TY - JOUR
T1 - A high performance grid-web service framework for the identification of 'conserved sequence tags'
AU - D'Onorio De Meo, Paolo
AU - Carrabino, Danilo
AU - Sanna, Nico
AU - Castrignano, Tiziana
AU - Grillo, Giorgio
AU - Licciulli, Flavio
AU - Liuni, Sabino
AU - Re, Matteo
AU - Mignone, Flavio
AU - Pesole, Graziano
N1 - Funding Information:
Graziano Pesole is full professor of Molecular Biology in the University of Bari. He has since long carried out research in the fields of bioinformatics, comparative genomics and molecular evolution. In particular, his interests are computational approaches for the identification of regulatory elements in noncoding genome regions, alternative splicing and functional analysis of untranslated regions of eukaryotic mRNAs. He has developed a specialized database (UTRdb/UTRsite), largely used by the scientific community, collecting mRNA untranslated sequences and related regulatory motifs involved in the post-transcriptional regulation of gene expression. He has also developed analysis software and several algorithms largely used by the scientific community and available also through web browsers. Within his studies on molecular evolution, he has contributed to the development of new analysis methodologies and has carried out several studies on the evolution of mitochondrial genome at the intraspecies level, in order to clarify some aspects of the origin of modern man, and at the interspecies level to reconstruct mammal phylogeny and to study the evolutionary dynamics of the mitochondrial genome of Tunicata. He leads an interdisciplinary research group including molecular biologists, computer scientists and mathematicians. He coordinated research units in several research project funded by national (MIUR, CNR, Telethon, AIRC) and international (EU, NIH) agencies, and has filed an international patent for the selection of primers for RNA fingerprinting. He is a member of the editorial Board of international journals (GENE, BMC Bioinformatics, BMC Genomics, Computational Biology and Chemistry, Briefings in Bioinformatics), author of over 120 papers published in international journals and co-author of books on Bioinformatics and Genomics published by Italian (Zanichelli, Gnocchi) and international (Wiley) publishers. For further information see http://www.pesolelab.it .
PY - 2007/3
Y1 - 2007/3
N2 - The continuous increasing of computing power in biological research places a threshold to the single host use and suggests an approach based on distributed computing. An emerging solution is grid technology, which allows organization to make better use of existing computing resources by providing them with a single, transparent, aggregated source of computing power. Equally, bioinformatics analysis often involves many web services, allowing shared access to information and helping the biologist to design, describe, record complex experiments. A new generation of grid infrastructure, where web services are building blocks, allow managent of a web services workflow. This work shows a tool for the identification and functional annotation of 'Conserved Sequence Tags' (CSTs) through cross-species genome comparisons, deployed on a Grid System Architecture, based on Web Services concepts and technologies.
AB - The continuous increasing of computing power in biological research places a threshold to the single host use and suggests an approach based on distributed computing. An emerging solution is grid technology, which allows organization to make better use of existing computing resources by providing them with a single, transparent, aggregated source of computing power. Equally, bioinformatics analysis often involves many web services, allowing shared access to information and helping the biologist to design, describe, record complex experiments. A new generation of grid infrastructure, where web services are building blocks, allow managent of a web services workflow. This work shows a tool for the identification and functional annotation of 'Conserved Sequence Tags' (CSTs) through cross-species genome comparisons, deployed on a Grid System Architecture, based on Web Services concepts and technologies.
UR - http://www.scopus.com/inward/record.url?scp=33750814690&partnerID=8YFLogxK
U2 - 10.1016/j.future.2006.07.012
DO - 10.1016/j.future.2006.07.012
M3 - Article
SN - 0167-739X
VL - 23
SP - 371
EP - 381
JO - Future Generation Computer Systems
JF - Future Generation Computer Systems
IS - 3
ER -