BUSCO update: novel and streamlined workflows along with broader and deeper phylogenetic coverage for scoring of eukaryotic, prokaryotic, and viral genomes M Manni, MR Berkeley, M Seppey, FA Simão, EM Zdobnov Molecular biology and evolution 38 (10), 4647-4654, 2021 | 2568 | 2021 |
BUSCO applications from quality assessments to gene prediction and phylogenomics RM Waterhouse, M Seppey, FA Simão, M Manni, P Ioannidis, ... Molecular biology and evolution 35 (3), 543-548, 2018 | 1909 | 2018 |
BUSCO: assessing genome assembly and annotation completeness M Seppey, M Manni, EM Zdobnov Gene prediction: methods and protocols, 227-245, 2019 | 1635 | 2019 |
OrthoDB v9. 1: cataloging evolutionary and functional annotations for animal, fungal, plant, archaeal, bacterial and viral orthologs EM Zdobnov, F Tegenfeldt, D Kuznetsov, RM Waterhouse, FA Simão, ... Nucleic acids research 45 (D1), D744-D749, 2017 | 446 | 2017 |
BUSCO: assessing genomic data quality and beyond M Manni, MR Berkeley, M Seppey, EM Zdobnov Current Protocols 1 (12), e323, 2021 | 426 | 2021 |
Gene prediction: methods and protocols M Seppey, M Manni, EM Zdobnov, M Kollmar Methods Mol. Biol 1962, 227-245, 2019 | 161 | 2019 |
The Bgee suite: integrated curated expression atlas and comparative transcriptomics in animals FB Bastian, J Roux, A Niknejad, A Comte, SS Fonseca Costa, ... Nucleic acids research 49 (D1), D831-D847, 2021 | 139 | 2021 |
OrthoDB v11: annotation of orthologs in the widest sampling of organismal diversity D Kuznetsov, F Tegenfeldt, M Manni, M Seppey, M Berkeley, ... Nucleic Acids Research 51 (D1), D445-D451, 2023 | 124 | 2023 |
Genomic Features of the Damselfly Calopteryx splendens Representing a Sister Clade to Most Insect Orders P Ioannidis, FA Simao, RM Waterhouse, M Manni, M Seppey, ... Genome biology and evolution 9 (2), 415-430, 2017 | 72 | 2017 |
The Genome of the Toluene-Degrading Pseudomonas veronii Strain 1YdBTEX2 and Its Differential Gene Expression in Contaminated Sand M Morales, V Sentchilo, C Bertelli, A Komljenovic, N Kryuchkova-Mostacci, ... PLoS One 11 (11), e0165850, 2016 | 33 | 2016 |
Genomic signatures accompanying the dietary shift to phytophagy in polyphagan beetles M Seppey, P Ioannidis, BC Emerson, C Pitteloud, M Robinson-Rechavi, ... Genome Biology 20, 1-14, 2019 | 30 | 2019 |
Using BUSCO to assess insect genomic resources RM Waterhouse, M Seppey, FA Simão, EM Zdobnov Insect Genomics: Methods and Protocols, 59-74, 2019 | 27 | 2019 |
LEMMI: A continuous benchmarking platform for metagenomics classifiers M Seppey, M Manni, EM Zdobnov Genome Research, gr. 260398.119, 2020 | 22* | 2020 |
Advancing Genomics with OrthoDB, BUSCO, and the LEM Framework EV Kriventseva, M Manni, M Seppey, F Tegenfeldt, M Berkeley, ... 4th Belgrade Bioinformatics Conference 4, 31-31, 2023 | | 2023 |
Benchmarking in (meta-) genomics: LEMMI & BUSCO M Seppey University of Geneva, 2020 | | 2020 |