Literature DB >> 21107444

The future of microbial metagenomics (or is ignorance bliss?).

Jack A Gilbert1, Folker Meyer, Mark J Bailey.   

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Year:  2010        PMID： 21107444      PMCID： PMC3105764          DOI： 10.1038/ismej.2010.178

Source DB:  PubMed          Journal:  ISME J        ISSN： 1751-7362            Impact factor:   10.302


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  7 in total

Review 1.  A call for standardized classification of metagenome projects.

Authors:  Natalia Ivanova; Susannah G Tringe; Konstantinos Liolios; Wen-Tso Liu; Norman Morrison; Philip Hugenholtz; Nikos C Kyrpides
Journal:  Environ Microbiol       Date:  2010-07       Impact factor: 5.491

2.  Functional metagenomic profiling of nine biomes.

Authors:  Elizabeth A Dinsdale; Robert A Edwards; Dana Hall; Florent Angly; Mya Breitbart; Jennifer M Brulc; Mike Furlan; Christelle Desnues; Matthew Haynes; Linlin Li; Lauren McDaniel; Mary Ann Moran; Karen E Nelson; Christina Nilsson; Robert Olson; John Paul; Beltran Rodriguez Brito; Yijun Ruan; Brandon K Swan; Rick Stevens; David L Valentine; Rebecca Vega Thurber; Linda Wegley; Bryan A White; Forest Rohwer
Journal:  Nature       Date:  2008-03-12       Impact factor: 49.962

3.  Identifying protein function--a call for community action.

Authors:  Richard J Roberts
Journal:  PLoS Biol       Date:  2004-03-16       Impact factor: 8.029

4.  The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes.

Authors:  F Meyer; D Paarmann; M D'Souza; R Olson; E M Glass; M Kubal; T Paczian; A Rodriguez; R Stevens; A Wilke; J Wilkening; R A Edwards
Journal:  BMC Bioinformatics       Date:  2008-09-19       Impact factor: 3.169

5.  GenBank.

Authors:  Dennis A Benson; Ilene Karsch-Mizrachi; David J Lipman; James Ostell; Eric W Sayers
Journal:  Nucleic Acids Res       Date:  2008-10-21       Impact factor: 16.971

6.  Short pyrosequencing reads suffice for accurate microbial community analysis.

Authors:  Zongzhi Liu; Catherine Lozupone; Micah Hamady; Frederic D Bushman; Rob Knight
Journal:  Nucleic Acids Res       Date:  2007-09-18       Impact factor: 16.971

7.  Detection of large numbers of novel sequences in the metatranscriptomes of complex marine microbial communities.

Authors:  Jack A Gilbert; Dawn Field; Ying Huang; Rob Edwards; Weizhong Li; Paul Gilna; Ian Joint
Journal:  PLoS One       Date:  2008-08-22       Impact factor: 3.240
  7 in total
  18 in total

Review 1.  A road map for the development of community systems (CoSy) biology.

Authors:  Karsten Zengler; Bernhard O Palsson
Journal:  Nat Rev Microbiol       Date:  2012-03-27       Impact factor: 60.633

2.  Zero-Inflated Beta Regression for Differential Abundance Analysis with Metagenomics Data.

Authors:  Xiaoling Peng; Gang Li; Zhenqiu Liu
Journal:  J Comput Biol       Date:  2015-12-16       Impact factor: 1.479

3.  Cross-biome metagenomic analyses of soil microbial communities and their functional attributes.

Authors:  Noah Fierer; Jonathan W Leff; Byron J Adams; Uffe N Nielsen; Scott Thomas Bates; Christian L Lauber; Sarah Owens; Jack A Gilbert; Diana H Wall; J Gregory Caporaso
Journal:  Proc Natl Acad Sci U S A       Date:  2012-12-10       Impact factor: 11.205

4.  A two-stage statistical procedure for feature selection and comparison in functional analysis of metagenomes.

Authors:  Naruekamol Pookhao; Michael B Sohn; Qike Li; Isaac Jenkins; Ruofei Du; Hongmei Jiang; Lingling An
Journal:  Bioinformatics       Date:  2014-09-24       Impact factor: 6.937

5.  Spatiotemporal analysis of bacterial diversity in sediments of Sundarbans using parallel 16S rRNA gene tag sequencing.

Authors:  Pijush Basak; Niladri Shekhar Majumder; Sudip Nag; Anish Bhattacharyya; Debojyoti Roy; Arpita Chakraborty; Sohan SenGupta; Arunava Roy; Arghya Mukherjee; Rudradip Pattanayak; Abhrajyoti Ghosh; Dhrubajyoti Chattopadhyay; Maitree Bhattacharyya
Journal:  Microb Ecol       Date:  2014-09-26       Impact factor: 4.552

6.  Integrating metagenomic and amplicon databases to resolve the phylogenetic and ecological diversity of the Chlamydiae.

Authors:  Ilias Lagkouvardos; Thomas Weinmaier; Federico M Lauro; Ricardo Cavicchioli; Thomas Rattei; Matthias Horn
Journal:  ISME J       Date:  2013-08-15       Impact factor: 10.302

7.  Conceptualizing a Genomics Software Institute (GSI).

Authors:  Jack A Gilbert; Charlie Catlett; Narayan Desai; Rob Knight; Owen White; Robert Robbins; Rajesh Sankaran; Susanna-Assunta Sansone; Dawn Field; Folker Meyer
Journal:  Stand Genomic Sci       Date:  2012-03-05

8.  The genomic standards consortium: bringing standards to life for microbial ecology.

Authors:  Pelin Yilmaz; Jack A Gilbert; Rob Knight; Linda Amaral-Zettler; Ilene Karsch-Mizrachi; Guy Cochrane; Yasukazu Nakamura; Susanna-Assunta Sansone; Frank Oliver Glöckner; Dawn Field
Journal:  ISME J       Date:  2011-04-07       Impact factor: 10.302

9.  The microbiome of Brazilian mangrove sediments as revealed by metagenomics.

Authors:  Fernando Dini Andreote; Diego Javier Jiménez; Diego Chaves; Armando Cavalcante Franco Dias; Danice Mazzer Luvizotto; Francisco Dini-Andreote; Cristiane Cipola Fasanella; Maryeimy Varon Lopez; Sandra Baena; Rodrigo Gouvêa Taketani; Itamar Soares de Melo
Journal:  PLoS One       Date:  2012-06-21       Impact factor: 3.240

Review 10.  Bacterial genomes: habitat specificity and uncharted organisms.

Authors:  Francisco Dini-Andreote; Fernando Dini Andreote; Welington Luiz Araújo; Jack T Trevors; Jan Dirk van Elsas
Journal:  Microb Ecol       Date:  2012-03-07       Impact factor: 4.552
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