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Jaime Huerta-Cepas
Jaime Huerta-Cepas
Group Leader at CBGP (UPM-INIA-CSIC), Madrid, Spain
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Zitiert von
Zitiert von
Jahr
STRING v11: protein–protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets
D Szklarczyk, AL Gable, D Lyon, A Junge, S Wyder, J Huerta-Cepas, ...
Nucleic acids research 47 (D1), D607-D613, 2019
159122019
STRING v10: protein–protein interaction networks, integrated over the tree of life
D Szklarczyk, A Franceschini, S Wyder, K Forslund, D Heller, ...
Nucleic acids research 43 (D1), D447-D452, 2015
108462015
eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses
J Huerta-Cepas, D Szklarczyk, D Heller, A Hernández-Plaza, SK Forslund, ...
Nucleic acids research 47 (D1), D309-D314, 2019
34832019
eggNOG-mapper v2: Functional Annotation, Orthology Assignments, and Domain Prediction at the Metagenomic Scale
CP Cantalapiedra, A Hernández-Plaza, I Letunic, P Bork, J Huerta-Cepas
Molecular Biology and Evolution 38 (12), 2021
24742021
Fast genome-wide functional annotation through orthology assignment by eggNOG-mapper
J Huerta-Cepas, K Forslund, LP Coelho, D Szklarczyk, LJ Jensen, ...
Molecular biology and evolution 34 (8), 2115-2122, 2017
24482017
eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences
J Huerta-Cepas, D Szklarczyk, K Forslund, H Cook, D Heller, MC Walter, ...
Nucleic acids research 44 (D1), D286-D293, 2016
20562016
Whole-genome analyses resolve early branches in the tree of life of modern birds
ED Jarvis, S Mirarab, AJ Aberer, B Li, P Houde, C Li, SYW Ho, ...
Science 346 (6215), 1320-1331, 2014
20172014
ETE 3: reconstruction, analysis, and visualization of phylogenomic data
J Huerta-Cepas, F Serra, P Bork
Molecular biology and evolution 33 (6), 1635-1638, 2016
19572016
Structure and function of the global topsoil microbiome
M Bahram, F Hildebrand, SK Forslund, JL Anderson, NA Soudzilovskaia, ...
Nature 560 (7717), 233-237, 2018
19062018
Genome Sequence of the Pea Aphid Acyrthosiphon pisum
International Aphid Genomics Consortium
PLoS biology 8 (2), e1000313, 2010
10142010
eggNOG v4. 0: nested orthology inference across 3686 organisms
S Powell, K Forslund, D Szklarczyk, K Trachana, A Roth, J Huerta-Cepas, ...
Nucleic acids research 42 (D1), D231-D239, 2014
6402014
Durable coexistence of donor and recipient strains after fecal microbiota transplantation
SS Li, A Zhu, V Benes, PI Costea, R Hercog, F Hildebrand, ...
Science 352 (6285), 586-589, 2016
5822016
ETE: a python Environment for Tree Exploration
J Huerta-Cepas, J Dopazo, T Gabaldón
BMC bioinformatics 11, 1-7, 2010
4552010
Microbial abundance, activity and population genomic profiling with mOTUs2
A Milanese, DR Mende, L Paoli, G Salazar, HJ Ruscheweyh, M Cuenca, ...
Nature communications 10 (1), 1014, 2019
4352019
Gene expression changes and community turnover differentially shape the global ocean metatranscriptome
G Salazar, L Paoli, A Alberti, J Huerta-Cepas, HJ Ruscheweyh, M Cuenca, ...
Cell 179 (5), 1068-1083. e21, 2019
3442019
PhylomeDB v4: zooming into the plurality of evolutionary histories of a genome
J Huerta-Cepas, S Capella-Gutierrez, LP Pryszcz, M Marcet-Houben, ...
Nucleic acids research 42 (D1), D897-D902, 2014
2562014
Phylemon 2.0: a suite of web-tools for molecular evolution, phylogenetics, phylogenomics and hypotheses testing
R Sánchez, F Serra, J Tárraga, I Medina, J Carbonell, L Pulido, ...
Nucleic acids research 39 (suppl_2), W470-W474, 2011
2542011
The human phylome
J Huerta-Cepas, H Dopazo, J Dopazo, T Gabaldón
Genome biology 8, 1-16, 2007
2412007
Standardized benchmarking in the quest for orthologs
AM Altenhoff, B Boeckmann, S Capella-Gutierrez, DA Dalquen, T DeLuca, ...
Nature methods 13 (5), 425-430, 2016
2392016
Profiling cellular diversity in sponges informs animal cell type and nervous system evolution
JM Musser, KJ Schippers, M Nickel, G Mizzon, AB Kohn, C Pape, ...
Science 374 (6568), 717-723, 2021
1962021
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