Deliverables
A report on the expert evaluation of the online engine and individual deployable packages using gold standard datasets. A whitepaper with recommendations to users concerning the choice of the platform (workstation, server, cloud).
Publications
Author(s):
Aaron C. Hartmann, Daniel Petras, Robert A. Quinn, Ivan Protsyuk, Frederick I. Archer, Emma Ransome, Gareth J. Williams, Barbara A. Bailey, Mark J. A. Vermeij, Theodore Alexandrov, Pieter C. Dorrestein, Forest L. Rohwer
Published in:
Proceedings of the National Academy of Sciences, Issue 114/44, 2017, Page(s) 11685-11690, ISSN 0027-8424
Publisher:
National Academy of Sciences
DOI:
10.1073/pnas.1710248114
Author(s):
Tal Luzzatto-Knaan, Neha Garg, Mingxun Wang, Evgenia Glukhov, Yao Peng, Gail Ackermann, Amnon Amir, Brendan M Duggan, Sergey Ryazanov, Lena Gerwick, Rob Knight, Theodore Alexandrov, Nuno Bandeira, William H Gerwick, Pieter C Dorrestein
Published in:
eLife, Issue 6, 2017, ISSN 2050-084X
Publisher:
eLife Sciences Publications
DOI:
10.7554/eLife.24214
Author(s):
Clifford A. Kapono, James T. Morton, Amina Bouslimani, Alexey V. Melnik, Kayla Orlinsky, Tal Luzzatto Knaan, Neha Garg, Yoshiki Vázquez-Baeza, Ivan Protsyuk, Stefan Janssen, Qiyun Zhu, Theodore Alexandrov, Larry Smarr, Rob Knight, Pieter C. Dorrestein
Published in:
Scientific Reports, Issue 8/1, 2018, ISSN 2045-2322
Publisher:
Nature Publishing Group
DOI:
10.1038/s41598-018-21541-4
Author(s):
Michaela Aichler, Daniela Borgmann, Jan Krumsiek, Achim Buck, Patrick E. MacDonald, Jocelyn E. Manning Fox, James Lyon, Peter E. Light, Susanne Keipert, Martin Jastroch, Annette Feuchtinger, Nikola S. Mueller, Na Sun, Andrew Palmer, Theodore Alexandrov, Martin Hrabe de Angelis, Susanne Neschen, Matthias H. Tschöp, Axel Walch
Published in:
Cell Metabolism, Issue 25/6, 2017, Page(s) 1334-1347.e4, ISSN 1550-4131
Publisher:
Cell Press
DOI:
10.1016/j.cmet.2017.04.012
Author(s):
Dieter Galea, Paolo Inglese, Lidia Cammack, Nicole Strittmatter, Monica Rebec, Reza Mirnezami, Ivan Laponogov, James Kinross, Jeremy Nicholson, Zoltan Takats, Kirill A. Veselkov
Published in:
Scientific Reports, Issue 7/1, 2017, ISSN 2045-2322
Publisher:
Nature Publishing Group
DOI:
10.1038/s41598-017-14092-7
Author(s):
Louis-Félix Nothias, Mélissa Nothias-Esposito, Ricardo da Silva, Mingxun Wang, Ivan Protsyuk, Zheng Zhang, Abi Sarvepalli, Pieter Leyssen, David Touboul, Jean Costa, Julien Paolini, Theodore Alexandrov, Marc Litaudon, Pieter C. Dorrestein
Published in:
Journal of Natural Products, Issue 81/4, 2018, Page(s) 758-767, ISSN 0163-3864
Publisher:
American Chemical Society
DOI:
10.1021/acs.jnatprod.7b00737
Author(s):
Ivan Laponogov, Noureddin Sadawi, Dieter Galea, Reza Mirnezami, Kirill A Veselkov
Published in:
Bioinformatics, Issue 34/12, 2018, Page(s) 2096-2102, ISSN 1367-4803
Publisher:
Oxford University Press
DOI:
10.1093/bioinformatics/bty080
Author(s):
Quan Gu, Kirill Veselkov
Published in:
Methods, 2018, ISSN 1046-2023
Publisher:
Academic Press
DOI:
10.1016/j.ymeth.2018.02.004
Author(s):
Dieter Galea, Ivan Laponogov, Kirill Veselkov
Published in:
Bioinformatics, Issue 34/14, 2018, Page(s) 2474-2482, ISSN 1367-4803
Publisher:
Oxford University Press
DOI:
10.1093/bioinformatics/bty152
Author(s):
Kirill Veselkov, Jonathan Sleeman, Emmanuelle Claude, Johannes P. C. Vissers, Dieter Galea, Anna Mroz, Ivan Laponogov, Mark Towers, Robert Tonge, Reza Mirnezami, Zoltan Takats, Jeremy K. Nicholson, James I. Langridge
Published in:
Scientific Reports, Issue 8/1, 2018, ISSN 2045-2322
Publisher:
Nature Publishing Group
DOI:
10.1038/s41598-018-22499-z
Author(s):
Judith M. Lotz, Franziska Hoffmann, Johannes Lotz, Stefan Heldmann, Dennis Trede, Janina Oetjen, Michael Becker, Günther Ernst, Peter Maass, Theodore Alexandrov, Orlando Guntinas-Lichius, Herbert Thiele, Ferdinand von Eggeling.
Published in:
Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, Issue Volume 1864, Issue 9, 2016, ISSN 1570-9639
Publisher:
Elsevier BV
DOI:
10.1016/j.bbapap.2016.08.018
Author(s):
Palmer, A., Trede, D., Alexandrov, T.
Published in:
Metabolomics, Issue 12: 107, 2016, Page(s) 107, ISSN 1573-3882
Publisher:
Springer Verlag
DOI:
10.1007/s11306-016-1047-0
Author(s):
Andrew Palmer, Prasad Phapale, Ilya Chernyavsky, Regis Lavigne, Dominik Fay, Artem Tarasov, Vitaly Kovalev, Jens Fuchser, Sergey Nikolenko, Charles Pineau, Michael Becker, Theodore Alexandrov
Published in:
Nature Methods, Issue 14/1, 2016, Page(s) 57-60, ISSN 1548-7091
Publisher:
Nature Publishing Group
DOI:
10.1038/nmeth.4072
Author(s):
Amina Bouslimani, Alexey V. Melnik, Zhenjiang Xu, Amnon Amir, Ricardo R. da Silva, Mingxun Wang, Nuno Bandeira, Theodore Alexandrov, Rob Knight, and Pieter C. Dorrestein
Published in:
PNAS, Issue vol 113 no 48, 2016, Page(s) E7645–E7654, ISSN 0027-8424
Publisher:
National Academy of Sciences
DOI:
10.1073/pnas.1610019113
Author(s):
John H.R. Burns, Theodore Alexandrov, Ekaterina Ovchinnikova, Ruth D. Gates, Misaki Takabayashi
Published in:
Journal of Invertebrate Pathology, Issue Volume 140, 2016, Page(s) 51-57, ISSN 0022-2011
Publisher:
Academic Press
DOI:
10.1016/j.jip.2016.08.007
Author(s):
Petras, Daniel; Wojnicz, Aneta; Morton, Jamie; McCall, Laura-Isobel; Hook, Vivian; Yang, Jin; Steffen, Dana; Quinn, Robert A.; Knight, Rob; Podvin, Sonia; Garg, Neha; Vargas, Fernando; Tuttle, Robert; Bouslimani, Amina; Dang, Tam; Kapono, Clifford A.; Ling, Tie-Jun; Sapp, Valerie; Luzzatto-Knaan, Tal; Meehan, Michael J; Shires, Sarah; Merritt, Jonathan K.; Jiang, Yike; Bandeira, Nuno; Todoric, Jel
Published in:
Analytical Chemistry, Issue 2, 2016, Page(s) 10775–10784, ISSN 0003-2700
Publisher:
American Chemical Society
DOI:
10.1021/acs.analchem.6b03456
Author(s):
Nima Abbassi-Ghadi, Ottmar Golf, Sacheen Kumar, Stefan Antonowicz, James S. McKenzie, Juzheng Huang, Nicole Strittmatter, Hiromi Kudo, Emrys A. Jones, Kirill Veselkov, Robert Goldin, Zoltan Takats, George B. Hanna
Published in:
Cancer Research, Issue 76/19, 2016, Page(s) 5647-5656, ISSN 0008-5472
Publisher:
American Association for Cancer Research
DOI:
10.1158/0008-5472.CAN-16-0699
Author(s):
Alexandrov, Theodore; Cichewicz, Robert H.; Sanchez, Laura M; Garg, Neha; Mohimani, Hosein; Zeng, Yi; Miao, Vivian; Edlund, Anna; Cai, Shengxin; Dorrestein, Pieter C.; Gurevich, Alexey; Luzzatto-Knaan, Tal; Lim, Yan Wei; Melnik, Alexey V; Rohwer, Forest; Pevzner, Pavel A.; Schiffler, Stefan
Published in:
mSystems, Issue Volume 1 Issue 6, 2016, ISSN 2379-5077
Publisher:
American Society for Microbiology
DOI:
10.1128/mSystems.00139-16
Author(s):
Misaki Takabayashi; Burns, John H.R.; Ruth D. Gates; Theodore Alexandrov; Katya Ovchinnikova
Published in:
Data in Brief, Issue 1, 2016, ISSN 2352-3409
Publisher:
Elsevier BV
DOI:
10.1016/j.dib.2016.09.009
Author(s):
Daniel Petras, Alan K Jarmusch, Pieter C Dorrestein
Published in:
Current Opinion in Chemical Biology, Issue Volume 36, 2017, Page(s) 24-31, ISSN 1367-5931
Publisher:
Elsevier BV
DOI:
10.1016/j.cbpa.2016.12.018
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