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R. Finn · SciRah

Researcher profile · Semantic Scholar

R. Finn

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R. Finn — researcher profile on SciRah

h-index: 77
Works: 206
Citations: 77K

Most-cited papers

Pfam: The protein families database in 2021
J. Mistry, S. Chuguransky, Lowri Williams, Matloob Qureshi +8 more
2020Nucleic Acids Res.5,631 citations Open access
Semantic Scholar
The Pfam protein families database in 2019
S. El-Gebali, J. Mistry, A. Bateman, S. Eddy +12 more
2018Nucleic Acids Res.4,066 citations Open access
Semantic Scholar
The EMBL-EBI search and sequence analysis tools APIs in 2019
F. Madeira, Y. Park, Joon Lee, Nicola Buso +7 more
2019Nucleic Acids Res.3,802 citations Open access
Semantic Scholar
The Gene Ontology resource: enriching a GOld mine
S. Carbon, Eric Douglass, Benjamin M. Good, D. Unni +176 more
2020Nucleic Acids Res.3,172 citations Open access
Semantic Scholar
Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
R. Bowers, N. Kyrpides, R. Stepanauskas, M. Harmon-Smith +50 more
2017Nature Biotechnology2,286 citations Open access
Semantic Scholar
The InterPro protein families and domains database: 20 years on
Matthias Blum, Hsin-Yu Chang, S. Chuguransky, Tiago Grego +29 more
2020Nucleic Acids Res.1,918 citations Open access
Semantic Scholar
The MEROPS database of proteolytic enzymes, their substrates and inhibitors in 2017 and a comparison with peptidases in the PANTHER database
N. Rawlings, A. Barrett, P. Thomas, Xiaosong Huang +2 more
2017Nucleic Acids Res.1,511 citations Open access
Semantic Scholar
InterPro in 2017—beyond protein family and domain annotations
R. Finn, T. Attwood, P. Babbitt, A. Bateman +43 more
2016Nucleic Acids Res.1,408 citations Open access
Semantic Scholar
HMMER web server: 2018 update
S. Potter, A. Luciani, S. Eddy, Y. Park +2 more
2018Nucleic Acids Res.1,366 citations Open access
Semantic Scholar
InterPro in 2019: improving coverage, classification and access to protein sequence annotations
A. Mitchell, T. Attwood, P. Babbitt, Matthias Blum +38 more
2018Nucleic Acids Res.1,318 citations Open access
Semantic Scholar
A unified catalog of 204,938 reference genomes from the human gut microbiome
A. Almeida, Stephen Nayfach, M. Boland, F. Strozzi +9 more
2020Nature Biotechnology1,175 citations Open access
Semantic Scholar
A new genomic blueprint of the human gut microbiota
A. Almeida, A. Mitchell, M. Boland, S. Forster +4 more
2019Nature1,167 citations Open access
Semantic Scholar
Rfam 14: expanded coverage of metagenomic, viral and microRNA families
Ioanna Kalvari, Eric P. Nawrocki, Nancy Ontiveros-Palacios, Joanna Argasinska +11 more
2020Nucleic Acids Res.924 citations Open access
Semantic Scholar
Rfam 13.0: shifting to a genome-centric resource for non-coding RNA families
Ioanna Kalvari, Joanna Argasinska, Natalia Quinones-Olvera, Eric P. Nawrocki +5 more
2017Nucleic Acids Res.896 citations Open access
Semantic Scholar
MGnify: the microbiome analysis resource in 2020
A. Mitchell, A. Almeida, Martin Beracochea, M. Boland +13 more
2019Nucleic Acids Res.581 citations Open access
Semantic Scholar
Massive expansion of human gut bacteriophage diversity
Luis F. Camarillo-Guerrero, A. Almeida, Guillermo Rangel-Pineros, R. Finn +1 more
2020bioRxiv545 citations Open access
Semantic Scholar
A human gut bacterial genome and culture collection for improved metagenomic analyses
Samuel C. Forster, Nitin Kumar, B. Anonye, A. Almeida +13 more
2019Nature Biotechnology509 citations Open access
Semantic Scholar
Reporting guidelines for Human Microbiome Research: the STORMS checklist
C. Mirzayi, Audrey Renson, F. Zohra, Shaimaa Elsafoury +99 more
2021Nature Medicine481 citations Open access
Semantic Scholar
Ensembl Genomes 2018: an integrated omics infrastructure for non-vertebrate species
P. Kersey, James E. Allen, Alexis Allot, Matthieu Barba +42 more
2017Nucleic Acids Res.442 citations Open access
Semantic Scholar
MGnify: the microbiome sequence data analysis resource in 2023
L. Richardson, B. Allen, Germana Baldi, Martin Beracochea +17 more
2022Nucleic Acids Res.423 citations Open access
Semantic Scholar
RNAcentral 2021: secondary structure integration, improved sequence search and new member databases
B. Sweeney, Anton I. Petrov, C. E. Ribas, R. Finn +42 more
2020Nucleic Acids Res.360 citations Open access
Semantic Scholar
RNAcentral: a hub of information for non-coding RNA sequences
B. Sweeney, Anton I. Petrov, Boris Burkov, R. Finn +57 more
2018Nucleic Acids Res.320 citations Open access
Semantic Scholar
EBI Metagenomics in 2017: enriching the analysis of microbial communities, from sequence reads to assemblies
A. Mitchell, M. Scheremetjew, H. Denise, S. Potter +13 more
2017Nucleic Acids Res.191 citations Open access
Semantic Scholar
A catalogue of 1,167 genomes from the human gut archaeome
C. Chibani, A. Mahnert, Guillaume Borrel, A. Almeida +6 more
2021Nature Microbiology158 citations Open access
Semantic Scholar
Integrating cultivation and metagenomics for a multi-kingdom view of skin microbiome diversity and functions
Sara Saheb Kashaf, Diana M Proctor, C. Deming, Paul Saary +31 more
2021Nature Microbiology158 citations Open access
Semantic Scholar
Ensembl Genomes 2022: an expanding genome resource for non-vertebrates
Andrew D. Yates, James E. Allen, R. Amode, A. Azov +61 more
2021Nucleic Acids Res.153 citations Open access
Semantic Scholar
R2DT is a framework for predicting and visualising RNA secondary structure using templates
B. Sweeney, D. Hoksza, Eric P. Nawrocki, C. E. Ribas +11 more
2021Nature Communications130 citations Open access
Semantic Scholar
Computational strategies to combat COVID-19: useful tools to accelerate SARS-CoV-2 and coronavirus research
Franziska Hufsky, Kevin Lamkiewicz, A. Almeida, A. Aouacheria +51 more
2020Briefings Bioinform.130 citations Open access
Semantic Scholar
Benchmarking taxonomic assignments based on 16S rRNA gene profiling of the microbiota from commonly sampled environments
A. Almeida, A. Mitchell, A. Tarkowska, R. Finn
2018GigaScience118 citations Open access
Semantic Scholar
Estimating the quality of eukaryotic genomes recovered from metagenomic analysis with EukCC
Paul Saary, A. Mitchell, R. Finn
2020Genome Biology112 citations Open access
Semantic Scholar
Phylogenomics of expanding uncultured environmental Tenericutes provides insights into their pathogenicity and evolutionary relationship with Bacilli
Yong Wang, Jiao-Mei Huang, Ying-Li Zhou, A. Almeida +3 more
2020bioRxiv106 citations Open access
Semantic Scholar
Microbial composition of Kombucha determined using amplicon sequencing and shotgun metagenomics
M. Arıkan, A. Mitchell, R. Finn, F. Gürel
2020Journal of Food Science98 citations Open access
Semantic Scholar
Unifying the known and unknown microbial coding sequence space
C. Vanni, M. Schechter, S. Acinas, A. Barberán +13 more
2020bioRxiv90 citations Open access
Semantic Scholar
COVID-19 pandemic reveals the peril of ignoring metadata standards
L. Schriml, M. Chuvochina, Neil M. Davies, E. Eloe-Fadrosh +11 more
2020Scientific Data88 citations Open access
Semantic Scholar
MGnify Genomes: A Resource for Biome-specific Microbial Genome Catalogues
Tatiana A. Gurbich, A. Almeida, Martin Beracochea, Tony Burdett +8 more
2023Journal of Molecular Biology77 citations Open access
Semantic Scholar
TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations
Hai-Ming Tang, R. Finn, P. Thomas
2018Bioinform.67 citations Open access
Semantic Scholar
Correction: Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
R. Bowers, N. Kyrpides, R. Stepanauskas, M. Harmon-Smith +50 more
2018Nature Biotechnology66 citations Open access
Semantic Scholar
Recovering prokaryotic genomes from host-associated, short-read shotgun metagenomic sequencing data
Sara Saheb Kashaf, A. Almeida, J. Segre, R. Finn
2021Nature Protocols62 citations
Semantic Scholar
Staphylococcal diversity in atopic dermatitis from an individual to a global scale
Sara Saheb Kashaf, C. Harkins, C. Deming, P. Joglekar +6 more
2023Cell Host and Microbe57 citations Open access
Semantic Scholar
Toward unrestricted use of public genomic data
R. Amann, S. Baichoo, B. Blencowe, P. Bork +46 more
2019Science56 citations Open access
Semantic Scholar
Predicted Input of Uncultured Fungal Symbionts to a Lichen Symbiosis from Metagenome-Assembled Genomes
Gulnara Tagirdzhanova, Paul Saary, J. Tingley, David Díaz-Escandón +3 more
2021Genome Biology and Evolution40 citations Open access
Semantic Scholar
Microbial community drivers of PK/NRP gene diversity in selected global soils
C. Borsetto, G. Amos, U. D. da Rocha, A. Mitchell +6 more
2019Microbiome40 citations Open access
Semantic Scholar
An inter-laboratory study to investigate the impact of the bioinformatics component on microbiome analysis using mock communities
D. O'Sullivan, R. Doyle, Sasithon Temisak, N. Redshaw +24 more
2021Scientific Reports38 citations Open access
Semantic Scholar
Genome properties in 2019: a new companion database to InterPro for the inference of complete functional attributes
L. Richardson, N. Rawlings, Gustavo A. Salazar, A. Almeida +4 more
2018Nucleic Acids Res.37 citations Open access
Semantic Scholar
Identifying accurate metagenome and amplicon software via a meta-analysis of sequence to taxonomy benchmarking studies
P. Gardner, R. Watson, X. Morgan, J. Draper +3 more
2017bioRxiv33 citations Open access
Semantic Scholar
VIRify: An integrated detection, annotation and taxonomic classification pipeline using virus-specific protein profile hidden Markov models
Guillermo Rangel-Pineros, A. Almeida, Martin Beracochea, Ekaterina A. Sakharova +4 more
2022bioRxiv32 citations Open access
Semantic Scholar
Expansion of novel biosynthetic gene clusters from diverse environments using SanntiS
Santiago Sanchez, Joel D. Rogers, Alexander B. Rogers, Maaly Nassar +4 more
2023bioRxiv30 citations Open access
Semantic Scholar
A unified sequence catalogue of over 280,000 genomes obtained from the human gut microbiome
A. Almeida, Stephen Nayfach, M. Boland, F. Strozzi +8 more
2019bioRxiv29 citations Open access
Semantic Scholar
ELIXIR‐EXCELERATE: establishing Europe's data infrastructure for the life science research of the future
J. Harrow, John M. Hancock, N. Blomberg, Søren Brunak +40 more
2021EMBO Journal25 citations Open access
Semantic Scholar
Dermanyssus gallinae and chicken egg production: impact, management, and a predicted compatibility matrix for integrated approaches
O. Sparagano, D. George, R. Finn, A. Giangaspero +2 more
2020Experimental & applied acarology25 citations
Semantic Scholar

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