The metagenomics RAST server–a public resource for the automatic phylogenetic and functional analysis of metagenomes F Meyer, D Paarmann, M D'Souza, R Olson, EM Glass, M Kubal, ... BMC bioinformatics 9, 1-8, 2008 | 4109 | 2008 |
Identification of Functional Elements and Regulatory Circuits by Drosophila modENCODE modENCODE Consortium, S Roy, J Ernst, PV Kharchenko, P Kheradpour, ... Science 330 (6012), 1787-1797, 2010 | 1113 | 2010 |
Using the metagenomics RAST server (MG-RAST) for analyzing shotgun metagenomes EM Glass, J Wilkening, A Wilke, D Antonopoulos, F Meyer Cold Spring Harbor Protocols 2010 (1), pdb. prot5368, 2010 | 374 | 2010 |
The M5nr: a novel non-redundant database containing protein sequences and annotations from multiple sources and associated tools A Wilke, T Harrison, J Wilkening, D Field, EM Glass, N Kyrpides, ... BMC bioinformatics 13, 1-5, 2012 | 348 | 2012 |
A platform-independent method for detecting errors in metagenomic sequencing data: DRISEE KP Keegan, WL Trimble, J Wilkening, A Wilke, T Harrison, M D'Souza, ... PLoS computational biology 8 (6), e1002541, 2012 | 100 | 2012 |
A RESTful API for accessing microbial community data for MG-RAST A Wilke, J Bischof, T Harrison, T Brettin, M D'Souza, W Gerlach, ... PLoS computational biology 11 (1), e1004008, 2015 | 91 | 2015 |
Using clouds for metagenomics: a case study J Wilkening, A Wilke, N Desai, F Meyer 2009 IEEE International Conference on Cluster Computing and Workshops, 1-6, 2009 | 91 | 2009 |
Short-read reading-frame predictors are not created equal: sequence error causes loss of signal WL Trimble, KP Keegan, M D’Souza, A Wilke, J Wilkening, J Gilbert, ... BMC bioinformatics 13, 1-10, 2012 | 60 | 2012 |
A scalable data analysis platform for metagenomics W Tang, J Wilkening, N Desai, W Gerlach, A Wilke, F Meyer 2013 IEEE International Conference on Big Data, 21-26, 2013 | 44 | 2013 |
Connecting genotype to phenotype in the era of high-throughput sequencing CS Henry, R Overbeek, F Xia, AA Best, E Glass, J Gilbert, P Larsen, ... Biochimica et Biophysica Acta (BBA)-General Subjects 1810 (10), 967-977, 2011 | 44 | 2011 |
A metagenomics portal for a democratized sequencing world A Wilke, EM Glass, D Bartels, J Bischof, D Braithwaite, M D’Souza, ... Methods in Enzymology 531, 487-523, 2013 | 23 | 2013 |
An experience report: porting the MG‐RAST rapid metagenomics analysis pipeline to the cloud A Wilke, J Wilkening, EM Glass, NL Desai, F Meyer Concurrency and Computation: Practice and Experience 23 (17), 2250-2257, 2011 | 17 | 2011 |
MG-RAST technical report and manual for version 3.3. 6–Rev 1 A Wilke, E Glass, J Bischof, D Braithwaite, M Souza, W Gerlach Lemont, IL: Argonne National Laboratory, 2013 | 11 | 2013 |
Shock: active storage for multicloud streaming data analysis J Bischof, A Wilke, W Gerlach, T Harrison, T Paczian, W Tang, W Trimble, ... 2015 IEEE/ACM 2nd International Symposium on Big Data Computing (BDC), 68-72, 2015 | 9 | 2015 |
MG-RAST Manural for version 3.6, revision 3 A Wilke, EM Glass, J Bischof, D Braithwaite, W Gerlach, T Harrison, ... MGRAST, 2015 | 7 | 2015 |
Report of the 13th Genomic Standards Consortium Meeting, Shenzhen, China, March 4–7, 2012 JA Gilbert, Y Bao, H Wang, SA Sansone, SC Edmunds, N Morrison, ... Standards in genomic sciences 6, 276-286, 2012 | 4 | 2012 |
Building scalable data management and analysis infrastructure for metagenomics W Tang, J Wilkening, J Bischof, W Gerlach, A Wilke, N Desai, F Meyer 5th International Workshop on Data-Intensive Computing in the Clouds, Poster …, 2013 | 3 | 2013 |
Molecular methods for biofilms I Ferrera, V Balagué, CR Voolstra, M Aranda, T Bayer, RMM Abed, ... Biofouling Methods, 87-137, 2014 | 1 | 2014 |
North American soil metagenomes cluster by ecosystem type and edaphic factors DA Antonopoulos, SL O’Brien, KP Keegan, A Amarr, BS Bates, JM Brulc, ... Science (in preparation), 0 | 1 | |
Section 4 Metagenomics SM Owens, J Wilkening, JL Fessler, JA Gilbert Biofouling Methods, 125, 2014 | | 2014 |