Literature DB >> 20927137

Supervised classification of microbiota mitigates mislabeling errors.

Dan Knights1, Justin Kuczynski, Omry Koren, Ruth E Ley, Dawn Field, Rob Knight, Todd Z DeSantis, Scott T Kelley.   

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Year:  2010        PMID: 20927137      PMCID: PMC3105748          DOI: 10.1038/ismej.2010.148

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


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  8 in total

1.  Community structure and metabolism through reconstruction of microbial genomes from the environment.

Authors:  Gene W Tyson; Jarrod Chapman; Philip Hugenholtz; Eric E Allen; Rachna J Ram; Paul M Richardson; Victor V Solovyev; Edward M Rubin; Daniel S Rokhsar; Jillian F Banfield
Journal:  Nature       Date:  2004-02-01       Impact factor: 49.962

2.  Forensic identification using skin bacterial communities.

Authors:  Noah Fierer; Christian L Lauber; Nick Zhou; Daniel McDonald; Elizabeth K Costello; Rob Knight
Journal:  Proc Natl Acad Sci U S A       Date:  2010-03-15       Impact factor: 11.205

Review 3.  A renaissance for the pioneering 16S rRNA gene.

Authors:  Susannah G Tringe; Philip Hugenholtz
Journal:  Curr Opin Microbiol       Date:  2008-10-08       Impact factor: 7.934

4.  Microbiology: metagenomics.

Authors:  Philip Hugenholtz; Gene W Tyson
Journal:  Nature       Date:  2008-09-25       Impact factor: 49.962

5.  Diagnosis of multiple cancer types by shrunken centroids of gene expression.

Authors:  Robert Tibshirani; Trevor Hastie; Balasubramanian Narasimhan; Gilbert Chu
Journal:  Proc Natl Acad Sci U S A       Date:  2002-05-14       Impact factor: 11.205

Review 6.  Metagenomics: genomic analysis of microbial communities.

Authors:  Christian S Riesenfeld; Patrick D Schloss; Jo Handelsman
Journal:  Annu Rev Genet       Date:  2004       Impact factor: 16.830

7.  Bacterial community variation in human body habitats across space and time.

Authors:  Elizabeth K Costello; Christian L Lauber; Micah Hamady; Noah Fierer; Jeffrey I Gordon; Rob Knight
Journal:  Science       Date:  2009-11-05       Impact factor: 47.728

8.  QIIME allows analysis of high-throughput community sequencing data.

Authors:  J Gregory Caporaso; Justin Kuczynski; Jesse Stombaugh; Kyle Bittinger; Frederic D Bushman; Elizabeth K Costello; Noah Fierer; Antonio Gonzalez Peña; Julia K Goodrich; Jeffrey I Gordon; Gavin A Huttley; Scott T Kelley; Dan Knights; Jeremy E Koenig; Ruth E Ley; Catherine A Lozupone; Daniel McDonald; Brian D Muegge; Meg Pirrung; Jens Reeder; Joel R Sevinsky; Peter J Turnbaugh; William A Walters; Jeremy Widmann; Tanya Yatsunenko; Jesse Zaneveld; Rob Knight
Journal:  Nat Methods       Date:  2010-04-11       Impact factor: 28.547

  8 in total
  23 in total

1.  Patterns of bacterial biodiversity in the glacial meltwater streams of the McMurdo Dry Valleys, Antarctica.

Authors:  David J Van Horn; Caitlin R Wolf; Daniel R Colman; Xiaoben Jiang; Tyler J Kohler; Diane M McKnight; Lee F Stanish; Terrill Yazzie; Cristina D Takacs-Vesbach
Journal:  FEMS Microbiol Ecol       Date:  2016-08-05       Impact factor: 4.194

2.  Potential role of intratumor bacteria in mediating tumor resistance to the chemotherapeutic drug gemcitabine.

Authors:  Leore T Geller; Michal Barzily-Rokni; Tal Danino; Oliver H Jonas; Noam Shental; Deborah Nejman; Nancy Gavert; Yaara Zwang; Zachary A Cooper; Kevin Shee; Christoph A Thaiss; Alexandre Reuben; Jonathan Livny; Roi Avraham; Dennie T Frederick; Matteo Ligorio; Kelly Chatman; Stephen E Johnston; Carrie M Mosher; Alexander Brandis; Garold Fuks; Candice Gurbatri; Vancheswaran Gopalakrishnan; Michael Kim; Mark W Hurd; Matthew Katz; Jason Fleming; Anirban Maitra; David A Smith; Matt Skalak; Jeffrey Bu; Monia Michaud; Sunia A Trauger; Iris Barshack; Talia Golan; Judith Sandbank; Keith T Flaherty; Anna Mandinova; Wendy S Garrett; Sarah P Thayer; Cristina R Ferrone; Curtis Huttenhower; Sangeeta N Bhatia; Dirk Gevers; Jennifer A Wargo; Todd R Golub; Ravid Straussman
Journal:  Science       Date:  2017-09-15       Impact factor: 47.728

3.  Responses of gut microbiota to diet composition and weight loss in lean and obese mice.

Authors:  Yann Ravussin; Omry Koren; Ayme Spor; Charles LeDuc; Roee Gutman; Jesse Stombaugh; Rob Knight; Ruth E Ley; Rudolph L Leibel
Journal:  Obesity (Silver Spring)       Date:  2011-05-19       Impact factor: 5.002

4.  Paneth cell defects in Crohn's disease patients promote dysbiosis.

Authors:  Ta-Chiang Liu; Bhaskar Gurram; Megan T Baldridge; Richard Head; Vy Lam; Chengwei Luo; Yumei Cao; Pippa Simpson; Michael Hayward; Mary L Holtz; Pavlos Bousounis; Joshua Noe; Diana Lerner; Jose Cabrera; Vincent Biank; Michael Stephens; Curtis Huttenhower; Dermot Pb McGovern; Ramnik J Xavier; Thaddeus S Stappenbeck; Nita H Salzman
Journal:  JCI Insight       Date:  2016-06-02

5.  Pediatric Crohn disease patients exhibit specific ileal transcriptome and microbiome signature.

Authors:  Yael Haberman; Timothy L Tickle; Phillip J Dexheimer; Mi-Ok Kim; Dora Tang; Rebekah Karns; Robert N Baldassano; Joshua D Noe; Joel Rosh; James Markowitz; Melvin B Heyman; Anne M Griffiths; Wallace V Crandall; David R Mack; Susan S Baker; Curtis Huttenhower; David J Keljo; Jeffrey S Hyams; Subra Kugathasan; Thomas D Walters; Bruce Aronow; Ramnik J Xavier; Dirk Gevers; Lee A Denson
Journal:  J Clin Invest       Date:  2014-07-08       Impact factor: 14.808

6.  Alterations in the gut microbiota associated with HIV-1 infection.

Authors:  Catherine A Lozupone; Marcella Li; Thomas B Campbell; Sonia C Flores; Derek Linderman; Matthew J Gebert; Rob Knight; Andrew P Fontenot; Brent E Palmer
Journal:  Cell Host Microbe       Date:  2013-09-11       Impact factor: 21.023

7.  Skin microbiome imbalance in patients with STAT1/STAT3 defects impairs innate host defense responses.

Authors:  Sanne P Smeekens; Curtis Huttenhower; Anca Riza; Frank L van de Veerdonk; Patrick L J M Zeeuwen; Joost Schalkwijk; Jos W M van der Meer; Ramnik J Xavier; Mihai G Netea; Dirk Gevers
Journal:  J Innate Immun       Date:  2013-06-22       Impact factor: 7.349

8.  Moving pictures of the human microbiome.

Authors:  J Gregory Caporaso; Christian L Lauber; Elizabeth K Costello; Donna Berg-Lyons; Antonio Gonzalez; Jesse Stombaugh; Dan Knights; Pawel Gajer; Jacques Ravel; Noah Fierer; Jeffrey I Gordon; Rob Knight
Journal:  Genome Biol       Date:  2011       Impact factor: 13.583

9.  Microbial co-occurrence relationships in the human microbiome.

Authors:  Karoline Faust; J Fah Sathirapongsasuti; Jacques Izard; Nicola Segata; Dirk Gevers; Jeroen Raes; Curtis Huttenhower
Journal:  PLoS Comput Biol       Date:  2012-07-12       Impact factor: 4.475

10.  Advancing our understanding of the human microbiome using QIIME.

Authors:  José A Navas-Molina; Juan M Peralta-Sánchez; Antonio González; Paul J McMurdie; Yoshiki Vázquez-Baeza; Zhenjiang Xu; Luke K Ursell; Christian Lauber; Hongwei Zhou; Se Jin Song; James Huntley; Gail L Ackermann; Donna Berg-Lyons; Susan Holmes; J Gregory Caporaso; Rob Knight
Journal:  Methods Enzymol       Date:  2013       Impact factor: 1.600

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