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@article{DBLP:journals/tcbb/AllmanR09,
author = {Elizabeth S. Allman and
John A. Rhodes},
title = {The Identifiability of Covarion Models in Phylogenetics},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {1},
pages = {76--88},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.52},
doi = {10.1109/TCBB.2008.52},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/AllmanR09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/Arribas-GilMP09,
author = {Ana Arribas{-}Gil and
Dirk Metzler and
Jean{-}Louis Plouhinec},
title = {Statistical Alignment with a Sequence Evolution Model Allowing Rate
Heterogeneity along the Sequence},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {2},
pages = {281--295},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2007.70246},
doi = {10.1109/TCBB.2007.70246},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/Arribas-GilMP09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/BansalEW09,
author = {Mukul S. Bansal and
Oliver Eulenstein and
Andr{\'{e}} Wehe},
title = {The Gene-Duplication Problem: Near-Linear Time Algorithms for NNI-Based
Local Searches},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {2},
pages = {221--231},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2009.7},
doi = {10.1109/TCBB.2009.7},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/BansalEW09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/Bi09,
author = {Chengpeng Bi},
title = {A Monte Carlo {EM} Algorithm for De Novo Motif Discovery in Biomolecular
Sequences},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {3},
pages = {370--386},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.103},
doi = {10.1109/TCBB.2008.103},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/Bi09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/BordewichGHM09,
author = {Magnus Bordewich and
Olivier Gascuel and
Katharina T. Huber and
Vincent Moulton},
title = {Consistency of Topological Moves Based on the Balanced Minimum Evolution
Principle of Phylogenetic Inference},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {1},
pages = {110--117},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.37},
doi = {10.1109/TCBB.2008.37},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/BordewichGHM09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/BryantS09,
author = {David Bryant and
Mike A. Steel},
title = {Computing the Distribution of a Tree Metric},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {3},
pages = {420--426},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2009.32},
doi = {10.1109/TCBB.2009.32},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/BryantS09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/CardonaLRV09,
author = {Gabriel Cardona and
Merc{\`{e}} Llabr{\'{e}}s and
Francesc Rossell{\'{o}} and
Gabriel Valiente},
title = {Metrics for Phylogenetic Networks {I:} Generalizations of the Robinson-Foulds
Metric},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {1},
pages = {46--61},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.70},
doi = {10.1109/TCBB.2008.70},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/CardonaLRV09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/CardonaLRV09a,
author = {Gabriel Cardona and
Merc{\`{e}} Llabr{\'{e}}s and
Francesc Rossell{\'{o}} and
Gabriel Valiente},
title = {Metrics for Phylogenetic Networks {II:} Nodal and Triplets Metrics},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {3},
pages = {454--469},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.127},
doi = {10.1109/TCBB.2008.127},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/CardonaLRV09a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/CardonaLRV09b,
author = {Gabriel Cardona and
Merc{\`{e}} Llabr{\'{e}}s and
Francesc Rossell{\'{o}} and
Gabriel Valiente},
title = {On Nakhleh's Metric for Reduced Phylogenetic Networks},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {4},
pages = {629--638},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2009.33},
doi = {10.1109/TCBB.2009.33},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/CardonaLRV09b.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/CardonaRV09,
author = {Gabriel Cardona and
Francesc Rossell{\'{o}} and
Gabriel Valiente},
title = {Comparison of Tree-Child Phylogenetic Networks},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {4},
pages = {552--569},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2007.70270},
doi = {10.1109/TCBB.2007.70270},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/CardonaRV09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/ChenC09,
author = {Xin Chen and
Yun Cui},
title = {An Approximation Algorithm for the Minimum Breakpoint Linearization
Problem},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {3},
pages = {401--409},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2009.3},
doi = {10.1109/TCBB.2009.3},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/ChenC09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/ChenW09,
author = {Zhi{-}Zhong Chen and
Lusheng Wang},
title = {Improved Approximation Algorithms for Reconstructing the History of
Tandem Repeats},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {3},
pages = {438--453},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.122},
doi = {10.1109/TCBB.2008.122},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/ChenW09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/ChenW09a,
author = {Jie Chen and
Yu{-}Ping Wang},
title = {A Statistical Change Point Model Approach for the Detection of {DNA}
Copy Number Variations in Array {CGH} Data},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {4},
pages = {529--541},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.129},
doi = {10.1109/TCBB.2008.129},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/ChenW09a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/ChowriappaDKT09,
author = {Pradeep Chowriappa and
Sumeet Dua and
Jinko Kanno and
Hilary W. Thompson},
title = {Protein Structure Classification Based on Conserved Hydrophobic Residues},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {4},
pages = {639--651},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.77},
doi = {10.1109/TCBB.2008.77},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/ChowriappaDKT09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/DiagoM09,
author = {Luis A. Diago and
Ernesto Moreno},
title = {Evaluation of Geometric Complementarity between Molecular Surfaces
Using Compactly Supported Radial Basis Functions},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {4},
pages = {689--694},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2009.31},
doi = {10.1109/TCBB.2009.31},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/DiagoM09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/DoughertyBTB09,
author = {Edward R. Dougherty and
Marcel Brun and
Jeffrey M. Trent and
Michael L. Bittner},
title = {Conditioning-Based Modeling of Contextual Genomic Regulation},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {2},
pages = {310--320},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2007.70247},
doi = {10.1109/TCBB.2007.70247},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/DoughertyBTB09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/GonzalezARSD09,
author = {Ana M. Gonz{\'{a}}lez and
Francisco Azuaje and
Jose L. Ramirez and
Jose F. da Silveira and
Jos{\'{e}} R. Dorronsoro},
title = {Machine Learning Techniques for the Automated Classification of Adhesin-Like
Proteins in the Human Protozoan Parasite Trypanosoma cruzi},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {4},
pages = {695--702},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.125},
doi = {10.1109/TCBB.2008.125},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/GonzalezARSD09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/GrunewaldM09,
author = {Stefan Gr{\"{u}}newald and
Vincent Moulton},
title = {Maximum Parsimony for Tree Mixtures},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {1},
pages = {97--102},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.75},
doi = {10.1109/TCBB.2008.75},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/GrunewaldM09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/Gusfield09,
author = {Dan Gusfield},
title = {Final, Five-Year End, Editorial},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {1},
pages = {1--2},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2009.16},
doi = {10.1109/TCBB.2009.16},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/Gusfield09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/Gusfield09a,
author = {Dan Gusfield},
title = {Outgoing {EIC} Editorial for this Special Section of {TCBB} with the
Theme of Phylogenetics},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {1},
pages = {96},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2009.20},
doi = {10.1109/TCBB.2009.20},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/Gusfield09a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/HeathS09,
author = {Lenwood S. Heath and
Allan A. Sioson},
title = {Semantics of Multimodal Network Models},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {2},
pages = {271--280},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2007.70242},
doi = {10.1109/TCBB.2007.70242},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/HeathS09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/HeathS09a,
author = {Lenwood S. Heath and
Allan A. Sioson},
title = {Multimodal Networks: Structure and Operations},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {2},
pages = {321--332},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2007.70243},
doi = {10.1109/TCBB.2007.70243},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/HeathS09a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/HongT09,
author = {Changjin Hong and
Ahmed H. Tewfik},
title = {Heuristic Reusable Dynamic Programming: Efficient Updates of Local
Sequence Alignment},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {4},
pages = {570--582},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2009.30},
doi = {10.1109/TCBB.2009.30},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/HongT09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/HulsmanRR09,
author = {Marc Hulsman and
Marcel J. T. Reinders and
Dick de Ridder},
title = {Evolutionary Optimization of Kernel Weights Improves Protein Complex
Comembership Prediction},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {3},
pages = {427--437},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.137},
doi = {10.1109/TCBB.2008.137},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/HulsmanRR09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/Huson09,
author = {Daniel H. Huson},
title = {Drawing Rooted Phylogenetic Networks},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {1},
pages = {103--109},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.58},
doi = {10.1109/TCBB.2008.58},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/Huson09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/HusonMS09,
author = {Daniel H. Huson and
Vincent Moulton and
Mike A. Steel},
title = {Special Section: Phylogenetics},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {1},
pages = {4--6},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2009.21},
doi = {10.1109/TCBB.2009.21},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/HusonMS09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/IerselKKSHB09,
author = {Leo van Iersel and
Judith Keijsper and
Steven Kelk and
Leen Stougie and
Ferry Hagen and
Teun Boekhout},
title = {Constructing Level-2 Phylogenetic Networks from Triplets},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {4},
pages = {667--681},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2009.22},
doi = {10.1109/TCBB.2009.22},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/IerselKKSHB09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/JinNST09,
author = {Guohua Jin and
Luay Nakhleh and
Sagi Snir and
Tamir Tuller},
title = {Parsimony Score of Phylogenetic Networks: Hardness Results and a Linear-Time
Heuristic},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {3},
pages = {495--505},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.119},
doi = {10.1109/TCBB.2008.119},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/JinNST09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/LinzS09,
author = {Simone Linz and
Charles Semple},
title = {Hybridization in Nonbinary Trees},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {1},
pages = {30--45},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.86},
doi = {10.1109/TCBB.2008.86},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/LinzS09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/LiuNRLW09,
author = {Kevin Liu and
Serita M. Nelesen and
Sindhu Raghavan and
C. Randal Linder and
Tandy J. Warnow},
title = {Barking Up The Wrong Treelength: The Impact of Gap Penalty on Alignment
and Tree Accuracy},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {1},
pages = {7--21},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.63},
doi = {10.1109/TCBB.2008.63},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/LiuNRLW09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/MaNR09,
author = {Jianmin Ma and
Minh Ngoc Nguyen and
Jagath C. Rajapakse},
title = {Gene Classification Using Codon Usage and Support Vector Machines},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {1},
pages = {134--143},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2007.70240},
doi = {10.1109/TCBB.2007.70240},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/MaNR09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/Maitra09,
author = {Ranjan Maitra},
title = {Initializing Partition-Optimization Algorithms},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {1},
pages = {144--157},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2007.70244},
doi = {10.1109/TCBB.2007.70244},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/Maitra09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/MandoiuPSZ09,
author = {Ion I. Mandoiu and
Yi Pan and
Raj Sunderraman and
Alexander Zelikovsky},
title = {Guest Editors' Introduction to the Special Section on Bioinformatics
Research and Applications},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {2},
pages = {178--179},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2009.45},
doi = {10.1109/TCBB.2009.45},
timestamp = {Mon, 01 May 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/MandoiuPSZ09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/Matsen09,
author = {Frederick A. Matsen IV},
title = {Fourier Transform Inequalities for Phylogenetic Trees},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {1},
pages = {89--95},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.68},
doi = {10.1109/TCBB.2008.68},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/Matsen09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/MinhPKH09,
author = {Bui Quang Minh and
Fabio Pardi and
Steffen Klaere and
Arndt von Haeseler},
title = {Budgeted Phylogenetic Diversity on Circular Split Systems},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {1},
pages = {22--29},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.54},
doi = {10.1109/TCBB.2008.54},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/MinhPKH09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/Mneimneh09,
author = {Saad Mneimneh},
title = {On the Approximation of Optimal Structures for {RNA-RNA} Interaction},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {4},
pages = {682--688},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2007.70258},
doi = {10.1109/TCBB.2007.70258},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/Mneimneh09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/MosselRS09,
author = {Elchanan Mossel and
S{\'{e}}bastien Roch and
Mike A. Steel},
title = {Shrinkage Effect in Ancestral Maximum Likelihood},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {1},
pages = {126--133},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.107},
doi = {10.1109/TCBB.2008.107},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/MosselRS09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/NarasimhanRV09,
author = {Sridharakumar Narasimhan and
Raghunathan Rengaswamy and
Rajanikanth Vadigepalli},
title = {Structural Properties of Gene Regulatory Networks: Definitions and
Connections},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {1},
pages = {158--170},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2007.70231},
doi = {10.1109/TCBB.2007.70231},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/NarasimhanRV09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/NiijimaO09,
author = {Satoshi Niijima and
Yasushi Okuno},
title = {Laplacian Linear Discriminant Analysis Approach to Unsupervised Feature
Selection},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {4},
pages = {605--614},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2007.70257},
doi = {10.1109/TCBB.2007.70257},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/NiijimaO09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/OlmanMWX09,
author = {Victor Olman and
Fenglou Mao and
Hongwei Wu and
Ying Xu},
title = {Parallel Clustering Algorithm for Large Data Sets with Applications
in Bioinformatics},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {2},
pages = {344--352},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2007.70272},
doi = {10.1109/TCBB.2007.70272},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/OlmanMWX09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/ParkSS09,
author = {Yongjin Park and
Stanley Shackney and
Russell Schwartz},
title = {Network-Based Inference of Cancer Progression from Microarray Data},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {2},
pages = {200--212},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.126},
doi = {10.1109/TCBB.2008.126},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/ParkSS09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/PaulI09,
author = {Topon Kumar Paul and
Hitoshi Iba},
title = {Prediction of Cancer Class with Majority Voting Genetic Programming
Classifier Using Gene Expression Data},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {2},
pages = {353--367},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2007.70245},
doi = {10.1109/TCBB.2007.70245},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/PaulI09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/PrakashT09,
author = {Amol Prakash and
Martin Tompa},
title = {Assessing the Discordance of Multiple Sequence Alignments},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {4},
pages = {542--551},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2007.70271},
doi = {10.1109/TCBB.2007.70271},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/PrakashT09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/QiuL09,
author = {Shibin Qiu and
Terran Lane},
title = {A Framework for Multiple Kernel Support Vector Regression and Its
Applications to siRNA Efficacy Prediction},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {2},
pages = {190--199},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.139},
doi = {10.1109/TCBB.2008.139},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/QiuL09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/RasmussenCGW09,
author = {Carl Edward Rasmussen and
Bernard J. de la Cruz and
Zoubin Ghahramani and
David L. Wild},
title = {Modeling and Visualizing Uncertainty in Gene Expression Clusters Using
Dirichlet Process Mixtures},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {4},
pages = {615--628},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2007.70269},
doi = {10.1109/TCBB.2007.70269},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/RasmussenCGW09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/RoytbergGNLFSK09,
author = {Mikhail A. Roytberg and
Anna Gambin and
Laurent No{\'{e}} and
Slawomir Lasota and
Eugenia Furletova and
Ewa Szczurek and
Gregory Kucherov},
title = {On Subset Seeds for Protein Alignment},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {3},
pages = {483--494},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2009.4},
doi = {10.1109/TCBB.2009.4},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/RoytbergGNLFSK09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/Sagot09,
author = {Marie{-}France Sagot},
title = {New {EIC} Editorial},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {1},
pages = {3},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2009.19},
doi = {10.1109/TCBB.2009.19},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/Sagot09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/Sagot09a,
author = {Marie{-}France Sagot},
title = {{EIC} Editorial},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {2},
pages = {177},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2009.44},
doi = {10.1109/TCBB.2009.44},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/Sagot09a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/Sagot09b,
author = {Marie{-}France Sagot},
title = {{EIC} Editorial: Introducing New Associate Editors},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {3},
pages = {369},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2009.66},
doi = {10.1109/TCBB.2009.66},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/Sagot09b.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/SalicruVZ09,
author = {Miquel Salicru and
Sergi Vives and
Tian Zheng},
title = {Inferential Clustering Approach for Microarray Experiments with Replicated
Measurements},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {4},
pages = {594--604},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.106},
doi = {10.1109/TCBB.2008.106},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/SalicruVZ09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/ShaikY09,
author = {Jahangheer S. Shaik and
Mohammed Yeasin},
title = {Fuzzy-Adaptive-Subspace-Iteration-Based Two-Way Clustering of Microarray
Data},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {2},
pages = {244--259},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.15},
doi = {10.1109/TCBB.2008.15},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/ShaikY09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/Smith09,
author = {Jennifer A. Smith},
title = {{RNA} Search with Decision Trees and Partial Covariance Models},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {3},
pages = {517--527},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.120},
doi = {10.1109/TCBB.2008.120},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/Smith09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/SotiropoulosCDK09,
author = {Vassilios Sotiropoulos and
Marie{-}Nathalie Contou{-}Carrere and
Prodromos Daoutidis and
Yiannis N. Kaznessis},
title = {Model Reduction of Multiscale Chemical Langevin Equations: {A} Numerical
Case Study},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {3},
pages = {470--482},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2009.23},
doi = {10.1109/TCBB.2009.23},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/SotiropoulosCDK09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/StoyeW09,
author = {Jens Stoye and
Roland Wittler},
title = {A Unified Approach for Reconstructing Ancient Gene Clusters},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {3},
pages = {387--400},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.135},
doi = {10.1109/TCBB.2008.135},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/StoyeW09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/SunB09,
author = {Yanni Sun and
Jeremy Buhler},
title = {Designing Patterns and Profiles for Faster {HMM} Search},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {2},
pages = {232--243},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.14},
doi = {10.1109/TCBB.2008.14},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/SunB09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/ThomasRB09,
author = {John Thomas and
Naren Ramakrishnan and
Chris Bailey{-}Kellogg},
title = {Protein Design by Sampling an Undirected Graphical Model of Residue
Constraints},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {3},
pages = {506--516},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.124},
doi = {10.1109/TCBB.2008.124},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/ThomasRB09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/TreangenDARMR09,
author = {Todd J. Treangen and
Aaron E. Darling and
Guillaume Achaz and
Mark A. Ragan and
Xavier Messeguer and
Eduardo P. C. Rocha},
title = {A Novel Heuristic for Local Multiple Alignment of Interspersed {DNA}
Repeats},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {2},
pages = {180--189},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2009.9},
doi = {10.1109/TCBB.2009.9},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/TreangenDARMR09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/UeharaJ09,
author = {Hiroaki Uehara and
Masakazu Jimbo},
title = {A Positive Detecting Code and Its Decoding Algorithm for {DNA} Library
Screening},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {4},
pages = {652--666},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2007.70266},
doi = {10.1109/TCBB.2007.70266},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/UeharaJ09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/VignesF09,
author = {Matthieu Vignes and
Florence Forbes},
title = {Gene Clustering via Integrated Markov Models Combining Individual
and Pairwise Features},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {2},
pages = {260--270},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2007.70248},
doi = {10.1109/TCBB.2007.70248},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/VignesF09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/WangLLLV09,
author = {Zidong Wang and
Xiaohui Liu and
Yurong Liu and
Jinling Liang and
Veronica Vinciotti},
title = {An Extended Kalman Filtering Approach to Modeling Nonlinear Dynamic
Gene Regulatory Networks via Short Gene Expression Time Series},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {3},
pages = {410--419},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2009.5},
doi = {10.1109/TCBB.2009.5},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/WangLLLV09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/WangWZZZC09,
author = {Yong Wang and
Ling{-}Yun Wu and
Ji{-}Hong Zhang and
Zhong{-}Wei Zhan and
Xiang{-}Sun Zhang and
Luonan Chen},
title = {Evaluating Protein Similarity from Coarse Structures},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {4},
pages = {583--593},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2007.70250},
doi = {10.1109/TCBB.2007.70250},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/WangWZZZC09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/WeberRHDFKHHKMBH09,
author = {Gunther H. Weber and
Oliver R{\"{u}}bel and
Min{-}Yu Huang and
Angela H. DePace and
Charless C. Fowlkes and
Soile V. E. Ker{\"{a}}nen and
Cris L. Luengo Hendriks and
Hans Hagen and
David W. Knowles and
Jitendra Malik and
Mark D. Biggin and
Bernd Hamann},
title = {Visual Exploration of Three-Dimensional Gene Expression Using Physical
Views and Linked Abstract Views},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {2},
pages = {296--309},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2007.70249},
doi = {10.1109/TCBB.2007.70249},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/WeberRHDFKHHKMBH09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/Willson09,
author = {Stephen J. Willson},
title = {Robustness of Topological Supertree Methods for Reconciling Dense
Incompatible Data},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {1},
pages = {62--75},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.51},
doi = {10.1109/TCBB.2008.51},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/Willson09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/WuMS09,
author = {Taoyang Wu and
Vincent Moulton and
Mike A. Steel},
title = {Refining Phylogenetic Trees Given Additional Data: An Algorithm Based
on Parsimony},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {1},
pages = {118--125},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.100},
doi = {10.1109/TCBB.2008.100},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/WuMS09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/YukinawaOKI09,
author = {Naoto Yukinawa and
Shigeyuki Oba and
Kikuya Kato and
Shin Ishii},
title = {Optimal Aggregation of Binary Classifiers for Multiclass Cancer Diagnosis
Using Gene Expression Profiles},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {2},
pages = {333--343},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2007.70239},
doi = {10.1109/TCBB.2007.70239},
timestamp = {Fri, 08 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/YukinawaOKI09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/ZhuACS09,
author = {Qian Zhu and
Zaky Adam and
Vicky Choi and
David Sankoff},
title = {Generalized Gene Adjacencies, Graph Bandwidth, and Clusters in Yeast
Evolution},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {2},
pages = {213--220},
year = {2009},
url = {https://doi.org/10.1109/TCBB.2008.121},
doi = {10.1109/TCBB.2008.121},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/ZhuACS09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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