The Yeast Proteome Database (YPD) and Caenorhabditis elegans Proteome Database (WormPD): comprehensive resources for the organization and comparison of model organism protein information

By M. Costanzo, J. Hogan, Michael E. Cusick, B. Davis, Ann M. Fancher, P. Hodges, P. Kondu, C. Lengieza, J. Lew-Smith, C. Lingner and 4 more. Nucleic Acids Res., 2000

298 citations recorded by the source corpus.

Subfields: Aging, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/8dc73872aff5eefb759ad5c71a68b3e13cb4cf23

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In Aging

Stephen J. Elledge

In Molecular Biology

Citations in the corpus

The topology of the transcription regulatory network in the yeast (2002, methodology): “To further understand the position of individual nodes (as deleted genes) within the similarity network, we <rst examined the relationship between any two connected transcriptomes and the biochemical and cellular characteristics of their corresponding gene products, according to their categorization”
Graph theory and networks in Biology. (2006, methodology): “In the Yeast Protein Database (YPD) [16] various functional classes are defined to which the proteins in yeast can be assigned.”
Multifaceted physiological response allows yeast to adapt to the loss of the signal recognition particle-dependent protein-targeting pathway. (2001, methodology): “Open reading frames (ORFs) of interest were placed into categories based on functional category descriptions in the Yeast Protein Database (http://www.proteome.com; Costanzo et al., 2000).”
The Stanford Microarray Database (2001, methodology): “For Caenorhabditis elegans ORFs, SMD uses the title lines that are provided by Proteome as part of their WormPD database (5), which are well-curated information (http://www.”
Insights into SCF ubiquitin ligases from the structure of the Skp1–Skp2 complex (2000, background): “elegans and Drosophila melanogaster contain at least 17 and 7 Skp1-like sequences, respectivel”
Dynamics of cell wall structure in Saccharomyces cerevisiae. (2002, background): “For example, transcript levels of Cwp1, an abundant GPI-CWP, are cell cycle-controlled, but they are also up-regulated during late sporulation, under hypertonic conditions, and in case of cell wall stress [132,133].”
Assessment of prediction accuracy of protein function from protein–protein interaction data (2001, methodology): “Three categories of yeast protein ‘function’, according to the classiﬁcation used in the Yeast Pro-teome Database (YPD 2 ), were used: the ‘subcel-lular localization’, the ‘cellular role’ and the ‘biochemical function’ (Costanzo et al ., 2000).”