scholarly journals Large scale hierarchical clustering of protein sequences

Author(s):  
Antje Krause ◽  
Jens Stoye ◽  
Martin Vingron
2007 ◽  
Vol 3 ◽  
pp. 193-197 ◽  
Author(s):  
Kou Amano ◽  
Hiroaki Ichikawa ◽  
Hidemitsu Nakamura ◽  
Hisataka Numa ◽  
Kaoru Fukami-Kobayashi ◽  
...  

2017 ◽  
Author(s):  
Morgan N. Price ◽  
Adam P. Arkin

AbstractLarge-scale genome sequencing has identified millions of protein-coding genes whose function is unknown. Many of these proteins are similar to characterized proteins from other organisms, but much of this information is missing from annotation databases and is hidden in the scientific literature. To make this information accessible, PaperBLAST uses EuropePMC to search the full text of scientific articles for references to genes. PaperBLAST also takes advantage of curated resources that link protein sequences to scientific articles (Swiss-Prot, GeneRIF, and EcoCyc). PaperBLAST’s database includes over 700,000 scientific articles that mention over 400,000 different proteins. Given a protein of interest, PaperBLAST quickly finds similar proteins that are discussed in the literature and presents snippets of text from relevant articles or from the curators. PaperBLAST is available at http://papers.genomics.lbl.gov/.


Author(s):  
Salvatore Distefano ◽  
Antonio Puliafito

Cloud computing is the new consolidated trend in ICT, often considered as the panacea to all the problems of existing large-scale distributed paradigms such as Grid and hierarchical clustering. The Cloud breakthrough is the service oriented perspective of providing everything “as a service”. Different from the others large-scale distributed paradigms, it was born from commercial contexts, with the aim of selling the temporarily unexploited computing resources of huge datacenters in order to reduce the costs. Since this business model is really attractive and convenient for both providers and consumers, the Cloud paradigm is quickly growing and widely spreading, even in non commercial context. In fact, several activities on the Cloud, such as Nimbus, Eucalyptus, OpenNEbula, and Reservoir, etc., have been undertaken, aiming at specifying open Cloud infrastructure middleware.


2009 ◽  
Vol 8 (9) ◽  
pp. 4362-4371 ◽  
Author(s):  
Lisa Bartoli ◽  
Ludovica Montanucci ◽  
Raffaele Fronza ◽  
Pier Luigi Martelli ◽  
Piero Fariselli ◽  
...  

2006 ◽  
Vol 04 (05) ◽  
pp. 1033-1056 ◽  
Author(s):  
NATALIYA S. SADOVSKAYA ◽  
ROMAN A. SUTORMIN ◽  
MIKHAIL S. GELFAND

Membrane proteins perform a number of crucial functions as transporters, receptors, and components of enzyme complexes. Identification of membrane proteins and prediction of their topology is thus an important part of genome annotation. We present here an overview of transmembrane segments in protein sequences, summarize data from large-scale genome studies, and report results of benchmarking of several popular internet servers.


2007 ◽  
Vol 8 (1) ◽  
pp. 396 ◽  
Author(s):  
Tobias Wittkop ◽  
Jan Baumbach ◽  
Francisco P Lobo ◽  
Sven Rahmann

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