| A new genomic blueprint of the human gut microbiota A Almeida, AL Mitchell, M Boland, SC Forster, GB Gloor, A Tarkowska, ... Nature 568 (7753), 499-504, 2019 | 1125 | 2019 |
| A unified catalog of 204,938 reference genomes from the human gut microbiome A Almeida, S Nayfach, M Boland, F Strozzi, M Beracochea, ZJ Shi, ... Nature Biotechnology 39, 105–114, 2021 | 746 | 2021 |
| MGnify: the microbiome analysis resource in 2020 AL Mitchell, A Almeida, M Beracochea, M Boland, J Burgin, G Cochrane, ... Nucleic Acids Research 48 (D1), D570-D578, 2020 | 485 | 2020 |
| A human gut bacterial genome and culture collection for improved metagenomic analyses SC Forster, N Kumar, BO Anonye, A Almeida, E Viciani, MD Stares, ... Nature Biotechnology 37 (2), 186-192, 2019 | 476 | 2019 |
| Massive expansion of human gut bacteriophage diversity LF Camarillo-Guerrero, A Almeida, G Rangel-Pineros, RD Finn, ... Cell 184 (4), 1098-1109.e9, 2021 | 369 | 2021 |
| 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 | 346 | 2019 |
| Computational strategies to combat COVID-19: useful tools to accelerate SARS-CoV-2 and coronavirus research F Hufsky, K Lamkiewicz, A Almeida, A Aouacheria, C Arighi, A Bateman, ... Briefings in Bioinformatics, bbaa232, 2021 | 144 | 2021 |
| Benchmarking taxonomic assignments based on 16S rRNA gene profiling of the microbiota from commonly sampled environments A Almeida, AL Mitchell, A Tarkowska, RD Finn GigaScience 7 (5), 2018 | 122 | 2018 |
| A catalogue of 1,167 genomes from the human gut archaeome CM Chibani, A Mahnert, G Borrel, A Almeida, A Werner, JF Brugère, ... Nature Microbiology 7, 48–61, 2022 | 94 | 2022 |
| Integrating cultivation and metagenomics for a multi-kingdom view of skin microbiome diversity and functions S Saheb Kashaf, DM Proctor, C Deming, P Saary, M Hölzer, ME Taylor, ... Nature Microbiology 7, 169-179, 2022 | 80 | 2022 |
| The Mouse Gastrointestinal Bacteria Catalogue enables translation between the mouse and human gut microbiotas via functional mapping BS Beresford-Jones, SC Forster, MD Stares, G Notley, E Viciani, ... Cell Host & Microbe 30, 124-138.e8, 2022 | 70 | 2022 |
| Phylogenomics of expanding uncultured environmental Tenericutes provides insights into their pathogenicity and evolutionary relationship with Bacilli Y Wang, JM Huang, YL Zhou, A Almeida, RD Finn, A Danchin, LS He BMC Genomics 21, 408, 2020 | 67 | 2020 |
| Persistence of a dominant bovine lineage of group B Streptococcus reveals genomic signatures of host adaptation A Almeida, C Alves‐Barroco, E Sauvage, R Bexiga, P Albuquerque, ... Environmental Microbiology 18 (11), 4216-4229, 2016 | 43 | 2016 |
| The Bacteroidetes Aequorivita sp. and Kaistella jeonii produce promiscuous esterases with PET-hydrolyzing activity H Zhang, P Pérez-García, RF Dierkes, V Applegate, J Schumacher, ... Frontiers in Microbiology 12, 3874, 2022 | 40* | 2022 |
| Host adaptation in gut Firmicutes is associated with sporulation loss and altered transmission cycle HP Browne, A Almeida, N Kumar, K Vervier, AT Adoum, E Viciani, ... Genome Biology 22, 204, 2021 | 37 | 2021 |
| Whole-genome comparison uncovers genomic mutations between group B streptococci sampled from infected newborns and their mothers A Almeida, A Villain, C Joubrel, G Touak, E Sauvage, I Rosinski-Chupin, ... Journal of Bacteriology 197 (20), 3354-3366, 2015 | 30 | 2015 |
| Parallel evolution of group B Streptococcus hypervirulent clonal complex 17 unveils new pathoadaptive mutations A Almeida, I Rosinski-Chupin, C Plainvert, PE Douarre, MJ Borrego, ... mSystems 2 (5), e00074-17, 2017 | 29 | 2017 |
| Recovering prokaryotic genomes from host-associated, short-read shotgun metagenomic sequencing data SS Kashaf, A Almeida, JA Segre, RD Finn Nature Protocols 16 (5), 2520-2541, 2021 | 28 | 2021 |
| Baseline gut microbiota composition is associated with Schistosoma mansoni infection burden in rodent models A Cortes, S Clare, A Costain, A Almeida, C McCarthy, K Harcourt, ... Frontiers in Immunology, 2020 | 28 | 2020 |
| Genome properties in 2019: a new companion database to InterPro for the inference of complete functional attributes LJ Richardson, ND Rawlings, GA Salazar, A Almeida, DR Haft, G Ducq, ... Nucleic Acids Research 47 (D1), D564-D572, 2019 | 28 | 2019 |
Robert D. FinnMicrobiome Informatics Team Leader, EMBL-EBI, Wellcome Trust Genome Campus, Hinxton, Cambs, CB10 1SDVerified email at ebi.ac.uk
