Results 41 to 50 of about 8,374,602 (379)
Fast and accurate protein structure search with Foldseek
bioRxiv, 2022 Foldseek speeds up protein structural search by four to five orders of magnitude. As structure prediction methods are generating millions of publicly available protein structures, searching these databases is becoming a bottleneck.
Michel van Kempen +7 more
semanticscholar +1 more source
Representing and analysing molecular and cellular function in the computer [PDF]
, 2000 Determining the biological function of a myriad of genes, and understanding how they interact to yield a living cell, is the major challenge of the post genome-sequencing era.
Eldridge, M +6 more
core +1 more source
The Protein-DNA Interface database [PDF]
BMC Bioinformatics, 2010 The Protein-DNA Interface database (PDIdb) is a repository containing relevant structural information of Protein-DNA complexes solved by X-ray crystallography and available at the Protein Data Bank. The database includes a simple functional classification of the protein-DNA complexes that consists of three hierarchical levels: Class, Type and Subtype ...
Norambuena Arenas, Tomás. +1 more
openaire +6 more sources
Context-specific interactions in literature-curated protein interaction databases
BMC Genomics, 2018 Background Databases of literature-curated protein-protein interactions (PPIs) are often used to interpret high-throughput interactome mapping studies and estimate error rates.
R. Greg Stacey +3 more
doaj +1 more source
Toll-like receptor signaling in vertebrates: Testing the integration of protein, complex, and pathway data in the Protein Ontology framework [PDF]
, 2015 The Protein Ontology (PRO) provides terms for and supports annotation of species-specific protein complexes in an ontology framework that relates them both to their components and to species-independent families of complexes.
Arighi, Cecilia +7 more
core +4 more sources
Characterization of Protein Complexes and Subcomplexes in Protein-Protein Interaction Databases
Biochemistry Research International, 2015 The identification and characterization of protein complexes implicated in protein-protein interaction data are crucial to the understanding of the molecular events under normal and abnormal physiological conditions.
Nazar Zaki +2 more
doaj +1 more source
Frontiers in Molecular Biosciences, 2021 Human genome resequencing projects provide an unprecedented amount of data about single-nucleotide variations occurring in protein-coding regions and often leading to observable changes in the covalent structure of gene products.
Castrense Savojardo +4 more
doaj +1 more source
Bioinform., 2013 Summary: Database search is the most widely used approach for peptide and protein identification in mass spectrometry-based proteomics studies. Our previous study showed that sample-specific protein databases derived from RNA-Seq data can better ...
Xiaojing Wang, Bing Zhang
semanticscholar +1 more source
Improving classification in protein structure databases using text mining
BMC Bioinformatics, 2009 Background The classification of protein domains in the CATH resource is primarily based on structural comparisons, sequence similarity and manual analysis.
Jones David T +2 more
doaj +1 more source
Nucleic Acids Res., 2016 A system-wide understanding of cellular function requires knowledge of all functional interactions between the expressed proteins. The STRING database aims to collect and integrate this information, by consolidating known and predicted protein–protein ...
Damian Szklarczyk +11 more
semanticscholar +1 more source