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Daniel A. Cuevas
Daniel A. Cuevas
Graduate Student of Computational Biology, San Diego State University
Verified email at sdsu.edu - Homepage
Title
Cited by
Cited by
Year
Critical assessment of metagenome interpretation—a benchmark of metagenomics software
A Sczyrba, P Hofmann, P Belmann, D Koslicki, S Janssen, J Dröge, ...
Nature methods 14 (11), 1063-1071, 2017
7272017
Critical assessment of metagenome interpretation—a benchmark of metagenomics software
A Sczyrba, P Hofmann, P Belmann, D Koslicki, S Janssen, J Dröge, ...
Nature methods 14 (11), 1063-1071, 2017
7272017
Critical assessment of metagenome interpretation—a benchmark of metagenomics software
A Sczyrba, P Hofmann, P Belmann, D Koslicki, S Janssen, J Dröge, ...
Nature methods 14 (11), 1063-1071, 2017
7272017
Global phylogeography and ancient evolution of the widespread human gut virus crAssphage
RA Edwards, AA Vega, HM Norman, M Ohaeri, K Levi, EA Dinsdale, ...
Nature microbiology 4 (10), 1727-1736, 2019
2092019
Accessing the SEED genome databases via Web services API: tools for programmers
T Disz, S Akhter, D Cuevas, R Olson, R Overbeek, V Vonstein, R Stevens, ...
BMC bioinformatics 11, 1-11, 2010
1422010
Accessing the SEED genome databases via Web services API: tools for programmers
T Disz, S Akhter, D Cuevas, R Olson, R Overbeek, V Vonstein, R Stevens, ...
BMC bioinformatics 11, 1-11, 2010
1422010
FOCUS: an alignment-free model to identify organisms in metagenomes using non-negative least squares
GGZ Silva, DA Cuevas, BE Dutilh, RA Edwards
PeerJ 2, e425, 2014
1112014
Dietary prophage inducers and antimicrobials: toward landscaping the human gut microbiome
L Boling, DA Cuevas, JA Grasis, HS Kang, B Knowles, K Levi, H Maughan, ...
Gut Microbes 11 (4), 721-734, 2020
702020
From DNA to FBA: how to build your own genome-scale metabolic model
DA Cuevas, J Edirisinghe, CS Henry, R Overbeek, TG O’Connell, ...
Frontiers in microbiology 7, 907, 2016
672016
Prophage genomics reveals patterns in phage genome organization and replication
HS Kang, K McNair, DA Cuevas, BA Bailey, AM Segall, RA Edwards
BioRxiv, 114819, 2017
382017
Comparative genomics of 274 Vibrio cholerae genomes reveals mobile functions structuring three niche dimensions
BE Dutilh, CC Thompson, ACP Vicente, MA Marin, C Lee, GGZ Silva, ...
BMC genomics 15, 1-11, 2014
372014
Cystic fibrosis rapid response: translating multi-omics data into clinically relevant information
AG Cobián Güemes, YW Lim, RA Quinn, DJ Conrad, S Benler, ...
MBio 10 (2), 10.1128/mbio. 00431-19, 2019
272019
Sequencing at sea: challenges and experiences in Ion Torrent PGM sequencing during the 2013 Southern Line Islands Research Expedition
YW Lim, DA Cuevas, GGZ Silva, K Aguinaldo, EA Dinsdale, AF Haas, ...
PeerJ 2, e520, 2014
242014
PMAnalyzer: a new web interface for bacterial growth curve analysis
DA Cuevas, RA Edwards
Bioinformatics 33 (12), 1905-1906, 2017
222017
Global phylogeography and ancient evolution of the widespread human gut virus crAssphage. Nat Microbiol 4: 1727–1736
RA Edwards, AA Vega, HM Norman, M Ohaeri, K Levi, EA Dinsdale, ...
202019
Phage phenomics: physiological approaches to characterize novel viral proteins
SE Sanchez, DA Cuevas, JE Rostron, TY Liang, CG Pivaroff, MR Haynes, ...
JoVE (Journal of Visualized Experiments), e52854, 2015
182015
Elucidating genomic gaps using phenotypic profiles
DA Cuevas, D Garza, SE Sanchez, J Rostron, CS Henry, V Vonstein, ...
F1000Research 3, 210, 2016
142016
FOCUS: an alignment-free model to identify organisms in metagenomes using non-negative least squares. PeerJ 2, e425
GGZ Silva, DA Cuevas, BE Dutilh, RA Edwards
132014
Towards predicting gut microbial metabolism: integration of flux balance analysis and untargeted metabolomics
E Kuang, M Marney, D Cuevas, RA Edwards, EM Forsberg
Metabolites 10 (4), 156, 2020
92020
Benchmark data sets, software results and reference data for the first CAMI challenge
A Sczyrba, P Hofman, P Belmann, D Koslicki, S Janssen, J Dröge, ...
GigaScience Database, 2017
42017
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