CSDL - IEEE/ACM Transactions on Computational Biology and Bioinformatics

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A Constrained Evolutionary Computation Method for Detecting Controlling Regions of Cortical Networks (Abstract)

Yang Tang, Res. Inst. of Intell. Control & Syst., Harbin Inst. of Technol., Harbin, China

Zidong Wang, Dept. of Inf. Syst. & Comput., Brunel Univ., Uxbridge, UK

Huijun Gao, Res. Inst. of Intell. Control & Syst., Harbin Inst. of Technol., Harbin, China

S. Swift, Dept. of Inf. Syst. & Comput., Brunel Univ., Uxbridge, UK

J. Kurths, Dept. of Transdisciplinary Concepts & Methods, Potsdam Inst. for Climate Impact Res., Potsdam, Germany

pp. 1569-1581

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A fast and practical approach to genotype phasing and imputation on a pedigree with erroneous and incomplete information (Abstract)

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Y. Pirola, Dipt. di Inf. Sist. e Comun. (DISCo), Univ. degli Studi di Milano-Bicocca, Milan, Italy

G. D. Vedova, Dipt. di Statistica, Univ. degli Studi di Milano-Bicocca, Milan, Italy

S. Biffani, Centro Ric. e Studi Agroalimentari (CeRSA), Lodi, Italy

A. Stella, Centro Ric. e Studi Agroalimentari (CeRSA), Lodi, Italy

P. Bonizzoni, Dipt. di Inf. Sist. e Comun. (DISCo), Univ. degli Studi di Milano-Bicocca, Milan, Italy

pp. 1582-1594

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A Hybrid Cellular Automaton Model of Solid Tumor Growth and Bioreductive Drug Transport (Abstract)

N. Kazmi, Sch. of Comput., Eng. & Inf. Sci., Northumbria Univ., Newcastle upon Tyne, UK

M. A. Hossain, Sch. of Comput., Eng. & Inf. Sci., Northumbria Univ., Newcastle upon Tyne, UK

R. M. Phillips, Inst. of Cancer Therapeutics, Univ. of Bradford, Bradford, UK

pp. 1595-1606

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A Mathematical Model to Study the Dynamics of Epithelial Cellular Networks (Abstract)

A. Abate, Delft Center for Syst. & Control, Delft Univ. of Technol., Delft, Netherlands

S. Vincent, Ecole Normale Super. de Lyon, Lyon, France

R. Dobbe, Delft Center for Syst. & Control, Delft Univ. of Technol., Delft, Netherlands

A. Silletti, Dept. of Inf. Eng., Univ. of Padova, Padua, Italy

N. Master, Dept. of Electr. Eng. & Comput. Sci., Univ. of California at Berkeley, Berkeley, CA, USA

J. D. Axelrod, Dept. of Pathology, Stanford Univ., Stanford, CA, USA

C. J. Tomlin, Dept. of Electr. Eng. & Comput. Sci., Univ. of California at Berkeley, Berkeley, CA, USA

pp. 1607-1620

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A Tabu Search Approach for the NMR Protein Structure-Based Assignment Problem (Abstract)

G. Cavuslar, Univ. of Wisconsin-Madison, Madison, WI, USA

B. Catay, Sabanci Univ., Istanbul, Turkey

M. S. Apaydin, Istanbul Sehir Univ., Istanbul, Turkey

pp. 1621-1628

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An Efficient Alignment Algorithm for Searching Simple Pseudoknots over Long Genomic Sequence (Abstract)

C. Ma, Dept. of Comput. Sci., Univ. of Hong Kong, Hong Kong, China

T. K. F. Wong, Dept. of Comput. Sci., Univ. of Hong Kong, Hong Kong, China

T. W. Lam, Dept. of Comput. Sci., Univ. of Hong Kong, Hong Kong, China

W. K. Hon, Dept. of Comput. Sci., Nat. Tsing Hua Univ., Hsinchu, Taiwan

K. Sadakane, Nat. Inst. of Inf., Tokyo, Japan

S. M. Yiu, Dept. of Comput. Sci., Univ. of Hong Kong, Hong Kong, China

pp. 1629-1638

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Biomarker Identification and Cancer Classification Based on Microarray Data Using Laplace Naive Bayes Model with Mean Shrinkage (Abstract)

Meng-Yun Wu, Dept. of Math., Sun Yat-Sen Univ., Guangzhou, China

Dao-Qing Dai, Dept. of Math., Sun Yat-Sen Univ., Guangzhou, China

Yu Shi, Sch. of Math. & Stat., Zhengzhou Normal Univ., Zhengzhou, China

Hong Yan, Dept. of Electron. Eng., City Univ. of Hong Kong, Kowloon, China

Xiao-Fei Zhang, Dept. of Math., Sun Yat-Sen Univ., Guangzhou, China

pp. 1649-1662

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Design and Analysis of Classifier Learning Experiments in Bioinformatics: Survey and Case Studies (Abstract)

O. Irsoy, Dept. of Comput. Eng., Bogazici Univ., Istanbul, Turkey

O. T. Yildiz, Dept. of Comput. Eng., Isik Univ., Istanbul, Turkey

E. Alpaydin, Dept. of Comput. Eng., Bogazici Univ., Istanbul, Turkey

pp. 1663-1675

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Distinguishing Endogenous Retroviral LTRs from SINE Elements Using Features Extracted from Evolved Side Effect Machines (Abstract)

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W. Ashlock, Dept. of Comput. Sci. & Eng., York Univ., Toronto, ON, Canada

S. Datta, Dept. of Comput. Sci. & Eng., York Univ., Toronto, ON, Canada

pp. 1676-1689

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Large-Scale Signaling Network Reconstruction (Abstract)

S. Hashemikhabir, Dept. of Comput. Eng., Middle East Tech. Univ., Ankara, Turkey

E. S. Ayaz, Dept. of Comput. & Inf. Sci. & Eng., Univ. of Florida, Gainesville, FL, USA

Y. Kavurucu, Dept. of Comput. & Inf. Sci. & Eng., Univ. of Florida, Gainesville, FL, USA

T. Can, Dept. of Comput. Eng., Middle East Tech. Univ., Ankara, Turkey

T. Kahveci, Dept. of Comput. & Inf. Sci. & Eng., Univ. of Florida, Gainesville, FL, USA

pp. 1696-1708

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Multiparameter Spectral Representation of Noise-Induced Competence in Bacillus Subtilis (Abstract)

K. Sargsyan, Sandia Nat. Labs., Livermore, CA, USA

C. Safta, Sandia Nat. Labs., Livermore, CA, USA

B. Debusschere, Sandia Nat. Labs., Livermore, CA, USA

H. Najm, Sandia Nat. Labs., Livermore, CA, USA

pp. 1709-1723

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Probabilistic Arithmetic Automata and Their Applications (Abstract)

T. Marschall, Life Sci. Group, Centrum Wiskunde & Inf. (CWI), Amsterdam, Netherlands

I. Herms, Fac. of Technol., Bielefeld Univ., Bielefeld, Germany

H. Kaltenbach, Dept. of Biosyst. Sci.e & Eng., Swiss Fed. Inst. of Technol. (ETH), Basel, Switzerland

S. Rahmann, Inst. of Human Genetics, Univ. of Duisburg-Essen, Essen, Germany

pp. 1737-1750

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SC³: Triple Spectral Clustering-Based Consensus Clustering Framework for Class Discovery from Cancer Gene Expression Profiles (Abstract)

Zhiwen Yu, Higher Educ. Megacenter, South China Univ. of Technol., Guangzhou, China

Le Li, Higher Educ. Megacenter, South China Univ. of Technol., Guangzhou, China

J. You, Dept. of Comput., Hong Kong Polytech. Univ., Kowloon, China

Hau-San Wong, Dept. of Comput. Sci., City Univ. of Hong Kong, Kowloon, China

Guoqiang Han, Higher Educ. Megacenter, South China Univ. of Technol., Guangzhou, China

pp. 1751-1765

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Sequence-Based Prediction of DNA-Binding Residues in Proteins with Conservation and Correlation Information (Abstract)

Xin Ma, State Key Lab. of Bioelectronics, Southeast Univ., Nanjing, China

Jing Guo, State Key Lab. of Bioelectronics, Southeast Univ., Nanjing, China

Hong-De Liu, State Key Lab. of Bioelectronics, Southeast Univ., Nanjing, China

Jian-Ming Xie, State Key Lab. of Bioelectronics, Southeast Univ., Nanjing, China

Xiao Sun, State Key Lab. of Bioelectronics, Southeast Univ., Nanjing, China

pp. 1766-1775

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Symmetry Compression Method for Discovering Network Motifs (Abstract)

Jianxin Wang, Sch. of Inf. Eng. & Sci., Central South Univ., Changsha, China

Yuannan Huang, Sch. of Inf. Eng. & Sci., Central South Univ., Changsha, China

Fang-Xiang Wu, Dept. of Mech. Eng., Univ. of Saskatchewan, Saskatoon, SK, Canada

Yi Pan, Dept. of Comput. Sci., Georgia State Univ., Atlanta, GA, USA

pp. 1776-1789

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M. S. Amin, Dept. of Comput. Sci., Wayne State Univ., Sunnyvale, CA, USA

R. L. Finley, Center for Mol. Med. & Genetics, Wayne State Univ., Detroit, MI, USA

H. M. Jamil, Dept. of Comput. Sci., Univ. of Idaho, Moscow, ID, USA

pp. 1790-1804

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uAnalyze: Web-Based High-Resolution DNA Melting Analysis with Comparison to Thermodynamic Predictions (Abstract)

Z. L. Dwight, Dept. of Pathology, Univ. of Utah, Salt Lake City, UT, USA

R. Palais, Dept. of Math., Utah Valley Univ., Orem, UT, USA

C. T. Wittwer, Dept. of Pathology, Univ. of Utah, Salt Lake City, UT, USA

pp. 1805-1811

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A Fast Ranking Algorithm for Predicting Gene Functions in Biomolecular Networks (Abstract)

M. Re, Dipt. di Inf., Univ. degli Studi di Milano, Milan, Italy

M. Mesiti, Dipt. di Inf., Univ. degli Studi di Milano, Milan, Italy

G. Valentini, Dipt. di Inf., Univ. degli Studi di Milano, Milan, Italy

pp. 1812-1818

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Fuzzy Intervention in Biological Phenomena (Abstract)

H. N. Nounou, Electr. & Comput. Eng. Program, Texas A&M Univ. at Qatar, Doha, Qatar

M. N. Nounou, Chem. Eng. Program, Texas A&M Univ. at Qatar, Doha, Qatar

N. Meskin, Dept. of Electr. Eng., Qatar Univ., Doha, Qatar

A. Datta, Dept. of Electr. & Comput. Eng., Texas A&M Univ., College Station, TX, USA

E. R. Dougherty, Dept. of Electr. & Comput. Eng., Texas A&M Univ., College Station, TX, USA

pp. 1819-1825

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In Silico Search of DNA Drugs Targeting Oncogenes (Abstract)

G. Papadakis, Dept. of Biol., Univ. of Crete, Heraklion, Greece

E. Gizeli, Dept. of Biol., Univ. of Crete, Heraklion, Greece

pp. 1826-1830

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Investigating Topic Models' Capabilities in Expression Microarray Data Classification (Abstract)

M. Bicego, Dipt. di Inf., Univ. degli Studi di Verona, Verona, Italy

P. Lovato, Dipt. di Inf., Univ. degli Studi di Verona, Verona, Italy

A. Perina, Microsoft Res., Redmond, WA, USA

M. Fasoli, Dipt. di Biotecnologie, Univ. degli Studi di Verona, Verona, Italy

M. Delledonne, Dipt. di Biotecnologie, Univ. degli Studi di Verona, Verona, Italy

M. Pezzotti, Dipt. di Biotecnologie, Univ. degli Studi di Verona, Verona, Italy

A. Polverari, Dipt. di Biotecnologie, Univ. degli Studi di Verona, Verona, Italy

V. Murino, Anal. & Comput. Vision (PAVIS), Ist. Italiano di Tecnol. (IIT), Genoa, Italy

pp. 1831-1836

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KungFQ: A Simple and Powerful Approach to Compress fastq Files (Abstract)

E. Grassi, Dept. of Genetics, Biol. & Biochem., Mol. Biotechnol. Center, Turin, Italy

F. D. Gregorio, DNDG srl, Turin, Italy

I. Molineris, Dept. of Genetics, Biol. & Biochem., Mol. Biotechnol. Center, Turin, Italy

pp. 1837-1842

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"Pull Moves" for Rectangular Lattice Polymer Models Are Not Fully Reversible (Abstract)

D. Györffy, Res. Centre for Natural Sci., Inst. of Enzymology, Budapest, Hungary

P. Zavodszky, Res. Centre for Natural Sci., Inst. of Enzymology, Budapest, Hungary

A. Szilágyi, Res. Centre for Natural Sci., Inst. of Enzymology, Budapest, Hungary

pp. 1847-1849

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A Simpler and More Accurate AUTO-HDS Framework for Clustering and Visualization of Biological Data (Abstract)

R. J. G. B. Campello, Dept. of Comput. Sci., Univ. of Alberta, Edmonton, AB, Canada

D. Moulavi, Dept. of Comput. Sci., Univ. of Alberta, Edmonton, AB, Canada

J. Sander, Dept. of Comput. Sci., Univ. of Alberta, Edmonton, AB, Canada

pp. 1850-1852

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