Robert D. Finn

Affiliations:
  • European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI)
  • Howard Hughes Medical Institute, Janelia Farm Research Campus, Ashburn


According to our database1, Robert D. Finn authored at least 71 papers between 1999 and 2022.

Collaborative distances:

Timeline

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Bibliography

2022
Ensembl Genomes 2022: an expanding genome resource for non-vertebrates.
Nucleic Acids Res., 2022

The Ensembl COVID-19 resource: ongoing integration of public SARS-CoV-2 data.
Nucleic Acids Res., 2022

2021
RNAcentral 2021: secondary structure integration, improved sequence search and new member databases.
Nucleic Acids Res., 2021

Pfam: The protein families database in 2021.
Nucleic Acids Res., 2021

Rfam 14: expanded coverage of metagenomic, viral and microRNA families.
Nucleic Acids Res., 2021

The Gene Ontology resource: enriching a GOld mine.
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Nucleic Acids Res., 2021

The InterPro protein families and domains database: 20 years on.
Nucleic Acids Res., 2021

Computational strategies to combat COVID-19: useful tools to accelerate SARS-CoV-2 and coronavirus research.
Briefings Bioinform., 2021

2020
Genome3D: integrating a collaborative data pipeline to expand the depth and breadth of consensus protein structure annotation.
Nucleic Acids Res., 2020

MGnify: the microbiome analysis resource in 2020.
Nucleic Acids Res., 2020

The ELIXIR Core Data Resources: fundamental infrastructure for the life sciences.
Bioinform., 2020

2019
Genome properties in 2019: a new companion database to InterPro for the inference of complete functional attributes.
Nucleic Acids Res., 2019

InterPro in 2019: improving coverage, classification and access to protein sequence annotations.
Nucleic Acids Res., 2019

The EMBL-EBI search and sequence analysis tools APIs in 2019.
Nucleic Acids Res., 2019

The Pfam protein families database in 2019.
Nucleic Acids Res., 2019

TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations.
Bioinform., 2019

3DPatch: fast 3D structure visualization with residue conservation.
Bioinform., 2019

2018
Eleven quick tips to build a usable REST API for life sciences.
PLoS Comput. Biol., 2018

The MEROPS database of proteolytic enzymes, their substrates and inhibitors in 2017 and a comparison with peptidases in the PANTHER database.
Nucleic Acids Res., 2018

HMMER web server: 2018 update.
Nucleic Acids Res., 2018

EBI Metagenomics in 2017: enriching the analysis of microbial communities, from sequence reads to assemblies.
Nucleic Acids Res., 2018

Ensembl Genomes 2018: an integrated omics infrastructure for non-vertebrate species.
Nucleic Acids Res., 2018

Rfam 13.0: shifting to a genome-centric resource for non-coding RNA families.
Nucleic Acids Res., 2018

On the way to research objects for environmental genomics (or metagenomics).
Proceedings of Workshop on Research Objects (RO2018), 2018

2017
InterPro in 2017 - beyond protein family and domain annotations.
Nucleic Acids Res., 2017

2016
Cache Domains That are Homologous to, but Different from PAS Domains Comprise the Largest Superfamily of Extracellular Sensors in Prokaryotes.
PLoS Comput. Biol., 2016

Twenty years of the <i>MEROPS</i> database of proteolytic enzymes, their substrates and inhibitors.
Nucleic Acids Res., 2016

EBI metagenomics in 2016 - an expanding and evolving resource for the analysis and archiving of metagenomic data.
Nucleic Acids Res., 2016

The Dfam database of repetitive DNA families.
Nucleic Acids Res., 2016

HPMCD: the database of human microbial communities from metagenomic datasets and microbial reference genomes.
Nucleic Acids Res., 2016

The Pfam protein families database: towards a more sustainable future.
Nucleic Acids Res., 2016

The European Bioinformatics Institute in 2016: Data growth and integration.
Nucleic Acids Res., 2016

GO annotation in InterPro: why stability does not indicate accuracy in a sea of changing annotations.
Database J. Biol. Databases Curation, 2016

Slim-o-matic: a Semi-Automated Way to Generate Gene Ontology Slims.
Proceedings of the 9th International Conference Semantic Web Applications and Tools for Life Sciences, 2016

2015
Rfam 12.0: updates to the RNA families database.
Nucleic Acids Res., 2015

The InterPro protein families database: the classification resource after 15 years.
Nucleic Acids Res., 2015

HMMER web server: 2015 update.
Nucleic Acids Res., 2015

Creating a specialist protein resource network: a meeting report for the protein bioinformatics and community resources retreat.
Database J. Biol. Databases Curation, 2015

The complexity, challenges and benefits of comparing two transporter classification systems in TCDB and Pfam.
Briefings Bioinform., 2015

2014
iPfam: a database of protein family and domain interactions found in the Protein Data Bank.
Nucleic Acids Res., 2014

Pfam: the protein families database.
Nucleic Acids Res., 2014

Skylign: a tool for creating informative, interactive logos representing sequence alignments and profile hidden Markov models.
BMC Bioinform., 2014

Structure and computational analysis of a novel protein with metallopeptidase-like and circularly permuted winged-helix-turn-helix domains reveals a possible role in modified polysaccharide biosynthesis.
BMC Bioinform., 2014

2013
Dfam: a database of repetitive DNA based on profile hidden Markov models.
Nucleic Acids Res., 2013

Two Pfam protein families characterized by a crystal structure of protein lpg2210 from Legionella pneumophila.
BMC Bioinform., 2013

The challenge of increasing Pfam coverage of the human proteome.
Database J. Biol. Databases Curation, 2013

2012
The Pfam protein families database.
Nucleic Acids Res., 2012

InterPro in 2011: new developments in the family and domain prediction database.
Nucleic Acids Res., 2012

Making your database available through Wikipedia: the pros and cons.
Nucleic Acids Res., 2012

Recent advances in biocuration: Meeting Report from the fifth International Biocuration Conference.
Database J. Biol. Databases Curation, 2012

2011
Rfam: Wikipedia, clans and the "decimal" release.
Nucleic Acids Res., 2011

HMMER web server: interactive sequence similarity searching.
Nucleic Acids Res., 2011

2010
The Pfam protein families database.
Nucleic Acids Res., 2010

2009
InterPro: the integrative protein signature database.
Nucleic Acids Res., 2009

Rfam: updates to the RNA families database.
Nucleic Acids Res., 2009

DASMI: exchanging, annotating and assessing molecular interaction data.
Bioinform., 2009

Phospholipid scramblases and Tubby-like proteins belong to a new superfamily of membrane tethered transcription factors.
Bioinform., 2009

2008
The Pfam protein families database.
Nucleic Acids Res., 2008

Integrating biological data - the Distributed Annotation System.
BMC Bioinform., 2008

Experience using web services for biological sequence analysis.
Briefings Bioinform., 2008

Pfam 10 years on: 10 000 families and still growing.
Briefings Bioinform., 2008

2007
New developments in the InterPro database.
Nucleic Acids Res., 2007

Integrating sequence and structural biology with DAS.
BMC Bioinform., 2007

Predicting active site residue annotations in the Pfam database.
BMC Bioinform., 2007

ProServer: a simple, extensible Perl DAS server.
Bioinform., 2007

SCOOP: a simple method for identification of novel protein superfamily relationships.
Bioinform., 2007

2006
Pfam: clans, web tools and services.
Nucleic Acids Res., 2006

The Distributed Annotation System for Integration of Biological Data.
Proceedings of the Data Integration in the Life Sciences, Third International Workshop, 2006

2005
iPfam: visualization of protein?Cprotein interactions in PDB at domain and amino acid resolutions.
Bioinform., 2005

2004
The Pfam protein families database.
Nucleic Acids Res., 2004

1999
Pfam 3.1: 1313 multiple alignments and profile HMMs match the majority of proteins.
Nucleic Acids Res., 1999


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