Nicola Segata

Nicola Segata

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Nicola Segata

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Author Correction: Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2.

Authors:
Evan Bolyen Jai Ram Rideout Matthew R Dillon Nicholas A Bokulich Christian C Abnet Gabriel A Al-Ghalith Harriet Alexander Eric J Alm Manimozhiyan Arumugam Francesco Asnicar Yang Bai Jordan E Bisanz Kyle Bittinger Asker Brejnrod Colin J Brislawn C Titus Brown Benjamin J Callahan Andrés Mauricio Caraballo-Rodríguez John Chase Emily K Cope Ricardo Da Silva Christian Diener Pieter C Dorrestein Gavin M Douglas Daniel M Durall Claire Duvallet Christian F Edwardson Madeleine Ernst Mehrbod Estaki Jennifer Fouquier Julia M Gauglitz Sean M Gibbons Deanna L Gibson Antonio Gonzalez Kestrel Gorlick Jiarong Guo Benjamin Hillmann Susan Holmes Hannes Holste Curtis Huttenhower Gavin A Huttley Stefan Janssen Alan K Jarmusch Lingjing Jiang Benjamin D Kaehler Kyo Bin Kang Christopher R Keefe Paul Keim Scott T Kelley Dan Knights Irina Koester Tomasz Kosciolek Jorden Kreps Morgan G I Langille Joslynn Lee Ruth Ley Yong-Xin Liu Erikka Loftfield Catherine Lozupone Massoud Maher Clarisse Marotz Bryan D Martin Daniel McDonald Lauren J McIver Alexey V Melnik Jessica L Metcalf Sydney C Morgan Jamie T Morton Ahmad Turan Naimey Jose A Navas-Molina Louis Felix Nothias Stephanie B Orchanian Talima Pearson Samuel L Peoples Daniel Petras Mary Lai Preuss Elmar Pruesse Lasse Buur Rasmussen Adam Rivers Michael S Robeson Patrick Rosenthal Nicola Segata Michael Shaffer Arron Shiffer Rashmi Sinha Se Jin Song John R Spear Austin D Swafford Luke R Thompson Pedro J Torres Pauline Trinh Anupriya Tripathi Peter J Turnbaugh Sabah Ul-Hasan Justin J J van der Hooft Fernando Vargas Yoshiki Vázquez-Baeza Emily Vogtmann Max von Hippel William Walters Yunhu Wan Mingxun Wang Jonathan Warren Kyle C Weber Charles H D Williamson Amy D Willis Zhenjiang Zech Xu Jesse R Zaneveld Yilong Zhang Qiyun Zhu Rob Knight J Gregory Caporaso

Nat Biotechnol 2019 Sep;37(9):1091

Center for Applied Microbiome Science, Pathogen and Microbiome Institute, Northern Arizona University, Flagstaff, AZ, USA.

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http://dx.doi.org/10.1038/s41587-019-0252-6DOI Listing
September 2019

Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2.

Authors:
Evan Bolyen Jai Ram Rideout Matthew R Dillon Nicholas A Bokulich Christian C Abnet Gabriel A Al-Ghalith Harriet Alexander Eric J Alm Manimozhiyan Arumugam Francesco Asnicar Yang Bai Jordan E Bisanz Kyle Bittinger Asker Brejnrod Colin J Brislawn C Titus Brown Benjamin J Callahan Andrés Mauricio Caraballo-Rodríguez John Chase Emily K Cope Ricardo Da Silva Christian Diener Pieter C Dorrestein Gavin M Douglas Daniel M Durall Claire Duvallet Christian F Edwardson Madeleine Ernst Mehrbod Estaki Jennifer Fouquier Julia M Gauglitz Sean M Gibbons Deanna L Gibson Antonio Gonzalez Kestrel Gorlick Jiarong Guo Benjamin Hillmann Susan Holmes Hannes Holste Curtis Huttenhower Gavin A Huttley Stefan Janssen Alan K Jarmusch Lingjing Jiang Benjamin D Kaehler Kyo Bin Kang Christopher R Keefe Paul Keim Scott T Kelley Dan Knights Irina Koester Tomasz Kosciolek Jorden Kreps Morgan G I Langille Joslynn Lee Ruth Ley Yong-Xin Liu Erikka Loftfield Catherine Lozupone Massoud Maher Clarisse Marotz Bryan D Martin Daniel McDonald Lauren J McIver Alexey V Melnik Jessica L Metcalf Sydney C Morgan Jamie T Morton Ahmad Turan Naimey Jose A Navas-Molina Louis Felix Nothias Stephanie B Orchanian Talima Pearson Samuel L Peoples Daniel Petras Mary Lai Preuss Elmar Pruesse Lasse Buur Rasmussen Adam Rivers Michael S Robeson Patrick Rosenthal Nicola Segata Michael Shaffer Arron Shiffer Rashmi Sinha Se Jin Song John R Spear Austin D Swafford Luke R Thompson Pedro J Torres Pauline Trinh Anupriya Tripathi Peter J Turnbaugh Sabah Ul-Hasan Justin J J van der Hooft Fernando Vargas Yoshiki Vázquez-Baeza Emily Vogtmann Max von Hippel William Walters Yunhu Wan Mingxun Wang Jonathan Warren Kyle C Weber Charles H D Williamson Amy D Willis Zhenjiang Zech Xu Jesse R Zaneveld Yilong Zhang Qiyun Zhu Rob Knight J Gregory Caporaso

Nat Biotechnol 2019 Aug;37(8):852-857

Center for Applied Microbiome Science, Pathogen and Microbiome Institute, Northern Arizona University, Flagstaff, AZ, USA.

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http://dx.doi.org/10.1038/s41587-019-0209-9DOI Listing
August 2019

No bacteria found in healthy placentas.

Authors:
Nicola Segata

Nature 2019 Aug;572(7769):317-318

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http://dx.doi.org/10.1038/d41586-019-02262-8DOI Listing
August 2019

Sociodemographic variation in the oral microbiome.

Ann Epidemiol 2019 Jul 8;35:73-80.e2. Epub 2019 May 8.

Department of Epidemiology and Biostatistics, Graduate School of Public Health and Health Policy, City University of New York, New York, NY; Department of Global Health and Social Medicine, King's College London, London, UK.

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http://dx.doi.org/10.1016/j.annepidem.2019.03.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6626698PMC
July 2019

HMP16SData: Efficient Access to the Human Microbiome Project Through Bioconductor.

Am J Epidemiol 2019 Jun;188(6):1023-1026

Graduate School of Public Health and Health Policy, City University of New York, New York, New York.

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http://dx.doi.org/10.1093/aje/kwz006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6545282PMC
June 2019

Waldron et al. Reply to "Commentary on the HMP16SData Bioconductor Package".

Am J Epidemiol 2019 Jun;188(6):1031-1032

the Centre for Integrative Biology, University of Trento, Trento, Italy.

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http://dx.doi.org/10.1093/aje/kwz008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6545274PMC
June 2019

Tobacco exposure associated with oral microbiota oxygen utilization in the New York City Health and Nutrition Examination Study.

Ann Epidemiol 2019 Jun 28;34:18-25.e3. Epub 2019 Mar 28.

Department of Epidemiology and Biostatistics, City University of New York (CUNY), Graduate School of Public Health and Health Policy, New York; Institute for Implementation Science in Population Health, City University of New York, New York.

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http://dx.doi.org/10.1016/j.annepidem.2019.03.005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6548637PMC
June 2019

Multiple levels of the unknown in microbiome research.

BMC Biol 2019 06 12;17(1):48. Epub 2019 Jun 12.

Department CIBIO, University of Trento, Trento, Italy.

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http://dx.doi.org/10.1186/s12915-019-0667-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6560723PMC
June 2019

At the forefront of the sequencing revolution-notes from the RNGS19 conference.

Genome Biol 2019 05 30;20(1):93. Epub 2019 May 30.

Department CIBIO, University of Trento, Trento, Italy.

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http://dx.doi.org/10.1186/s13059-019-1714-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6542086PMC
May 2019

Distinct Genetic and Functional Traits of Human Intestinal Prevotella copri Strains Are Associated with Different Habitual Diets.

Cell Host Microbe 2019 Mar 21;25(3):444-453.e3. Epub 2019 Feb 21.

Department of Agricultural Sciences, University of Naples Federico II, Portici, Italy; Task Force on Microbiome Studies, University of Naples Federico II, Naples, Italy. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S19313128193004
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http://dx.doi.org/10.1016/j.chom.2019.01.004DOI Listing
March 2019

Draft Genome Sequence of the Cadmium-Resistant Strain JJU2, Belonging to the Family Hapalosiphonaceae of the Cyanobacteria.

Microbiol Resour Announc 2018 Aug 30;7(8). Epub 2018 Aug 30.

Research and Innovation Centre, Fondazione Edmund Mach, San Michele all'Adige, Italy.

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http://dx.doi.org/10.1128/MRA.00876-18DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6256517PMC
August 2018

Strain-Level Analysis of Mother-to-Child Bacterial Transmission during the First Few Months of Life.

Cell Host Microbe 2018 07;24(1):146-154.e4

The Broad Institute of MIT and Harvard, Cambridge, MA 02138, USA; Center for Computational and Integrative Biology, Massachusetts General Hospital, Boston, MA 02114, USA; Center for Microbiome Informatics and Therapeutics, Massachusetts Institute of Technology, Cambridge, MA 02138, USA. Electronic address:

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http://dx.doi.org/10.1016/j.chom.2018.06.007DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6091882PMC
July 2018

Profiling microbial strains in urban environments using metagenomic sequencing data.

Biol Direct 2018 05 9;13(1). Epub 2018 May 9.

Centre for Integrative Biology, University of Trento, Via Sommarive 9, 38123, Trento, TN, Italy.

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https://biologydirect.biomedcentral.com/articles/10.1186/s13
Publisher Site
http://dx.doi.org/10.1186/s13062-018-0211-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5944035PMC
May 2018

bioBakery: a meta'omic analysis environment.

Bioinformatics 2018 04;34(7):1235-1237

Department of Biostatistics, Harvard T. H. Chan School of Public Health, Boston, MA 02115, USA.

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http://dx.doi.org/10.1093/bioinformatics/btx754DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6030947PMC
April 2018

On the Road to Strain-Resolved Comparative Metagenomics.

Authors:
Nicola Segata

mSystems 2018 Mar-Apr;3(2). Epub 2018 Mar 13.

Centre for Integrative Biology, University of Trento, Trento, Italy.

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http://dx.doi.org/10.1128/mSystems.00190-17DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5850074PMC
March 2018

The Microbe Directory: An annotated, searchable inventory of microbes' characteristics.

Gates Open Res 2018 Jan 5;2. Epub 2018 Jan 5.

Department of Physiology and Biophysics, Weill Cornell Medicine, New York, NY, 10065, USA.

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http://dx.doi.org/10.12688/gatesopenres.12772.1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5883067PMC
January 2018

Large-scale comparative metagenomics of Blastocystis, a common member of the human gut microbiome.

ISME J 2017 12 22;11(12):2848-2863. Epub 2017 Aug 22.

Centre for Integrative Biology, University of Trento, Trento, Italy.

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http://dx.doi.org/10.1038/ismej.2017.139DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5702742PMC
December 2017

Shotgun metagenomics, from sampling to analysis.

Nat Biotechnol 2017 Sep;35(9):833-844

Centre for Integrative Biology, University of Trento, Trento, Italy.

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http://dx.doi.org/10.1038/nbt.3935DOI Listing
September 2017

Large-Scale Phylogenomics of the Group Highlights Taxonomic Inconsistencies and Reveals Novel Clade-Associated Features.

mSystems 2017 Jul-Aug;2(4). Epub 2017 Aug 22.

Research Group Environmental Ecology and Applied Microbiology, Department of Bioscience Engineering, University of Antwerp, Antwerp, Belgium.

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http://dx.doi.org/10.1128/mSystems.00061-17DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5566788PMC
August 2017

A Different Microbiome Gene Repertoire in the Airways of Cystic Fibrosis Patients with Severe Lung Disease.

Int J Mol Sci 2017 Jul 29;18(8). Epub 2017 Jul 29.

Territorial and Production Systems Sustainability Department, ENEA, Italian National Agency for New Technologies, Energy and Sustainable Economic Development, Casaccia Research Center, Rome 00123, Italy.

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http://dx.doi.org/10.3390/ijms18081654DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5578044PMC
July 2017

Long-adapter single-strand oligonucleotide probes for the massively multiplexed cloning of kilobase genome regions.

Nat Biomed Eng 2017 26;1. Epub 2017 Jun 26.

Department of Surgery, Center for Surgery, Innovation, & Bioengineering, Massachusetts General Hospital, Harvard Medical School and the Shriners Hospitals for Children, Boston, Massachusetts 02114, USA.

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http://dx.doi.org/10.1038/s41551-017-0092DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5687285PMC
June 2017

Microbial strain-level population structure and genetic diversity from metagenomes.

Genome Res 2017 04 6;27(4):626-638. Epub 2017 Feb 6.

Centre for Integrative Biology, University of Trento, 38123 Trento, Italy.

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http://dx.doi.org/10.1101/gr.216242.116DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5378180PMC
April 2017

Experimental metagenomics and ribosomal profiling of the human skin microbiome.

Exp Dermatol 2017 03 20;26(3):211-219. Epub 2017 Jan 20.

Centre for Integrative Biology, University of Trento, Trento, Italy.

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http://dx.doi.org/10.1111/exd.13210DOI Listing
March 2017

MetaMLST: multi-locus strain-level bacterial typing from metagenomic samples.

Nucleic Acids Res 2017 01 19;45(2):e7. Epub 2016 Sep 19.

Centre for Integrative Biology, University of Trento, Trento, TN 38123, Italy

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http://dx.doi.org/10.1093/nar/gkw837DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5314789PMC
January 2017

Machine Learning Meta-analysis of Large Metagenomic Datasets: Tools and Biological Insights.

PLoS Comput Biol 2016 07 11;12(7):e1004977. Epub 2016 Jul 11.

Centre for Integrative Biology, University of Trento, Trento, Italy.

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http://dx.doi.org/10.1371/journal.pcbi.1004977DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4939962PMC
July 2016

Strain-level microbial epidemiology and population genomics from shotgun metagenomics.

Nat Methods 2016 05 21;13(5):435-8. Epub 2016 Mar 21.

Centre for Integrative Biology, University of Trento, Trento, Italy.

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http://dx.doi.org/10.1038/nmeth.3802DOI Listing
May 2016

Uncovering oral Neisseria tropism and persistence using metagenomic sequencing.

Nat Microbiol 2016 05 27;1(7):16070. Epub 2016 May 27.

Centre for Integrative Biology, University of Trento, Via Sommarive 9, 38123 Trento, Italy.

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http://dx.doi.org/10.1038/nmicrobiol.2016.70DOI Listing
May 2016

High-Specificity Targeted Functional Profiling in Microbial Communities with ShortBRED.

PLoS Comput Biol 2015 Dec 18;11(12):e1004557. Epub 2015 Dec 18.

Department of Biostatistics, Harvard T.H. Chan School of Public Health, Boston, Massachusetts, United States of America.

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http://dx.doi.org/10.1371/journal.pcbi.1004557DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4684307PMC
December 2015

MetaPhlAn2 for enhanced metagenomic taxonomic profiling.

Nat Methods 2015 Oct;12(10):902-3

Centre for Integrative Biology, University of Trento, Trento, Italy.

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http://dx.doi.org/10.1038/nmeth.3589DOI Listing
October 2015

Compact graphical representation of phylogenetic data and metadata with GraPhlAn.

PeerJ 2015 18;3:e1029. Epub 2015 Jun 18.

Centre for Integrative Biology (CIBIO), University of Trento , Italy.

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http://dx.doi.org/10.7717/peerj.1029DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4476132PMC
July 2015

Gut Microbiome: Westernization and the Disappearance of Intestinal Diversity.

Authors:
Nicola Segata

Curr Biol 2015 Jul;25(14):R611-3

Centre for Integrative Biology, University of Trento, Via Sommarive 9, 38123 Povo (TN), Italy. Electronic address:

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http://dx.doi.org/10.1016/j.cub.2015.05.040DOI Listing
July 2015

Evaluation of bifidobacterial community composition in the human gut by means of a targeted amplicon sequencing (ITS) protocol.

FEMS Microbiol Ecol 2014 Nov 8;90(2):493-503. Epub 2014 Sep 8.

Department of Life Sciences, Laboratory of Probiogenomics, University of Parma, Parma, Italy.

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http://dx.doi.org/10.1111/1574-6941.12410DOI Listing
November 2014

Gut microbiome composition and function in experimental colitis during active disease and treatment-induced remission.

ISME J 2014 Jul 6;8(7):1403-17. Epub 2014 Feb 6.

1] Harvard School of Public Health, Boston, MA, USA [2] Harvard Medical School, Boston, MA, USA [3] Broad Institute of Harvard and MIT, Cambridge, MA, USA [4] Dana-Farber Cancer Institute, Boston, MA, USA.

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http://dx.doi.org/10.1038/ismej.2014.3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4069400PMC
July 2014

Evidence of natural Wolbachia infections in field populations of Anopheles gambiae.

Nat Commun 2014 Jun 6;5:3985. Epub 2014 Jun 6.

1] University of Perugia, Dipartimento di Medicina Sperimentale e Scienze Biochimiche, 05100 Terni, Italy [2] Harvard School of Public Health, Department of Immunology and Infectious Diseases, 665 Huntington Avenue, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1038/ncomms4985DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4059924PMC
June 2014

PhyloPhlAn is a new method for improved phylogenetic and taxonomic placement of microbes.

Nat Commun 2013 ;4:2304

Biostatistics Department, Harvard School of Public Health, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1038/ncomms3304DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3760377PMC
April 2014

MetaRef: a pan-genomic database for comparative and community microbial genomics.

Nucleic Acids Res 2014 Jan 6;42(Database issue):D617-24. Epub 2013 Nov 6.

Genome Sequencing and Analysis Program, Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA 02142, USA, Institute for Genome Sciences, University of Maryland School of Medicine, 801 W Baltimore St, Baltimore, MD 21201, USA, Biostatistics Department, Harvard School of Public Health, 655 Huntington Avenue, Boston, MA 02115, USA and Centre for Integrative Biology, University of Trento, via Sommarive 14, 38123 Povo (Trento), Italy.

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https://academic.oup.com/nar/article-lookup/doi/10.1093/nar/
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http://dx.doi.org/10.1093/nar/gkt1078DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3964974PMC
January 2014

Two-stage microbial community experimental design.

ISME J 2013 Dec 15;7(12):2330-9. Epub 2013 Aug 15.

1] Department of Biostatistics, Harvard School of Public Health, Boston, MA, USA [2] The Broad Institute of MIT and Harvard, Cambridge, MA, USA.

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http://dx.doi.org/10.1038/ismej.2013.139DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3834858PMC
December 2013

Expansion of intestinal Prevotella copri correlates with enhanced susceptibility to arthritis.

Elife 2013 Nov 5;2:e01202. Epub 2013 Nov 5.

Department of Medicine, New York University School of Medicine and Hospital for Joint Diseases, New York, United States.

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http://dx.doi.org/10.7554/eLife.01202DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3816614PMC
November 2013

A guide to enterotypes across the human body: meta-analysis of microbial community structures in human microbiome datasets.

PLoS Comput Biol 2013 10;9(1):e1002863. Epub 2013 Jan 10.

Department of Microbiology, Cornell University, Ithaca, New York, United States of America.

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http://dx.doi.org/10.1371/journal.pcbi.1002863DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3542080PMC
June 2013

Computational meta'omics for microbial community studies.

Mol Syst Biol 2013 May 14;9:666. Epub 2013 May 14.

Biostatistics Department, Harvard School of Public Health, Boston, MA, USA.

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http://dx.doi.org/10.1038/msb.2013.22DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4039370PMC
May 2013

Genome Sequence of Pseudomonas aeruginosa PA45, a Highly Virulent Strain Isolated from a Patient with Bloodstream Infection.

Genome Announc 2013 May 23;1(3). Epub 2013 May 23.

Centre for Integrative Biology, University of Trento, Trento, Italy.

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http://dx.doi.org/10.1128/genomeA.00289-13DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3662828PMC
May 2013

Biodiversity and functional genomics in the human microbiome.

Trends Genet 2013 Jan 7;29(1):51-8. Epub 2012 Nov 7.

Department of Biostatistics, Harvard School of Public Health, Boston, MA 02115, USA.

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http://dx.doi.org/10.1016/j.tig.2012.09.005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3534939PMC
January 2013

A metagenomic approach to characterization of the vaginal microbiome signature in pregnancy.

PLoS One 2012 13;7(6):e36466. Epub 2012 Jun 13.

Department of Obstetrics & Gynecology, Division of Maternal-Fetal Medicine, Baylor College of Medicine and Texas Children's Hospital, Houston, Texas, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0036466PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3374618PMC
December 2012

Metagenomic microbial community profiling using unique clade-specific marker genes.

Nat Methods 2012 Jun 10;9(8):811-4. Epub 2012 Jun 10.

Department of Biostatistics, Harvard School of Public Health, Boston, Massachusetts, USA.

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http://dx.doi.org/10.1038/nmeth.2066DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3443552PMC
June 2012

Toward an efficient method of identifying core genes for evolutionary and functional microbial phylogenies.

PLoS One 2011 12;6(9):e24704. Epub 2011 Sep 12.

Biostatistics Department, Harvard School of Public Health, Harvard University, Boston, Massachusetts, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0024704PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3171473PMC
February 2012

The genome of th17 cell-inducing segmented filamentous bacteria reveals extensive auxotrophy and adaptations to the intestinal environment.

Cell Host Microbe 2011 Sep;10(3):260-72

Molecular Pathogenesis Program, The Kimmel Center for Biology and Medicine of the Skirball Institute, New York University School of Medicine, USA.

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http://linkinghub.elsevier.com/retrieve/pii/S193131281100255
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http://dx.doi.org/10.1016/j.chom.2011.08.005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3209701PMC
September 2011

Metagenomic biomarker discovery and explanation.

Genome Biol 2011 Jun 24;12(6):R60. Epub 2011 Jun 24.

Department of Biostatistics, 677 Huntington Avenue, Harvard School of Public Health, Boston, MA 02115, USA.

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http://www.researchgate.net/profile/Dirk_Gevers/publication/
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http://genomebiology.biomedcentral.com/articles/10.1186/gb-2
Publisher Site
http://dx.doi.org/10.1186/gb-2011-12-6-r60DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3218848PMC
June 2011

Host and gut microbiota symbiotic factors: lessons from inflammatory bowel disease and successful symbionts.

Cell Microbiol 2011 Apr 14;13(4):508-17. Epub 2011 Feb 14.

Harvard School of Public Health, Boston, MA, USA.

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http://dx.doi.org/10.1111/j.1462-5822.2011.01572.xDOI Listing
April 2011

Towards the integration of computational systems biology and high-throughput data: supporting differential analysis of microarray gene expression data.

J Integr Bioinform 2008 Jan 28;5(1). Epub 2008 Jan 28.

Dipartimento di Ingegneria e Scienza dell'Informazione, University of Trento, Italy.

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http://dx.doi.org/10.2390/biecoll-jib-2008-87DOI Listing
January 2008