Tamrat Negash; Thu Nguyen; Nga Nguyen; Robert Nicol; Choe Norbu; Nyima Norbu; Nathaniel Novod; Barry O'Neill; Sahal Osman; Eva Markiewicz; Otero L Oyono; Christopher Patti; Pema Phunkhang; Fritz Pierre; Margaret Priest; Sujaa Raghuraman; Filip Rege; Rebecca Reyes; Cecil Rise; Peter Rogov; Keenan Ross; Elizabeth Ryan; Sampath Settipalli; Terry Shea; Ngawang Sherpa; Lu Shi; Diana Shih; Todd Sparrow; Jessica Spaulding; John Stalker; Nicole Stange-Thomann; Sharon Stavropoulos; Catherine Stone; Christopher Strader; Senait Tesfaye; Talene Thomson; Yama Thoulutsang; Dawa Thoulutsang; Kerri Topham; Ira Topping; Tsamla Tsamla; Helen Vassiliev; Andy Vo; Tsering Wangchuk; Tsering Wangdi; Michael Weiand; Jane Wilkinson; Adam Wilson; Shailendra Yadav; Geneva Young; Qing Yu; Lisa Zembek; Danni Zhong; Andrew Zimmer; Zac Zwirko; David B Jaffe; Pablo Alvarez; Will Brockman; Jonathan Butler; CheeWhye Chin; Sante Gnerre; Manfred Grabherr; Michael Kleber; Evan Mauceli; Iain MacCallum
Journal: Nature Date: 2007-11-08 Impact factor: 49.962

7 in total

5 in total

1. Technical and organizational considerations for the long-term maintenance and development of digital brain atlases and web-based databases.

Authors: Kei Ito
Journal: Front Syst Neurosci Date: 2010-06-18

Inside FlyBase: biocuration as a career.

1. Revisiting the protein-coding gene catalog of Drosophila melanogaster using 12 fly genomes.

2. Big data: The future of biocuration.

3. A genome-wide transgenic RNAi library for conditional gene inactivation in Drosophila.

4. FlyBase: enhancing Drosophila Gene Ontology annotations.

5. FlyBase: integration and improvements to query tools.

Review 6. Annotation of the Drosophila melanogaster euchromatic genome: a systematic review.

7. Evolution of genes and genomes on the Drosophila phylogeny.

1. Technical and organizational considerations for the long-term maintenance and development of digital brain atlases and web-based databases.

2. Open semantic annotation of scientific publications using DOMEO.

3. Chado controller: advanced annotation management with a community annotation system.

4. Biocurators and biocuration: surveying the 21st century challenges.

5. Targeted journal curation as a method to improve data currency at the Comparative Toxicogenomics Database.