Publications by authors named "Renzo Kottmann"

45Publications

The antiSMASH database, a comprehensive database of microbial secondary metabolite biosynthetic gene clusters.

Authors:
Kai Blin Marnix H Medema Renzo Kottmann Sang Yup Lee Tilmann Weber

Nucleic Acids Res 2017 01 24;45(D1):D555-D559. Epub 2016 Oct 24.

The Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, 2800 Kgs. Lyngby, Denmark

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January 2017

BioVeL: a virtual laboratory for data analysis and modelling in biodiversity science and ecology.

Authors:
Alex R Hardisty Finn Bacall Niall Beard Maria-Paula Balcázar-Vargas Bachir Balech Zoltán Barcza Sarah J Bourlat Renato De Giovanni Yde de Jong Francesca De Leo Laura Dobor Giacinto Donvito Donal Fellows Antonio Fernandez Guerra Nuno Ferreira Yuliya Fetyukova Bruno Fosso Jonathan Giddy Carole Goble Anton Güntsch Robert Haines Vera Hernández Ernst Hannes Hettling Dóra Hidy Ferenc Horváth Dóra Ittzés Péter Ittzés Andrew Jones Renzo Kottmann Robert Kulawik Sonja Leidenberger Päivi Lyytikäinen-Saarenmaa Cherian Mathew Norman Morrison Aleksandra Nenadic Abraham Nieva de la Hidalga Matthias Obst Gerard Oostermeijer Elisabeth Paymal Graziano Pesole Salvatore Pinto Axel Poigné Francisco Quevedo Fernandez Monica Santamaria Hannu Saarenmaa Gergely Sipos Karl-Heinz Sylla Marko Tähtinen Saverio Vicario Rutger Aldo Vos Alan R Williams Pelin Yilmaz

BMC Ecol 2016 10 20;16(1):49. Epub 2016 Oct 20.

Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, 28359, Bremen, Germany.

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October 2016

MyOSD 2014: Evaluating Oceanographic Measurements Contributed by Citizen Scientists in Support of Ocean Sampling Day.

Authors:
Julia Schnetzer Anna Kopf Matthew J Bietz Pier Luigi Buttigieg Antonio Fernandez-Guerra Aleksandar Pop Ristov Frank Oliver Glöckner Renzo Kottmann

J Microbiol Biol Educ 2016 Mar 1;17(1):163-71. Epub 2016 Mar 1.

Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, Bremen, D-28359, Germany.

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March 2016

Minimum Information about a Biosynthetic Gene cluster.

Authors:
Marnix H Medema Renzo Kottmann Pelin Yilmaz Matthew Cummings John B Biggins Kai Blin Irene de Bruijn Yit Heng Chooi Jan Claesen R Cameron Coates Pablo Cruz-Morales Srikanth Duddela Stephanie Düsterhus Daniel J Edwards David P Fewer Neha Garg Christoph Geiger Juan Pablo Gomez-Escribano Anja Greule Michalis Hadjithomas Anthony S Haines Eric J N Helfrich Matthew L Hillwig Keishi Ishida Adam C Jones Carla S Jones Katrin Jungmann Carsten Kegler Hyun Uk Kim Peter Kötter Daniel Krug Joleen Masschelein Alexey V Melnik Simone M Mantovani Emily A Monroe Marcus Moore Nathan Moss Hans-Wilhelm Nützmann Guohui Pan Amrita Pati Daniel Petras F Jerry Reen Federico Rosconi Zhe Rui Zhenhua Tian Nicholas J Tobias Yuta Tsunematsu Philipp Wiemann Elizabeth Wyckoff Xiaohui Yan Grace Yim Fengan Yu Yunchang Xie Bertrand Aigle Alexander K Apel Carl J Balibar Emily P Balskus Francisco Barona-Gómez Andreas Bechthold Helge B Bode Rainer Borriss Sean F Brady Axel A Brakhage Patrick Caffrey Yi-Qiang Cheng Jon Clardy Russell J Cox René De Mot Stefano Donadio Mohamed S Donia Wilfred A van der Donk Pieter C Dorrestein Sean Doyle Arnold J M Driessen Monika Ehling-Schulz Karl-Dieter Entian Michael A Fischbach Lena Gerwick William H Gerwick Harald Gross Bertolt Gust Christian Hertweck Monica Höfte Susan E Jensen Jianhua Ju Leonard Katz Leonard Kaysser Jonathan L Klassen Nancy P Keller Jan Kormanec Oscar P Kuipers Tomohisa Kuzuyama Nikos C Kyrpides Hyung-Jin Kwon Sylvie Lautru Rob Lavigne Chia Y Lee Bai Linquan Xinyu Liu Wen Liu Andriy Luzhetskyy Taifo Mahmud Yvonne Mast Carmen Méndez Mikko Metsä-Ketelä Jason Micklefield Douglas A Mitchell Bradley S Moore Leonilde M Moreira Rolf Müller Brett A Neilan Markus Nett Jens Nielsen Fergal O'Gara Hideaki Oikawa Anne Osbourn Marcia S Osburne Bohdan Ostash Shelley M Payne Jean-Luc Pernodet Miroslav Petricek Jörn Piel Olivier Ploux Jos M Raaijmakers José A Salas Esther K Schmitt Barry Scott Ryan F Seipke Ben Shen David H Sherman Kaarina Sivonen Michael J Smanski Margherita Sosio Evi Stegmann Roderich D Süssmuth Kapil Tahlan Christopher M Thomas Yi Tang Andrew W Truman Muriel Viaud Jonathan D Walton Christopher T Walsh Tilmann Weber Gilles P van Wezel Barrie Wilkinson Joanne M Willey Wolfgang Wohlleben Gerard D Wright Nadine Ziemert Changsheng Zhang Sergey B Zotchev Rainer Breitling Eriko Takano Frank Oliver Glöckner

Nat Chem Biol 2015 Sep;11(9):625-31

1] Microbial Genomics and Bioinformatics Research Group, Max Planck Institute for Marine Microbiology, Bremen, Germany. [2] Jacobs University Bremen gGmbH, Bremen, Germany.

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September 2015

Marine microbial biodiversity, bioinformatics and biotechnology (M2B3) data reporting and service standards.

Authors:
Petra Ten Hoopen Stéphane Pesant Renzo Kottmann Anna Kopf Mesude Bicak Simon Claus Klaas Deneudt Catherine Borremans Peter Thijsse Stefanie Dekeyzer Dick Ma Schaap Chris Bowler Frank Oliver Glöckner Guy Cochrane

Stand Genomic Sci 2015 8;10:20. Epub 2015 May 8.

European Nucleotide Archive, EMBL-EBI, Wellcome Trust Genome Campus Hinxton, Cambridge CB10 1SD, UK.

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July 2015

The ocean sampling day consortium.

Authors:
Anna Kopf Mesude Bicak Renzo Kottmann Julia Schnetzer Ivaylo Kostadinov Katja Lehmann Antonio Fernandez-Guerra Christian Jeanthon Eyal Rahav Matthias Ullrich Antje Wichels Gunnar Gerdts Paraskevi Polymenakou Giorgos Kotoulas Rania Siam Rehab Z Abdallah Eva C Sonnenschein Thierry Cariou Fergal O'Gara Stephen Jackson Sandi Orlic Michael Steinke Julia Busch Bernardo Duarte Isabel Caçador João Canning-Clode Oleksandra Bobrova Viggo Marteinsson Eyjolfur Reynisson Clara Magalhães Loureiro Gian Marco Luna Grazia Marina Quero Carolin R Löscher Anke Kremp Marie E DeLorenzo Lise Øvreås Jennifer Tolman Julie LaRoche Antonella Penna Marc Frischer Timothy Davis Barker Katherine Christopher P Meyer Sandra Ramos Catarina Magalhães Florence Jude-Lemeilleur Ma Leopoldina Aguirre-Macedo Shiao Wang Nicole Poulton Scott Jones Rachel Collin Jed A Fuhrman Pascal Conan Cecilia Alonso Noga Stambler Kelly Goodwin Michael M Yakimov Federico Baltar Levente Bodrossy Jodie Van De Kamp Dion Mf Frampton Martin Ostrowski Paul Van Ruth Paul Malthouse Simon Claus Klaas Deneudt Jonas Mortelmans Sophie Pitois David Wallom Ian Salter Rodrigo Costa Declan C Schroeder Mahrous M Kandil Valentina Amaral Florencia Biancalana Rafael Santana Maria Luiza Pedrotti Takashi Yoshida Hiroyuki Ogata Tim Ingleton Kate Munnik Naiara Rodriguez-Ezpeleta Veronique Berteaux-Lecellier Patricia Wecker Ibon Cancio Daniel Vaulot Christina Bienhold Hassan Ghazal Bouchra Chaouni Soumya Essayeh Sara Ettamimi El Houcine Zaid Noureddine Boukhatem Abderrahim Bouali Rajaa Chahboune Said Barrijal Mohammed Timinouni Fatima El Otmani Mohamed Bennani Marianna Mea Nadezhda Todorova Ventzislav Karamfilov Petra Ten Hoopen Guy Cochrane Stephane L'Haridon Kemal Can Bizsel Alessandro Vezzi Federico M Lauro Patrick Martin Rachelle M Jensen Jamie Hinks Susan Gebbels Riccardo Rosselli Fabio De Pascale Riccardo Schiavon Antonina Dos Santos Emilie Villar Stéphane Pesant Bruno Cataletto Francesca Malfatti Ranjith Edirisinghe Jorge A Herrera Silveira Michele Barbier Valentina Turk Tinkara Tinta Wayne J Fuller Ilkay Salihoglu Nedime Serakinci Mahmut Cerkez Ergoren Eileen Bresnan Juan Iriberri Paul Anders Fronth Nyhus Edvardsen Bente Hans Erik Karlsen Peter N Golyshin Josep M Gasol Snejana Moncheva Nina Dzhembekova Zackary Johnson Christopher David Sinigalliano Maribeth Louise Gidley Adriana Zingone Roberto Danovaro George Tsiamis Melody S Clark Ana Cristina Costa Monia El Bour Ana M Martins R Eric Collins Anne-Lise Ducluzeau Jonathan Martinez Mark J Costello Linda A Amaral-Zettler Jack A Gilbert Neil Davies Dawn Field Frank Oliver Glöckner

Gigascience 2015 19;4:27. Epub 2015 Jun 19.

Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, D-28359 Bremen, Germany ; Jacobs University Bremen gGmbH, Campus Ring 1, D-28759 Bremen, Germany.

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July 2016

Genomic standards consortium projects.

Authors:
Dawn Field Peter Sterk Renzo Kottmann J Wim De Smet Linda Amaral-Zettler Guy Cochrane James R Cole Neil Davies Peter Dawyndt George M Garrity Jack A Gilbert Frank Oliver Glöckner Lynette Hirschman Hans-Peter Klenk Rob Knight Nikos Kyrpides Folker Meyer Ilene Karsch-Mizrachi Norman Morrison Robert Robbins Inigo San Gil Susanna Sansone Lynn Schriml Tatiana Tatusova Dave Ussery Pelin Yilmaz Owen White John Wooley Gregory Caporaso

Stand Genomic Sci 2014 Jun 15;9(3):599-601. Epub 2014 Feb 15.

Center for Microbial Genetics and Genomics, Northern Arizona University, Flagstaff, Arizona, USA .

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June 2014

The founding charter of the Genomic Observatories Network.

Authors:
Neil Davies Dawn Field Linda Amaral-Zettler Melody S Clark John Deck Alexei Drummond Daniel P Faith Jonathan Geller Jack Gilbert Frank Oliver Glöckner Penny R Hirsch Jo-Ann Leong Chris Meyer Matthias Obst Serge Planes Chris Scholin Alfried P Vogler Ruth D Gates Rob Toonen Véronique Berteaux-Lecellier Michèle Barbier Katherine Barker Stefan Bertilsson Mesude Bicak Matthew J Bietz Jason Bobe Levente Bodrossy Angel Borja Jonathan Coddington Jed Fuhrman Gunnar Gerdts Rosemary Gillespie Kelly Goodwin Paul C Hanson Jean-Marc Hero David Hoekman Janet Jansson Christian Jeanthon Rebecca Kao Anna Klindworth Rob Knight Renzo Kottmann Michelle S Koo Georgios Kotoulas Andrew J Lowe Viggó Thór Marteinsson Folker Meyer Norman Morrison David D Myrold Evangelos Pafilis Stephanie Parker John Jacob Parnell Paraskevi N Polymenakou Sujeevan Ratnasingham George K Roderick Naiara Rodriguez-Ezpeleta Karsten Schonrogge Nathalie Simon Nathalie J Valette-Silver Yuri P Springer Graham N Stone Steve Stones-Havas Susanna-Assunta Sansone Kate M Thibault Patricia Wecker Antje Wichels John C Wooley Tetsukazu Yahara Adriana Zingone

Gigascience 2014 Mar 7;3(1). Epub 2014 Mar 7.

Gump South Pacific Research Station, University of California Berkeley, BP 244 98728 Moorea, French Polynesia.

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March 2014

A metagenomics portal for a democratized sequencing world.

Authors:
Andreas Wilke Elizabeth M Glass Daniela Bartels Jared Bischof Daniel Braithwaite Mark D'Souza Wolfgang Gerlach Travis Harrison Kevin Keegan Hunter Matthews Renzo Kottmann Tobias Paczian Wei Tang William L Trimble Pelin Yilmaz Jared Wilkening Narayan Desai Folker Meyer

Methods Enzymol 2013 ;531:487-523

Argonne National Laboratory, Lemont, Illinois, USA; University of Chicago, Chicago, Illinois, USA.

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April 2014

Ecogenomic perspectives on domains of unknown function: correlation-based exploration of marine metagenomes.

Authors:
Pier Luigi Buttigieg Wolfgang Hankeln Ivaylo Kostadinov Renzo Kottmann Pelin Yilmaz Melissa Beth Duhaime Frank Oliver Glöckner

PLoS One 2013 14;8(3):e50869. Epub 2013 Mar 14.

Microbial Genomics and Bioinformatics Group, Max Planck Institute for Marine Microbiology, Bremen, Germany.

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September 2013

Meeting Report: Hackathon-Workshop on Darwin Core and MIxS Standards Alignment (February 2012).

Authors:
Eamonn Ó Tuama John Deck Gabriel Dröge Markus Döring Dawn Field Renzo Kottmann Juncai Ma Hiroshi Mori Norman Morrison Peter Sterk Hideaki Sugawara John Wieczorek Linhuan Wu Pelin Yilmaz

Stand Genomic Sci 2012 Oct 28;7(1):166-70. Epub 2012 Sep 28.

Global Biodiversity Information Facility, GBIF Secretariat, Copenhagen, Denmark.

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October 2012

RCN4GSC Workshop Report: Managing Data at the Interface of Biodiversity and (Meta)Genomics, March 2011.

Authors:
Robert J Robbins Linda Amaral-Zettler Holly Bik Stan Blum James Edwards Dawn Field George Garrity Jack A Gilbert Renzo Kottmann Leonard Krishtalka Hilmar Lapp Carolyn Lawrence Norman Morrison Eamonn Ó Tuama Cynthia Parr Inigo San Gil David Schindel Lynn Schriml David Vieglas John Wooley

Stand Genomic Sci 2012 Oct 28;7(1):159-65. Epub 2012 Jul 28.

University of California San Diego, La Jolla, California, USA.

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October 2012

RCN4GSC Workshop Report: Modeling a Testbed for Managing Data at the Interface of Biodiversity and (Meta)Genomics, April 2011.

Authors:
Robert J Robbins Guy Cochrane Neil Davies Peter Dawyndt Renzo Kottmann Leonard Kris Krishtalka Norman Morrison Eamonn Ó Tuama Inigo San Gil John Wooley

Stand Genomic Sci 2012 Oct 24;7(1):153-8. Epub 2012 Sep 24.

University of California San Diego, La Jolla, California, USA.

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October 2012

RCN4GSC Meeting Report: Initiating a Testbed for Managing Data at the Interface of Biodiversity and Genomics/Metagenomics, May 2011.

Authors:
Robert J Robbins James Beach Stan Blum Peter Dawyndt John Deck Renzo Kottmann Norman Morrison Eamonn Ó Tuama Inigo San Gil David Vieglas John Wieczorek John Wooley

Stand Genomic Sci 2012 Oct 28;7(1):171-4. Epub 2012 Sep 28.

University of California San Diego, La Jolla, California USA.

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October 2012

Ecological structuring of bacterial and archaeal taxa in surface ocean waters.

Authors:
Pelin Yilmaz Morten H Iversen Wolfgang Hankeln Renzo Kottmann Christian Quast Frank O Glöckner

FEMS Microbiol Ecol 2012 Aug 10;81(2):373-85. Epub 2012 Apr 10.

Max Planck Institute for Marine Microbiology, Bremen, Germany.

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August 2012

A second special issue of Standards In Genomic Sciences from the Genomic Standards Consortium.

Authors:
Dawn Field Renzo Kottmann Norman Morrison Peter Sterk

Stand Genomic Sci 2011 Nov 22;5(2):194. Epub 2011 Nov 22.

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November 2011

CDinFusion--submission-ready, on-line integration of sequence and contextual data.

Authors:
Wolfgang Hankeln Norma Johanna Wendel Jan Gerken Jost Waldmann Pier Luigi Buttigieg Ivaylo Kostadinov Renzo Kottmann Pelin Yilmaz Frank Oliver Glöckner

PLoS One 2011 13;6(9):e24797. Epub 2011 Sep 13.

Max Planck Institute for Marine Microbiology, Bremen, Germany.

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February 2012

The Genomic Standards Consortium.

Authors:
Dawn Field Linda Amaral-Zettler Guy Cochrane James R Cole Peter Dawyndt George M Garrity Jack Gilbert Frank Oliver Glöckner Lynette Hirschman Ilene Karsch-Mizrachi Hans-Peter Klenk Rob Knight Renzo Kottmann Nikos Kyrpides Folker Meyer Inigo San Gil Susanna-Assunta Sansone Lynn M Schriml Peter Sterk Tatiana Tatusova David W Ussery Owen White John Wooley

PLoS Biol 2011 Jun 21;9(6):e1001088. Epub 2011 Jun 21.

Centre for Ecology & Hydrology, Maclean Building, Crowmarsh Gifford, Wallingford, Oxfordshire, United Kingdom.

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June 2011

Data shopping in an open marketplace: Introducing the Ontogrator web application for marking up data using ontologies and browsing using facets.

Authors:
Norman Morrison David Hancock Lynette Hirschman Peter Dawyndt Bert Verslyppe Nikos Kyrpides Renzo Kottmann Pelin Yilmaz Frank Oliver Glöckner Jeff Grethe Tim Booth Peter Sterk Goran Nenadic Dawn Field

Stand Genomic Sci 2011 Apr;4(2):286-92

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April 2011

Enriching public descriptions of marine phages using the Genomic Standards Consortium MIGS standard.

Authors:
Melissa Beth Duhaime Renzo Kottmann Dawn Field Frank Oliver Glöckner

Stand Genomic Sci 2011 Apr;4(2):271-85

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April 2011