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Volume 6 Supplement 4

Italian Society of Bioinformatics (BITS): Annual Meeting 2005

Research articles

Edited by Rita Casadio, Alessandro Guffanti, Manuela Helmer-Citterich, Giancarlo Mauri, Luciano Milanesi, Graziano Pesole, Cecilia Saccone and Giorgio Valle

Italian Society of Bioinformatics (BITS): Annual Meeting 2005. Go to conference site.

Milan, Italy17-19 March 2005

  1. The BITS2005 Conference brought together about 200 Italian scientists working in the field of Bioinformatics, students in Biology, Computer Science and Bioinformatics on March 17–19 2005, in Milan. This Editor...

    Authors: Manuela Helmer-Citterich, Rita Casadio, Alessandro Guffanti, Giancarlo Mauri, Luciano Milanesi, Graziano Pesole, Giorgio Valle and Cecilia Saccone
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S1
  2. The advent of the technology of DNA microarrays constitutes an epochal change in the classification and discovery of different types of cancer because the information provided by DNA microarrays allows an appr...

    Authors: Nicola Ancona, Rosalia Maglietta, Annarita D'Addabbo, Sabino Liuni and Graziano Pesole
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S2
  3. Due to the strict relation between protein function and structure, the prediction of protein 3D-structure has become one of the most important tasks in bioinformatics and proteomics. In fact, notwithstanding t...

    Authors: Giuliano Armano, Gianmaria Mancosu, Luciano Milanesi, Alessandro Orro, Massimiliano Saba and Eloisa Vargiu
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S3
  4. Population genetics studies based on the analysis of mtDNA and mitochondrial disease studies have produced a huge quantity of sequence data and related information. These data are at present worldwide distribu...

    Authors: Marcella Attimonelli, Matteo Accetturo, Monica Santamaria, Daniela Lascaro, Gaetano Scioscia, Graziano Pappadà, Luigi Russo, Luigi Zanchetta and Mila Tommaseo-Ponzetta
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S4
  5. The identification of local similarities between two protein structures can provide clues of a common function. Many different methods exist for searching for similar subsets of residues in proteins of known s...

    Authors: Gabriele Ausiello, Allegra Via and Manuela Helmer-Citterich
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S5
  6. Improvements of bio-nano-technologies and biomolecular techniques have led to increasing production of high-throughput experimental data. Spotted cDNA microarray is one of the most diffuse technologies, used i...

    Authors: Sarah Burgarella, Dario Cattaneo, Francesco Pinciroli and Marco Masseroli
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S6
  7. Neoplastic transformation is a multistep process in which distinct gene products of specific cell regulatory pathways are involved at each stage. Identification of overexpressed genes provides an unprecedented...

    Authors: Federica Cavallo, Annalisa Astolfi, Manuela Iezzi, Francesca Cordero, Pier-Luigi Lollini, Guido Forni and Raffaele Calogero
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S7
  8. Secondary structure is used in hierarchical classification of protein structures, identification of protein features, such as helix caps and loops, for fold recognition, and as a precursor to ab initio structu...

    Authors: Maria Vittoria Cubellis, Fabien Cailliez and Simon C Lovell
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S8
  9. Expressed Sequence Tags (ESTs) are short and error-prone DNA sequences generated from the 5' and 3' ends of randomly selected cDNA clones. They provide an important resource for comparative and functional geno...

    Authors: Nunzio D'Agostino, Mario Aversano and Maria Luisa Chiusano
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S9
  10. The organic polychlorinated compounds like dichlorodiphenyltrichloroethane with its metabolites and polychlorinated biphenyls are a class of highly persistent environmental contaminants. They have been recogni...

    Authors: Pasqualina D'Ursi, Erika Salvi, Paola Fossa, Luciano Milanesi and Ermanna Rovida
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S10
  11. Reconstructing regulatory networks from gene expression profiles is a challenging problem of functional genomics. In microarray studies the number of samples is often very limited compared to the number of gen...

    Authors: Barbara Di Camillo, Fatima Sanchez-Cabo, Gianna Toffolo, Sreekumaran K Nair, Zlatko Trajanoski and Claudio Cobelli
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S11
  12. Structure prediction of membrane proteins is still a challenging computational problem. Hidden Markov models (HMM) have been successfully applied to the problem of predicting membrane protein topology. In a pr...

    Authors: Piero Fariselli, Pier Luigi Martelli and Rita Casadio
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S12
  13. The SH3 domain family is one of the most representative and widely studied cases of so-called Peptide Recognition Modules (PRM). The polyproline II motif PxxP that generally characterizes its ligands does not ...

    Authors: Enrico Ferraro, Allegra Via, Gabriele Ausiello and Manuela Helmer-Citterich
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S13
  14. Routine application of gene expression microarray technology is rapidly producing large amounts of data that necessitate new approaches of analysis. The analysis of a specific microarray experiment profits eno...

    Authors: Giacomo Finocchiaro, Francesco Mancuso and Heiko Muller
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S14
  15. Histones are short proteins involved in chromatin packaging; in eukaryotes, two H2a-H2b and H3-H4 histone dimers form the nucleosomal core, which acts as the fundamental DNA-packaging element. The double histo...

    Authors: Claudio Greco, Piercarlo Fantucci and Luca De Gioia
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S15
  16. In our studies of genetically isolated populations in a remote mountain area in the center of Sardinia (Italy), we found that 80–85% of the inhabitants of each village belong to a single huge pedigree with fam...

    Authors: Gianmaria Mancosu, Massimiliano Cosso, Francesca Marras, Cesare Cappio Borlino, Giuseppe Ledda, Teresa Manias, Mauro Adamo, Donatella Serra, Paola Melis and Mario Pirastu
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S17
  17. Analysis of inherited diseases and their associated phenotypes is of great importance to gain knowledge of underlying genetic interactions and could ultimately give clinically useful insights into disease proc...

    Authors: Marco Masseroli, Osvaldo Galati, Mauro Manzotti, Karina Gibert and Francesco Pinciroli
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S18
  18. This study concerns the development of a high performance workflow that, using grid technology, correlates different kinds of Bioinformatics data, starting from the base pairs of the nucleotide sequence to the...

    Authors: Ivan Merelli, Giulia Morra, Daniele D'Agostino, Andrea Clematis and Luciano Milanesi
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S19
  19. Protein kinases are a well defined family of proteins, characterized by the presence of a common kinase catalytic domain and playing a significant role in many important cellular processes, such as proliferati...

    Authors: Luciano Milanesi, Mauro Petrillo, Leandra Sepe, Angelo Boccia, Nunzio D'Agostino, Myriam Passamano, Salvatore Di Nardo, Gianluca Tasco, Rita Casadio and Giovanni Paolella
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S20
  20. The application of high throughput approaches to the identification of protein interactions has offered for the first time a glimpse of the global interactome of some model organisms. Until now, however, such ...

    Authors: Maria Persico, Arnaud Ceol, Caius Gavrila, Robert Hoffmann, Arnaldo Florio and Gianni Cesareni
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S21
  21. NemaFootPrinter (Nematode Transcription Factor Scan Through Philogenetic Footprinting) is a web-based software for interactive identification of conserved, non-exonic DNA segments in the genomes of C. elegans and...

    Authors: Davide Rambaldi, Alessandro Guffanti, Paolo Morandi and Giuseppe Cassata
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S22
  22. Biological resources are essential tools for biomedical research. Their availability is promoted through on-line catalogues. Common Access to Biological Resources and Information (CABRI) is a service for distr...

    Authors: Paolo Romano, Peter Dawyndt, Francesca Piersigilli and Jean Swings
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S23
  23. The completion of the Human Genome Project has resulted in large quantities of biological data which are proving difficult to manage and integrate effectively. There is a need for a system that is able to auto...

    Authors: Paolo Romano, Domenico Marra and Luciano Milanesi
    Citation: BMC Bioinformatics 2005 6(Suppl 4):S24

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