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Volume 8 Supplement 1

Italian Society of Bioinformatics (BITS): Annual Meeting 2006

Research

Edited by Rita Casadio, Manuela Helmer-Citterich, Graziano Pesole

Italian Society of Bioinformatics (BITS): Annual Meeting 2006. Go to conference site.

Bologna, Italy28-29 April, 2006

  2. An in-silico experiment can be naturally specified as a workflow of activities implementing, in a standardized environment, the process of data and control analysis. A workflow has the advantage to be reproduc...

    Authors: Ezio Bartocci, Flavio Corradini, Emanuela Merelli and Lorenzo Scortichini
    Citation: BMC Bioinformatics 2007 8(Suppl 1):S2
    Content type: Research Published on:

  3. Peptidases are proteolytic enzymes responsible for fundamental cellular activities in all organisms. Apparently about 2–5% of the genes encode for peptidases, irrespectively of the organism source. The basic p...

    Authors: Lisa Bartoli, Remo Calabrese, Piero Fariselli, Damiano G Mita and Rita Casadio
    Citation: BMC Bioinformatics 2007 8(Suppl 1):S3
    Content type: Research Published on:

  4. Protein interactions support cell organization and mediate its response to any specific stimulus. Recent technological advances have produced large data-sets that aim at describing the cell interactome. These ...

    Authors: Massimo Bernaschi, Filippo Castiglione, Alessandra Ferranti, Caius Gavrila, Michele Tinti and Gianni Cesareni
    Citation: BMC Bioinformatics 2007 8(Suppl 1):S4
    Content type: Research Published on:

  5. Microarrays have been widely used for the analysis of gene expression and several commercial platforms are available. The combined use of multiple platforms can overcome the inherent biases of each approach, a...

    Authors: Roberta Bosotti, Giuseppe Locatelli, Sandra Healy, Emanuela Scacheri, Luca Sartori, Ciro Mercurio, Raffaele Calogero and Antonella Isacchi
    Citation: BMC Bioinformatics 2007 8(Suppl 1):S5
    Content type: Research Published on:

  6. One of the most interesting problems in molecular immunology is epitope mapping, i.e. the identification of the regions of interaction between an antigen and an antibody. The solution to this problem, even if ...

    Authors: Tiziana Castrignanò, Paolo D'Onorio De Meo, Danilo Carrabino, Massimilano Orsini, Matteo Floris and Anna Tramontano
    Citation: BMC Bioinformatics 2007 8(Suppl 1):S6
    Content type: Research Published on:

  7. Several systems have been presented in the last years in order to manage the complexity of large microarray experiments. Although good results have been achieved, most systems tend to lack in one or more field...

    Authors: Ivan Porro, Livia Torterolo, Luca Corradi, Marco Fato, Adam Papadimitropoulos, Silvia Scaglione, Andrea Schenone and Federica Viti
    Citation: BMC Bioinformatics 2007 8(Suppl 1):S7
    Content type: Research Published on:

  9. The structure annotation of a genome is based either on ab initio methodologies or on similaritiy searches versus molecules that have been already annotated. Ab initio gene predictions in a genome are based on a ...

    Authors: Nunzio D'Agostino, Alessandra Traini, Luigi Frusciante and Maria Luisa Chiusano
    Citation: BMC Bioinformatics 2007 8(Suppl 1):S9
    Content type: Research Published on:

  10. Microarray time series studies are essential to understand the dynamics of molecular events. In order to limit the analysis to those genes that change expression over time, a first necessary step is to select ...

    Authors: Barbara Di Camillo, Gianna Toffolo, Sreekumaran K Nair, Laura J Greenlund and Claudio Cobelli
    Citation: BMC Bioinformatics 2007 8(Suppl 1):S10
    Content type: Research Published on:

  11. Activated Protein C (ProC) is an anticoagulant plasma serine protease which also plays an important role in controlling inflammation and cell proliferation. Several mutations of the gene are associated with ph...

    Authors: Pasqualina D'Ursi, Francesca Marino, Andrea Caprera, Luciano Milanesi, Elena M Faioni and Ermanna Rovida
    Citation: BMC Bioinformatics 2007 8(Suppl 1):S11
    Content type: Research Published on:

  12. The lysine, threonine, and methionine biosynthetic pathways share the three initial enzymatic steps, which are referred to as the Common Pathway (CP). In Escherichia coli three different aspartokinases (AKI, AKII...

    Authors: Marco Fondi, Matteo Brilli and Renato Fani
    Citation: BMC Bioinformatics 2007 8(Suppl 1):S12
    Content type: Research Published on:

  14. The increasing protein family and domain based annotations constitute important information to understand protein functions and gain insight into relations among their codifying genes. To allow analyzing of ge...

    Authors: Marco Masseroli, Elisa Bellistri, Andrea Franceschini and Francesco Pinciroli
    Citation: BMC Bioinformatics 2007 8(Suppl 1):S14
    Content type: Research Published on:

  16. Time course gene expression experiments are a popular means to infer co-expression. Many methods have been proposed to cluster genes or to build networks based on similarity measures of their expression dynami...

    Authors: Nicola Neretti, Daniel Remondini, Marc Tatar, John M Sedivy, Michela Pierini, Dawn Mazzatti, Jonathan Powell, Claudio Franceschi and Gastrone C Castellani
    Citation: BMC Bioinformatics 2007 8(Suppl 1):S16
    Content type: Research Published on:

  17. The Affymetrix™ technology is nowadays a well-established method for the analysis of gene expression profiles in cancer research studies. However, changes in gene expression levels are not the only way to link...

    Authors: Davide Rambaldi, Barbara Felice, Viviane Praz, Philip Bucher, Davide Cittaro and Alessandro Guffanti
    Citation: BMC Bioinformatics 2007 8(Suppl 1):S17
    Content type: Research Published on:

  18. The SYMBIOmatics Specific Support Action (SSA) is "an information gathering and dissemination activity" that seeks "to identify synergies between the bioinformatics and the medical informatics" domain to impro...

    Authors: Dietrich Rebholz-Schuhman, Graham Cameron, Dominic Clark, Erik van Mulligen, Jean-Louis Coatrieux, Eva Del Hoyo Barbolla, Fernando Martin-Sanchez, Luciano Milanesi, Ivan Porro, Francesco Beltrame, Ioannis Tollis and Johan Van der Lei
    Citation: BMC Bioinformatics 2007 8(Suppl 1):S18
    Content type: Research Published on:

  19. The huge amount of biological information, its distribution over the Internet and the heterogeneity of available software tools makes the adoption of new data integration and analysis network tools a necessity...

    Authors: Paolo Romano, Ezio Bartocci, Guglielmo Bertolini, Flavio De Paoli, Domenico Marra, Giancarlo Mauri, Emanuela Merelli and Luciano Milanesi
    Citation: BMC Bioinformatics 2007 8(Suppl 1):S19
    Content type: Research Published on:

  20. The p53 gene family consists of the three genes p53, p63 and p73, which have polyhedral non-overlapping functions in pivotal cellular processes such as DNA synthesis and repair, growth arrest, apoptosis, genom...

    Authors: Elisabetta Sbisà, Domenico Catalano, Giorgio Grillo, Flavio Licciulli, Antonio Turi, Sabino Liuni, Graziano Pesole, Anna De Grassi, Mariano Francesco Caratozzolo, Anna Maria D'Erchia, Beatriz Navarro, Apollonia Tullo, Cecilia Saccone and Andreas Gisel
    Citation: BMC Bioinformatics 2007 8(Suppl 1):S20
    Content type: Research Published on:

  21. Gene expression databases are key resources for microarray data management and analysis and the importance of a proper annotation of their content is well understood.

    Authors: Andrea Splendiani, Marco Brandizi, Gael Even, Ottavio Beretta, Norman Pavelka, Mattia Pelizzola, Manuel Mayhaus, Maria Foti, Giancarlo Mauri and Paola Ricciardi-Castagnoli
    Citation: BMC Bioinformatics 2007 8(Suppl 1):S21
    Content type: Research Published on:

  22. New high throughput pyrosequencers such as the 454 Life Sciences GS 20 are capable of massively parallelizing DNA sequencing providing an unprecedented rate of output data as well as potentially reducing costs...

    Authors: Gabriele A Trombetti, Raoul JP Bonnal, Ermanno Rizzi, Gianluca De Bellis and Luciano Milanesi
    Citation: BMC Bioinformatics 2007 8(Suppl 1):S22
    Content type: Research Published on:

  24. We performed an exhaustive search for local structural similarities in an ensemble of non-redundant protein functional sites. With the purpose of finding new examples of convergent evolution, we selected only ...

    Authors: Gabriele Ausiello, Daniele Peluso, Allegra Via and Manuela Helmer-Citterich
    Citation: BMC Bioinformatics 2007 8(Suppl 1):S24
    Content type: Research Published on:
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