Finn, Robert D

Pfam: The protein families database in 2021

Mistry, J., Chuguransky, S., Williams, L., Qureshi, M., Salazar, G. A., Sonnhammer, E. L. L., Tosatto, S. C. E., Paladin, L., Raj, S., Richardson, L. J., et al. (2021) · Nucleic Acids Research

Genomics and Phylogenetic StudiesMachine Learning in Bioinformatics

Cited by 7,452

Pfam: the protein families database

Finn, R. D., Bateman, A., Clements, J., Coggill, P., Eberhardt, R. Y., Eddy, S. R., Heger, A., Hetherington, K., Holm, L., Mistry, J., et al. (2014) · Nucleic Acids Research

Genomics and Phylogenetic StudiesEnzyme Structure and Function

Cited by 6,148

The Pfam protein families database: towards a more sustainable future

Finn, R. D., Coggill, P., Eberhardt, R. Y., Eddy, S. R., Mistry, J., Mitchell, A. L., Potter, S. C., Punta, M., Qureshi, M., Sangrador-Vegas, A., et al. (2016) · Nucleic Acids Research

Genomics and Phylogenetic StudiesMachine Learning in Bioinformatics

Cited by 5,975

HMMER web server: interactive sequence similarity searching

Finn, R. D., Clements, J., & Eddy, S. R. (2011) · Nucleic Acids Research

Genomics and Phylogenetic StudiesMachine Learning in Bioinformatics

Cited by 5,952

The Pfam protein families database in 2019

El-Gebali, S., Mistry, J., Bateman, A., Eddy, S. R., Luciani, A., Potter, S. C., Qureshi, M., Richardson, L. J., Salazar, G. A., Smart, A., et al. (2019) · Nucleic Acids Research

Genomics and Phylogenetic StudiesProtein Structure and Dynamics

Cited by 4,602

The EMBL-EBI search and sequence analysis tools APIs in 2019

Madeira, F., Park, Y. M., Lee, J., Buso, N., Gur, T., Madhusoodanan, N., Basutkar, P., Tivey, A. R. N., Potter, S. C., Finn, R. D., et al. (2019) · Nucleic Acids Research

Scientific Computing and Data ManagementGenomics and Phylogenetic Studies

Cited by 4,167

The Pfam protein families database

Punta, M., Coggill, P. C., Eberhardt, R. Y., Mistry, J., Tate, J., Boursnell, C., Pang, N., Forslund, K., Ceric, G., Clements, J., et al. (2012) · Nucleic Acids Research

Genomics and Phylogenetic StudiesMachine Learning in Bioinformatics

Cited by 3,719

The Gene Ontology resource: enriching a GOld mine

The Gene Ontology Consortium, Carbon, S., Douglass, E., Good, B. M., Unni, D. R., Harris, N. L., Mungall, C. J., Basu, S., Chisholm, R. L., Dodson, R. J., et al. (2021) · Nucleic Acids Research

Biomedical Text Mining and OntologiesBioinformatics and Genomic Networks

Cited by 3,555

The Pfam protein families database

Finn, R. D., Mistry, J., Tate, J., Coggill, P., Heger, A., Pollington, J. E., Gavin, O. L., Gunasekaran, P., Ceric, G., Forslund, K., et al. (2010) · Nucleic Acids Research

Genomics and Phylogenetic StudiesMachine Learning in Bioinformatics

Cited by 2,694

HMMER web server: 2018 update

Potter, S. C., Luciani, A., Eddy, S. R., Park, Y., Lopez, R., & Finn, R. D. (2018) · Nucleic Acids Research

Genomics and Phylogenetic StudiesMachine Learning in Bioinformatics

Cited by 2,607

The InterPro protein families and domains database: 20 years on

Blum, M., Chang, H.-Y., Chuguransky, S., Grego, T., Kandasaamy, S., Mitchell, A., Nuka, G., Paysan-Lafosse, T., Qureshi, M., Raj, S., et al. (2021) · Nucleic Acids Research

Genomics and Phylogenetic StudiesMachine Learning in Bioinformatics

Cited by 2,231

InterPro: the integrative protein signature database

Hunter, S., Apweiler, R., Attwood, T. K., Bairoch, A., Bateman, A., Binns, D., Bork, P., Das, U., Daugherty, L., Duquenne, L., et al. (2009) · Nucleic Acids Research

Genomics and Phylogenetic StudiesBioinformatics and Genomic Networks

Cited by 2,107

The MEROPS database of proteolytic enzymes, their substrates and inhibitors in 2017 and a comparison with peptidases in the PANTHER database

Rawlings, N. D., Barrett, A. J., Thomas, P. D., Huang, X., Bateman, A., & Finn, R. D. (2018) · Nucleic Acids Research

Protease and Inhibitor MechanismsGenomics and Phylogenetic Studies

Cited by 1,749

InterPro in 2019: improving coverage, classification and access to protein sequence annotations

Mitchell, A. L., Attwood, T. K., Babbitt, P. C., Blum, M., Bork, P., Bridge, A., Brown, S. D., Chang, H.-Y., El-Gebali, S., Fraser, M. I., et al. (2019) · Nucleic Acids Research

Genomics and Phylogenetic StudiesMachine Learning in Bioinformatics

Cited by 1,426

A unified catalog of 204,938 reference genomes from the human gut microbiome

Almeida, A., Nayfach, S., Boland, M., Strozzi, F., Beracochea, M., Shi, Z. J., Pollard, K. S., Sakharova, E., Parks, D. H., Hugenholtz, P., et al. (2021) · Nature Biotechnology

Genomics and Phylogenetic StudiesGut microbiota and health

Cited by 1,367

A new genomic blueprint of the human gut microbiota

Almeida, A., Mitchell, A. L., Boland, M., Forster, S. C., Gloor, G. B., Tarkowska, A., Lawley, T. D., & Finn, R. D. (2019) · Nature

Gut microbiota and healthGenomics and Phylogenetic Studies

Cited by 1,314

Ensembl 2024

Harrison, P. W., Amode, M. R., Austine-Orimoloye, O., Azov, A. G., Barba, M., Barnes, I., Becker, A., Bennett, R., Berry, A., Bhai, J., et al. (2024) · Nucleic Acids Research

Genomics and Phylogenetic StudiesGenetics, Bioinformatics, and Biomedical Research

Cited by 742

Massive expansion of human gut bacteriophage diversity

Camarillo-Guerrero, L. F., Almeida, A., Rangel-Pineros, G., Finn, R. D., & Lawley, T. D. (2021) · Cell

Bacteriophages and microbial interactionsEvolution and Genetic Dynamics

Cited by 594

MGnify: the microbiome analysis resource in 2020

Mitchell, A. L., Almeida, A., Beracochea, M., Boland, M., Burgin, J., Cochrane, G., Crusoe, M. R., Kale, V., Potter, S. C., Richardson, L. J., et al. (2019) · Nucleic Acids Research

Genomics and Phylogenetic StudiesScientific Computing and Data Management

Cited by 562

Microbial abundance, activity and population genomic profiling with mOTUs2

Milanese, A., Mende, D. R., Paoli, L., Salazar, G., Ruscheweyh, H.-J., Cuenca, M., Hingamp, P., Alves, R., Costea, P. I., Coelho, L. P., et al. (2019) · Nature Communications

Genomics and Phylogenetic StudiesMicrobial Community Ecology and Physiology

Cited by 446

Rfam: Wikipedia, clans and the “decimal” release

Gardner, P. P., Daub, J., Tate, J., Moore, B. L., Osuch, I. H., Griffiths-Jones, S., Finn, R. D., Nawrocki, E. P., Kolbe, D. L., Eddy, S. R., et al. (2011) · Nucleic Acids Research

Genomics and Phylogenetic StudiesRNA and protein synthesis mechanisms

Cited by 390

Unifying the known and unknown microbial coding sequence space

Vanni, C., Schechter, M. S., Acinas, S. G., Barberán, A., Buttigieg, P. L., Casamayor, E. O., Delmont, T. O., Duarte, C. M., Eren, A. M., Finn, R. D., et al. (2022) · eLife

Genomics and Phylogenetic StudiesMicrobial Community Ecology and Physiology

Cited by 134

Microbial composition of Kombucha determined using amplicon sequencing and shotgun metagenomics

Arıkan, M., Mitchell, A. L., Finn, R. D., & Gürel, F. (2020) · Journal of Food Science

Probiotics and Fermented FoodsFermentation and Sensory Analysis

Cited by 123

Integrating biological data – the Distributed Annotation System

Jenkinson, A. M., Albrecht, M., Birney, E., Blankenburg, H., Down, T., Finn, R. D., Hermjakob, H., Hubbard, T. J., Jimenez, R. C., Jones, P., et al. (2008) · BMC Bioinformatics

Genomics and Phylogenetic StudiesScientific Computing and Data Management

Cited by 100