The NCBI Handbook

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Genome, transcriptome and proteome: the rise of omics data and their integration in biomedical sciences (2016, unknown): “Problems that can be addressed by individual researchers or research groups or that should be addressed by a large community effort have been ﬂagged with * or (cid:2) , respectively.”
PrDOS: prediction of disordered protein regions from amino acid sequence (2007, methodology): “Therefore, in the first step, the target amino acid sequence is converted into a PSSM, using two rounds of PSI-BLAST searches against NCBI non-redundant (nr) amino acid sequence databases (19) with default parameters.”
Neural network-based taxonomic clustering for metagenomics (2010, methodology): “Most supervised classification methods for metagenomics employ either a homology-based alignment or a composition-based frequency model [8, 9, 10, 11].”
The Matchmaker Exchange: A Platform for Rare Disease Gene Discovery (2015, methodology): “…data in a single “centralized” site, such as the National Center for Biotechnology Information’s (NCBI) Database of Genotypes and Phenotypes (dbGaP) [Tryka et al., 2013] or other large data centers such as those employed for the International Cancer Genome Consortium (ICGC) [Zhang et al., 2011]…”