YPDTM, PombePDTM and WormPDTM: model organism volumes of the BioKnowledgeTM Library, an integrated resource for protein information

By M. Costanzo, M. Crawford, J. Hirschman, J. E. Kranz, P. Olsen, L. S. Robertson, M. Skrzypek, B. R. Braun, Kelley Lennon-Hopkins, P. Kondu and 4 more. Nucleic Acids Res., 2001

314 citations recorded by the source corpus.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/28946bd9a3181c25dfef0a594f8b69358d925480

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In Molecular Biology

Citations in the corpus

An automated method for finding molecular complexes in large protein interaction networks (2003, unknown): “genome clone libraries [11], established molecular biology experimental techniques and an assortment of well designed genomics databases [12–14].”
The Distributed Annotation System (2001, background): “A number of specialized databases have developed to serve a curatorial role within particular communities, such as Swissprot [2], Refseq [3], and WormPD [ 4 ].”
Defining transcription modules using large-scale gene expression data (2004, methodology): “Their gene content (between ∼100 and ∼300 genes in each module) is highly consistent with their associated functions [according to annotations taken from the YPD (Costanzo et al., 2001) and SGD (Issel-Tarver et al., 2002) databases] .”
Extensive Association of Functionally and Cytotopically Related mRNAs with Puf Family RNA-Binding Proteins in Yeast (2004, background): “Although there appear to be hundreds of RBPs encoded in eukaryotic genomes (Costanzo et al. 2001; Issel-Tarver et al. 2002), for only a few of these proteins have the RNA targets been systematically identified (Takizawa et al. 2000; Tenenbaum et al. 2000; Brown et al. 2001; Hieronymus and Silver…”
Genome-scale reconstruction of the Saccharomyces cerevisiae metabolic network. (2003, background): “Information on localization was mainly extracted from CYGD and YPD.”
Integrating 'omic' information: a bridge between genomics and systems biology. (2003, methodology): “Three types of interactome datasets were used: (1) large collections of potential protein–protein interactions obtained from proteome-wide HT Y2H or IP-MS projects (HT data); (2) collections of individual protein–protein interactions identified by reductionist approaches [low-throughput (LT) data] [”