The Community for Technology Leaders
Green Image
TABLE OF CONTENTS
Issue No. 03 - July-September (vol. 7)
ISSN: 1545-5963
SPECIAL SECTION ON BIOCREATIVE II.5

An Overview of BioCreative II.5 (HTML)

Gianni Cesareni , University of Rome Tor Vergata, Rome
Lynette A. Hirschman , MITRE Corporation, Bedford
Scott A. Mardis , MITRE Corporation, Bedford
Alfonso Valencia , Spanish National Cancer Research Centre (CNIO), Madrid
Florian Leitner , Spanish National Cancer Research Centre (CNIO), Madrid
Martin Krallinger , Spanish National Cancer Research Centre (CNIO), Madrid
pp. 385-399

Classification of Protein-Protein Interaction Full-Text Documents Using Text and Citation Network Features (Abstract)

Luis M. Rocha , Indiana University, Bloomington
Jasleen Kaur , Indiana University, Bloomington
Artemy Kolchinsky , Indiana University, Bloomington
Alaa Abi-Haidar , Indiana University, Bloomington
Ahmed Abdeen Hamed , Indiana University, Bloomington
pp. 400-411

Multistage Gene Normalization and SVM-Based Ranking for Protein Interactor Extraction in Full-Text Articles (Abstract)

Hong-Jie Dai , National Tsing-Hua University, Hsinchu, Taiwan
Po-Ting Lai , Yuan Ze University, Ching-Li, Taiwan
Richard Tzong-Han Tsai , Yuan Ze University, Ching-Li, Taiwan
pp. 412-420

Empirical Investigations into Full-Text Protein Interaction Article Categorization Task (ACT) in the BioCreative II.5 Challenge (Abstract)

Man Lan , East China Normal University, Shanghai
Jian Su , Institute for Infocomm Research, Singapore
pp. 421-427

BioLMiner System: Interaction Normalization Task and Interaction Pair Task in the BioCreative II.5 Challenge (Abstract)

Yifei Chen , Vrije Universiteit Brussel, Brussels
Bernard Manderick , Vrije Universiteit Brussel, Brussels
Feng Liu , Vrije Universiteit Brussel, Brussels
pp. 428-441

Extracting Protein Interactions from Text with the Unified AkaneRE Event Extraction System (Abstract)

Makoto Miwa , University of Tokyo, Tokyo
Yoshinobu Kano , University of Tokyo, Tokyo
Takuya Matsuzaki , University of Tokyo, Tokyo
Kazuhiro Yoshida , University of Tokyo, Tokyo
Rune Sætre , University of Tokyo, Tokyo
Jun'ichi Tsujii , University of Tokyo, Tokyo and University of Manchester, Manchester
pp. 442-453

An IR-Aided Machine Learning Framework for the BioCreative II.5 Challenge (Abstract)

Qing Zhang , University of Wisconsin-Milwaukee, Milwaukee
Shashank Agarwal , University of Wisconsin-Milwaukee, Milwaukee
Zuofeng Li , University of Wisconsin-Milwaukee, Milwaukee
Feifan Liu , University of Wisconsin-Milwaukee, Milwaukee
Yonggang Cao , University of Wisconsin-Milwaukee, Milwaukee
Hong Yu , University of Wisconsin-Milwaukee, Milwaukee
pp. 454-461

Exploring Species-Based Strategies for Gene Normalization (Abstract)

Lawrence E. Hunter , University of Colorado Denver, Aurora
Helen L. Johnson , University of Colorado Denver, Aurora
Karin Verspoor , University of Colorado Denver, Aurora
Christophe Roeder , University of Colorado Denver, Aurora
William A. Baumgartner Jr. , University of Colorado Denver, Aurora
K. Bretonnel Cohen , University of Colorado Denver, Aurora
pp. 462-471

OntoGene in BioCreative II.5 (Abstract)

Simon Clematide , University of Zurich, Zurich
Kaarel Kaljurand , University of Zurich, Zurich
Thérèse Vachon , Novartis Pharma AG, NITAS, Text Mining Services, Basel
Gerold Schneider , University of Zurich, Zurich
Fabio Rinaldi , University of Zurich
Martin Romacker , Novartis Pharma AG, NITAS, Text Mining Services, Basel
pp. 472-480

Efficient Extraction of Protein-Protein Interactions from Full-Text Articles (Abstract)

Graciela Gonzalez , Arizona State University, Phoenix, AZ
Ryan Sullivan , Arizona State University, Phoenix, AZ
Christopher Miller , Arizona State University, Phoenix, AZ
Robert Leaman , Arizona State University, Phoenix, AZ
Siddhartha Jonnalagadda , Arizona State University, Phoenix, AZ
Chitta Baral , Arizona State University, Tempe, AZ
Jörg Hakenberg , Arizona State University, Tempe, AZ
Luis Tari , Hoffmann-La Roche Inc., Nutley, NJ
Nguyen Ha Vo , Arizona State University, Tempe, AZ
pp. 481-494
REGULAR PAPERS

Cache-Oblivious Dynamic Programming for Bioinformatics (Abstract)

Hai-Son Le , Carnegie Mellon University, Pittsburgh
Rezaul Alam Chowdhury , The University of Texas at Austin, Austin
Vijaya Ramachandran , The University of Texas at Austin, Austin
pp. 495-510

CollHaps: A Heuristic Approach to Haplotype Inference by Parsimony (Abstract)

Giuseppe Lancia , University of Udine, Udine
Leonardo Tininini , CNR-Istituto di Analisi dei Sistemi e Informatica, Roma
Alessandra Godi , CNR-Istituto di Analisi dei Sistemi e Informatica, Roma
Paola Bertolazzi , CNR-Istituto di Analisi dei Sistemi e Informatica, Roma
pp. 511-523

Combinatorial Analysis for Sequence and Spatial Motif Discovery in Short Sequence Fragments (Abstract)

Jie Liang , University of Illinois at Chicago, Chicago
Ronald Jackups Jr. , University of Illinois at Chicago, Chicago
pp. 524-536

Nonnegative Principal Component Analysis for Cancer Molecular Pattern Discovery (Abstract)

Xiaoxu Han , Eastern Michgan University, Ypsilanti
pp. 537-549

SCS: Signal, Context, and Structure Features for Genome-Wide Human Promoter Recognition (Abstract)

Xiao-Qin Cao , City University of Hong Kong, Hong Kong
Jia Zeng , Soochow University, Suzhou
Xiao-Yu Zhao , Hong Kong Polytechnic University, Hong Kong
Hong Yan , City University of Hong Kong, Hong Kong and The University of Sydney, Sydney
pp. 550-562
SHORT PAPERS

A Study of Hierarchical and Flat Classification of Proteins (Abstract)

Fabian Buchwald , Technische Universitaet Muenchen, Muenchen
Stefan Kramer , Technische Universitaet Muenchen, Muenchen
Eibe Frank , University of Waikato, Hamilton
Arthur Zimek , Ludwig-Maximilians-Universitaet Muenchen and Forschungseinheit fuer Datenbanksysteme, Muenchen
pp. 563-571

On the Complexity of uSPR Distance (Abstract)

Maria Luisa Bonet , Universitat Politècnica de Catalunya (UPC), Barcelona
Katherine St. John , City University of New York (CUNY), Bronx
pp. 572-576
81 ms
(Ver )