Rfam 14: expanded coverage of metagenomic, viral and microRNA families

Discovery of 20 novel ribosomal leader candidates in bacteria and archaea

(2020) Iris Eckert et al.   BMC MICROBIOLOGY

The tuatara genome reveals ancient features of amniote evolution

(2020) Neil J. Gemmell et al.   NATURE

Functional RNA Structures in the 3′UTR of Tick-Borne, Insect-Specific and No-Known-Vector Flaviviruses

(2019) Roman Ochsenreiter et al.   Viruses-Basel

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

(2019) Fábio Madeira et al.   NUCLEIC ACIDS RESEARCH

GraphClust2: Annotation and discovery of structured RNAs with scalable and accessible integrative clustering

(2019) Milad Miladi et al.   GigaScience

Structural and functional conservation of cis -acting RNA elements in coronavirus 5'-terminal genome regions

(2018) Ramakanth Madhugiri et al.   VIROLOGY

RNA Structure—A Neglected Puppet Master for the Evolution of Virus and Host Immunity

(2018) Redmond P. Smyth et al.   Frontiers in Immunology

RNAcentral: a hub of information for non-coding RNA sequences

(2018) et al.   NUCLEIC ACIDS RESEARCH

miRBase: from microRNA sequences to function

(2018) Ana Kozomara et al.   NUCLEIC ACIDS RESEARCH

RefSeq: an update on prokaryotic genome annotation and curation

(2017) Daniel H Haft et al.   NUCLEIC ACIDS RESEARCH

Detection of 224 candidate structured RNAs by comparative analysis of specific subsets of intergenic regions

(2017) Zasha Weinberg et al.   NUCLEIC ACIDS RESEARCH

Rfam 13.0: shifting to a genome-centric resource for non-coding RNA families

(2017) Ioanna Kalvari et al.   NUCLEIC ACIDS RESEARCH

MERS, SARS and other coronaviruses as causes of pneumonia

(2017) Yudong Yin et al.   RESPIROLOGY

A statistical test for conserved RNA structure shows lack of evidence for structure in lncRNAs

(2016) Elena Rivas et al.   NATURE METHODS

RNAlien – Unsupervised RNA family model construction

(2016) Florian Eggenhofer et al.   NUCLEIC ACIDS RESEARCH

Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation

(2015) Nuala A. O'Leary et al.   NUCLEIC ACIDS RESEARCH

The structure and functions of coronavirus genomic 3′ and 5′ ends

(2015) Dong Yang et al.   VIRUS RESEARCH

Rfam 12.0: updates to the RNA families database

(2014) Eric P. Nawrocki et al.   NUCLEIC ACIDS RESEARCH

Profile Hidden Markov Models for the Detection of Viruses within Metagenomic Sequence Data

(2014) Peter Skewes-Cox et al.   PLoS One

RNA structure analysis of alphacoronavirus terminal genome regions

(2014) Ramakanth Madhugiri et al.   VIRUS RESEARCH

nhmmer: DNA homology search with profile HMMs

(2013) T. J. Wheeler et al.   BIOINFORMATICS

Infernal 1.1: 100-fold faster RNA homology searches

(2013) E. P. Nawrocki et al.   BIOINFORMATICS

mir-17-92: a polycistronic oncomir with pleiotropic functions

(2013) Virginie Olive et al.   IMMUNOLOGICAL REVIEWS

CompaRNA: a server for continuous benchmarking of automated methods for RNA secondary structure prediction

(2013) Tomasz Puton et al.   NUCLEIC ACIDS RESEARCH

Genome-Wide Identification of Regulatory RNAs in the Human Pathogen Clostridium difficile

(2013) Olga A. Soutourina et al.   PLoS Genetics

LocARNA-P: Accurate boundary prediction and improved detection of structural RNAs

(2012) S. Will et al.   RNA

R2R - software to speed the depiction of aesthetic consensus RNA secondary structures

(2011) Zasha Weinberg et al.   BMC BIOINFORMATICS

ViPR: an open bioinformatics database and analysis resource for virology research

(2011) Brett E. Pickett et al.   NUCLEIC ACIDS RESEARCH

RNA-RNA and RNA-protein interactions in coronavirus replication and transcription

(2011) Isabel Sola et al.   RNA Biology

Cartography of Methicillin-Resistant S. aureus Transcripts: Detection, Orientation and Temporal Expression during Growth Phase and Stress Conditions

(2010) Marie Beaume et al.   PLoS One