Vol 18

Supplement B

NETTAB 2012

Table of Contents

Entire issue

EMBnet.journal 18 Suppl. B PDF
 

ARTICLES

Editorial HTML PDF
  p. 2
BITS Introduction HTML PDF
  p. 3
Preface - NETTAB 2012 Workshop on “Integrated Bio-Search” HTML PDF
Marco Masseroli, Paolo Romano, Frédérique Lisacek pp. 4-7
Scientific Programme PDF
  pp. 8-11

Keynote Lectures

Integration and analysis of multi-type high-throughput data for biomolecular knowledge discovery PDF
Erik Bongcam-Rudloff p. 13
Semantics based biomedical knowledge search, integration and discovery PDF
Barend Mons p. 14
Clinical and genomic data integration in support of biomedical research and clinical practice PDF
Eric Neumann p. 15

Tutorials

Multi-scale data integration and virtual exploration from promoters, through networks to drug targets PDF
Alexander Kel p. 17
The Taverna Workbench: Integrating and analysing biological and clinical data with computerised workflows PDF
Katy Wolstencroft p. 18

Oral Communications

Rational design of organelle compartments in cells PDF
Claudio Angione, Giovanni Carapezza, Jole Costanza, Pietro Lió, Giuseppe Nicosia pp. 20-22
Filtering with alignment free distances for high throughput DNA reads assembly PDF
Maria C De Cola, Giovanni Felici, Daniele Santoni, Emanuel Weitschek pp. 23-25
A semantic collaborative system for the management of translational research projects PDF
Matteo Gabetta, Giuseppe Milani, Cristiana Larizza, Valentina Favalli, Eloisa Arbustini, Riccardo Bellazzi pp. 26-28
Answering Gene Ontology terms to proteomics questions by supervised macro reading in Medline PDF
Julien Gobeill, Emilie Pasche, Douglas Teodoro, Anne-Lise Veuthey, Patrick Ruch pp. 29-31
Using graph theory to analyze gene network coherence PDF
Francisco Gómez-Vela, Norberto Díaz-Díaz, José A Lagares, José A Sánchez, Jesús S Aguilar-Ruiz pp. 32-34
The open source ISA software suite and its international user community: knowledge management of experimental data PDF
Alejandra González-Beltrán, Eamonn Maguire, Philippe Rocca-Serra, Susanna-Assunta Sansone pp. 35-37
Network-based gene-disease prioritization using PROPHNET PDF
Víctor Martínez, Carlos Cano, Armando Blanco pp. 38-40
QTreds: a flexible LIMS for omics laboratories PDF
Piergiorgio Palla, Gianfranco Frau, Laura Vargiu, Patricia Rodriguez-Tomé pp. 41-43
Development of a text search engine for medicinal chemistry patents PDF
Emilie Pasche, Julien Gobeill, Fatma Oezdemir-Zaech, Therese Vachon, Christian Lovis, Patrick Ruch pp. 44-46
The ontogene system: an advanced information extraction application for biological literature PDF
Fabio Rinaldi pp. 47-49
IntelliGenWiki: An Intelligent Semantic Wiki for Life Sciences PDF
Bahar Sateli, Marie-Jean Meurs, Greg Butler, Justin Powlowski, Adrian Tsang, René Witte pp. 50-52
ROCK: a resource for integrative breast cancer data analysis PDF
Saif Ur-Rehman, Costas Mitsopoulos, Marketa Zvelebil pp. 53-54

Technological Industrial Communications

Extracting knowledge from biomedical data through Logic Learning Machines and Rulex PDF
Marco Muselli pp. 56-58
Data modeling: the key to biological data integration PDF
François Rechenmann pp. 59-60

Short Oral Communications

BioQuery-ASP: querying biomedical databases and ontologies using answer set programming PDF
Esra Erdem, Umut Oztok pp. 62-64
A strategy to reduce technical variability and bias in RNA sequencing data PDF
Francesca Finotello, Enrico Lavezzo, Luisa Barzon, Paolo Mazzon, Paolo Fontana, Stefano Toppo, Barbara Di Camillo pp. 65-67
Applications of a generic model of genomic variations functional analysis PDF
Sarah Mapelli, Uberto Pozzoli pp. 68-70
Ranking-aware integration and explorative search of distributed bio-data PDF
Marco Masseroli, Matteo Picozzi, Giorgio Ghisalberti pp. 71-73
DiGSNP: a web tool for Disease-Gene-SNP hierarchical prioritization PDF
Carmen Navarro, Carlos Cano, Armando Blanco, Fernando García-Alcalde pp. 74-76
The BioVel Project: Robust phylogenetic workflows running on the GRID PDF
Saverio Vicario, Bachir Balech, Giacinto Donvito, Pasquale Notarangelo, Graziano Pesole pp. 77-79

Posters

Empowering web portal users with personalized text mining services PDF
Fedor Bakalov, Marie-Jean Meurs, Birgitta König-Ries, Bahar Sateli, Rene Witte, Greg Butler, Adrian Tsang pp. 81-83
Ordering copy number alteration data to analyze colorectal cancer progression PDF
Iuliana M. Bocicor, Giulio Caravagna, Alex Graudenzi, Claudia Cava, Giancarlo Mauri, Marco Antoniotti pp. 84-86
Glycans, the forgotten biomolecular actors of the big picture PDF
Matthew P. Campbell, Julien A. Mariethoz, Catherine M. Hayes, Pauline G. Rudd, Niclas G. Karlsson, Nicki H. Packer, Frédérique Lisacek pp. 87-88
Genomic and proteomic data integration for comprehensive biodata search PDF
Arif Canakoglu, Marco Masseroli pp. 89-91
Generation of explicit rules predicting neuroblastoma patients’ outcome PDF
Davide Cangelosi, Fabiola Blengio, Rogier Versteeg, Angelika Eggert, Alberto Garaventa, Claudio Gambini, Massimo Conte, Alessandra Eva, Luigi Varesio pp. 92-93
Simulation of caspases apoptotic signalling pathway in a tuple space-based bioinformatics infrastructure PDF
Maura Cárdenas-García, Pedro P González-Pérez, Sara Montagna pp. 94-96
Chromosome instability for tumor progression inference PDF
Claudia Cava, Italo Zoppis, Manuela Gariboldi, James F. Reid, Marco Antoniotti, Giancarlo Mauri pp. 97-99
Distilling structure in scientific workflows PDF
Juiqiang Chen, Christine Froidevaux, Carole Goble, Alan R. Williams, Sarah Cohen-Boulakia pp. 100-102
CorrelaGenes: a new tool for the interpretation of the human transcriptome PDF
Paolo Cremaschi, Sergio Rovida, Lucia Sacchi, Antonella Lisa, Alessandra Montecucco, Giuseppe Biamonti, Silvia Bione, Gianni Sacchi pp. 103-105
Business intelligence for biopharmaceutical company PDF
Anass El Haddadi, Bernard Dousser pp. 106-107
Biomedical Text Mining for Disease Gene Discovery PDF
Sarah ElShal, Jesse Davis, Yves Moreau pp. 108-109
An ontological-based knowledge organization for bioinformatics workflow management system PDF
Antonino Fiannaca, Massimo La Rosa, Salvatore Gaglio, Riccardo Rizzo, Alfonso Urso pp. 110-112
A tool for the extraction of new disease biomarkers from ex vivo and in vivo data PDF
Francesca Gallivanone, Carla Canevari, Isabella Sassi, Alberto Marassi, Maria Picchio, Maria C Gilardi, Isabella Castiglioni pp. 113-115
Prediction and 3D visualization of biological networks using cytological disease mapping PDF
Björn Sommer, Vladimir Ivanisenko, Patrizio Arrigo, Ralf Hofestädt pp. 116-117
A Grid-enabled web platform for integrated digital biobanking in paediatrics PDF
Massimiliano Izzo, Andrea Schenone, Sara Barzaghi, Fabiola Blengio, Marco M Fato, Luigi Varesio pp. 118-120
MBLabDB: a social database for molecular biodiversity data PDF
Flavio Licciulli, Domenico Catalano, Domenica D'Elia, Giorgio De Caro, Giorgio Grillo, Pietro Leo, Giuseppina Mulè, Paolo Pannarale, Graziano Pappadà, Francesco Rubino, Antonella Susca, Saverio Vicario, Gaetano Scioscia pp. 121-123
A multivariate analysis of protein microarrays for signature selection profiles PDF
Saveria Mazzara, Antonella Sinisi, Angela Cardaci, Sergio Abrignani, Mauro Bombaci pp. 124-126
Extracting correspondences between terminologies for an easier access to biomedical information PDF
Adila Merabti, Lina F Soualmia, Stéfan J Darmoni pp. 127-129
Detection of allele-specific gene expression on Next Generation Sequencing data PDF
Vladan Mijatovic, Luciano Xumerle, Alberto Ferrarini, Ilaria Iacobucci, Chiara Pighi, Antonio Mori, Chiara Zusi, Paola Prandini, Elisabetta Trabetti, Massimo Delledonne, Giovanni Martinelli, Alberto Zamò, Pier F Pignatti, Giovanni Malerba pp. 130-131
Network-based analysis of stem cells differentiation PDF
Francesca Mulas, Lan Zagar, Blaz Zupan, Riccardo Bellazzi pp. 132-134
AnnotateGenomicRegions: a web application PDF
Heiko Muller, Luca Zammataro, Gabriele Bucci pp. 135-137
G-SNPM - A GPU-based SNP mapping tool PDF
Alessandro Orro, Andrea Manconi, Emanuele Manca, Giuliano Armano, Luciano Milanesi pp. 138-139
HARP: an automated platform for targeted resequencing data analysis PDF
Fernando Palluzzi pp. 140-141
The integration of microRNA target data by biclustering techniques opens new roads for signaling networks analysis PDF
Gianvito Pio, Michelangelo Ceci, Corrado Loglisci, Donato Malerba, Domenica D'Elia pp. 142-144
ONCO-i2b2: improve patients selection through CBR techniques with heterogeneous distance functions PDF
Daniele Segagni, Matteo Gabetta, Valentina Tibollo, Arianna Dagliati, Alberto Zambelli, Cristiana Larizza, Silvia G Priori, Riccardo G Bellazzi pp. 145-147
Bioinformatics approach for data management about bone cells grown on substitute materials PDF
Federica Viti, Ivan Merelli, Silvia Scaglione, Luciano Milanesi pp. 148-150
A first RDF implementation of the COSMIC database on mutations in cancer PDF
Achille Zappa, Paolo Romano pp. 151-153


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ISSN: 2226-6089