LitCovid in 2022: an information resource for the COVID-19 literature

Q Chen, A Allot, R Leaman, CH Wei… - … Acids Research, 2023 - academic.oup.com
Topic annotation assigns a set of possible topics (eg Treatment and … in PubMed by their
presence in the LitCovid database. … data collection is freely available to the community. Possible …

The international nucleotide sequence database collaboration

…, IN Sequence Database Collaboration - … acids research, 2016 - academic.oup.com
collection of nucleotide sequence data and metadata, and has provided the internationally
recognised system of accession numbers for data … of the INSDC address issues spanning day-…

EMBL's European bioinformatics Institute (EMBL-EBI) in 2022

M Thakur, A Bateman, C Brooksbank… - … Acids Research, 2023 - academic.oup.com
… six sites of the European Molecular Biology Laboratory (EMBL), … sustainable, high-quality
data, collected in some cases over … issue, this overview focuses primarily on major changes to …

NPASS database update 2023: quantitative natural product activity and species source database for biomedical research

H Zhao, Y Yang, S Wang, X Yang, K Zhou… - … Acids Research, 2023 - academic.oup.com
… The usefulness of these databases can be further enhanced by expanded data coverage of
activity values, species sources, and composition/content values for more variety of NPs and …

The Sequence Read Archive: explosive growth of sequencing data

Y Kodama, M Shumway, R Leinonen - Nucleic acids research, 2012 - academic.oup.com
… The SRA study contains high-level information including goals of the study and literature
references, and may be linked to the INSDC BioProject database. Similarly, the SRA sample …

probeBase: an online resource for rRNA-targeted oligonucleotide probes

A Loy, M Horn, M Wagner - Nucleic Acids Research, 2003 - academic.oup.com
data stored in public databases ( 13 , 14 ) (Strunk,O. and Ludwig,W., 1993–2002, ARB—a
software environment for sequence data, http… researchers in the choice of an appropriate set of …

CDD/SPARCLE: the conserved domain database in 2020

S Lu, J Wang, F Chitsaz, MK Derbyshire… - … acids research, 2020 - academic.oup.com
database supports text queries and points to summary information for SDAs as well as links
to other databases, most importantly the NCBI protein collection. … , tools, and data collections

Defensins knowledgebase: a manually curated database and information source focused on the defensins family of antimicrobial peptides

S Seebah, A Suresh, S Zhuo, YH Choong… - … acids research, 2007 - academic.oup.com
… version of the database holds a comprehensive collection of over 350 individual defensin
records, including 46 experimentally determined 3D structures from the Protein Data Bank (…

BIND—the biomolecular interaction network database

GD Bader, I Donaldson, C Wolting… - … acids research, 2001 - academic.oup.com
… A concerted effort by the biological community is required … a data specification, a database
and associated data mining … Molecular complexes are stored as a set of interactions along …

REBASE—a database for DNA restriction and modification: enzymes, genes and genomes

RJ Roberts, T Vincze, J Posfai… - Nucleic acids research, 2015 - academic.oup.com
… The previous description of REBASE in the 2010 NAR Database Issue (1) described 3945
data (REBASE LISTS) such as all Type I specificity subunits or the Gold Standard Set are …