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1.

電子ブック

EB
Jianer Chen, Takeo Kanade, Jianxin Wang, Alexander Zelikovsky
出版情報: Springer eBooks Computer Science , Springer Berlin Heidelberg, 2011
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目次情報: 続きを見る
Phylogenetics of Heterogeneous Samples / Russell Schwartz
OMG! Orthologs for Multiple Genomes - Competing Formulations / David Sankoff
Phylogenetic Analysis of Whole Genomes / Bernard M.E. Moret
Genetic and Pharmacogenetic Studies of Neuropsychiatric Disorders: Increasingly Critical Roles of Bioinformatics Research and Applications / Liping Wei
Genome-Phenome Association Analysis of Complex Diseases a Structured Sparse Regression Approach / Eric Xing
Prediction of Essential Proteins by Integration of PPI Network Topology and Protein Complexes Information / Jun Ren ; Jianxin Wang ; Min Li ; Euan Wang ; Binbin Liu
Computing the Protein Binding Sites / Fei Guo ; Lusheng Wang
SETTER - RNA SEcondary sTructure-based TERtiary Structure Similarity Algorithm / David Hoksza ; Daniel Svozil
Prediction of Essential Genes by Mining Gene Ontology Semantics / Yu-Cheng Liu ; Po-I Chiu ; Hsuan-Cheng Huang ; Vincent S. Tseng
High-Performance Blob-Based Iterative Reconstruction of Electron Tomography on Multi-GPUs / Xiaohua Wan ; Pa Zhang ; Qi Chu ; Zhiyong Liu
Component-Based Matching for Multiple Interacting RNA Sequences / Ghada Badr ; Marcel Turcotte
A New Method for Identifying Essential Proteins Based on Edge Clustering Coefficient / Huan Wang ; Yi Pan
Gene Order in Rosid Phylogeny, Inferred from Pairwise Syntenies among Extant Genomes / Chunfang Zheng
Algorithms to Detect Multiprotein Modularity Conserved during Evolution / Luqman Hodgkinson ; Richard M. Karp
The Kernel of Maximum Agreement Subtrees / Krister M. Swenson ; Eric Chen ; Nicholas D. Pattengale
A Consensus Approach to Predicting Protein Contact Map via Logistic Regression / Jian-Yi Yang ; Xin Chen
A Linear Time Algorithm for Error-Corrected Reconciliation of Unrooted Gene Trees / Pawel Górecki ; Oliver Eulenstein
Comprehensive Pharmacogenomic Pathway Screening by Data Assimilation / Takanori Hasegawa ; Rui Yamaguchi ; Masao Nagasaki ; Seith Imoto ; Satoru Miyano
The Deep Coalescence Consensus Tree Problem is Pareto on Clusters / Harris T. Lin ; J. Gordon Burleigh
Fast Local Search for Unrooted Robinson-Foulds Supertrees / Ruchi Chaudhary ; David Fernández-Baca
A Metric for Phylogenetic Trees Based on Matching / Yu Lin ; Vaibhav Rajan
Describing the Orthology Signal in a PPI Network at a Functional, Complex Level / Pavol Jancura ; Eleftheria Mavridou ; Beatriz Pontes ; Elena Marchiori
Algorithms for Rapid Error Correction for the Gene Duplication Problem
TransDomain: A Transitive Domain-Based Method in Protein-Protein Interaction Prediction / Yi-Tsung Tang ; Hung-Yu Kao
Rapid and Accurate Generation of Peptide Sequence Tags with a Graph Search Approach / Hui Li ; Lauren Scott ; Chunmei Liu ; Mugizi Rwebangira ; Legand Burge ; William Southerland
In Silico Evolution of Multi-scale Microbial systems in the Presence of Mobile Genetic Elements and Horizontal Gene Transfer / Vadim Mozhayskiy ; Ilias Tagkopoulos
Comparative Evalutaion of Set-Level Techniques in Microarray Classification / Jiri Klema ; Matej Holec ; Filip Zelezny ; Jakub Tolar
Gene Network Modules-Based Liner Discriminant Analysis of Microarray Gene Expression Data / Pingzhao Hu ; Shelley Bull ; Hui Jiang ; 286
A Polynomial Algebra Method for Computing Exemplar Breakpoint Distance / Bin Fu ; Louxin Zhang
The Maximum Clique Enumeration Problem: Algorithms, Applications and Implementations / John D. Eblen ; Charles A. Phillips ; Gary L. Rogers ; Michael A. Langston
Query-Adaptive Ranking with Support Vector Machines for Protein Homology Prediction / Yan Fu ; Rong Pan ; Qiang Yang ; Wen Gao
A Novel Core-Attachment Based Greedy Search Method for Mining Functional Modules in Protein Interaction Networks / Chaojun Li ; Jieyue He ; Baoliu Ye ; Wei Zhong
ProPhyC: A Probabilistic Phylogenetic Model for Refining Regulatory Networks / Xiuwei Zhang
Prediction of DNA-Binding Propensity of Proteins by the Ball-Histogram Method / Andrea Szabóová ; Ondrej Kuzelka ; Sergio Morales E. ; Filip Zelezný
Multi-label Correlated Semi-supervised Learning for Protein Function Prediction / Jonathan Q. Jiang
Regene: Automatic Construction of a Multiple Component Dirichlet Mixture Priors Covariance Model to Identify Non-coding RNA / Felipe Lessa ; Daniele Martins Neto ; Kátia Guimarães ; Marcelo Brigido ; Maria Emilia Walter
Accurate Estimation of Gene Expression Levels from DGE Sequencing Data / Marius Nicolae ; Ion Mandoiu
An Integrative Approach for Genomic Island Prediction in Prokaryotic Genomes / Han Wang ; John Fazekas ; Matthew Booth ; Qi Liu ; Dongsheng Che
A Systematic Comparison of Genome Scale Clustering Algorithms / Jeremy J. Jay ; Yun Zhang ; Mikael Benson ; Andy D. Perkins ; Arnold M. Saxton ; Brynn H. Voy ; Elissa J. Chester
Mining Biological Interaction Networks Using Weighted Quasi-Bicliques / Wen-Chieh Chang ; Sudheer Vakati ; Roland Krause
Towards a Characterisation of the Generalised Cladistic Character Compatibility Problem for Non-branching Character Trees / Ján Manuch ; Murray Patterson ; Arvind Gupta
Author Index
Phylogenetics of Heterogeneous Samples / Russell Schwartz
OMG! Orthologs for Multiple Genomes - Competing Formulations / David Sankoff
Phylogenetic Analysis of Whole Genomes / Bernard M.E. Moret
2.

電子ブック

EB
International Workshop on Bioinformatics Research and Applications, Takeo Kanade, Corrado Priami, Alexander Zelikovsky
出版情報: Springer eBooks Computer Science , Springer Berlin / Heidelberg, 2005
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3.

電子ブック

EB
Ion; Zelikovsky, Alexander Mandoiu, Ion Mandoiu, Alexander Zelikovsky, Alexander Zelikovsky
出版情報: Wiley Online Library - AutoHoldings Books , Wiley-Interscience, 2008
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目次情報: 続きを見る
Preface
Contributors
Educating Biologists in the 21st Century: Bioinformatics Scientists versus Bioinformatics Technicians / Pavel Pevzner1:
Techniques / Part I:
Dynamic Programming Algorithms for Biological Sequence and Structure Comparison / Yuzhen Ye ; Haixu Tang2:
Graph Theoretical Approaches to Delineate Dynamics of Biological Processes / Teresa M. Przytycka ; Elena Zotenko3:
Advances in Hidden Markov Models for Sequence Annotation / Brona Brejova ; Daniel G. Brown ; Tomas Vinar4:
Sorting- and FFT-Based Techniques in the Discovery of Biopatterns / Sudha Balla ; Sanguthevar Rajasekaran ; Jaime Davila5:
A Survey of Seeding for Sequence Alignment / 6:
The Comparison of Phylogenetic Networks: Algorithms and Complexity / Paola Bonizzoni ; Gianluca Della Vedova ; Riccardo Dondi ; Giancarlo Mauri7:
Genome and Sequence Analysis / Part II:
Formal Models of Gene Clusters / Anne Bergeron ; Cedric Chauve ; Yannick Gingras8:
Integer Linear Programming Techniques for Discovering Approximate Gene Clusters / Sven Rahmann ; Gunnar W. Klau9:
Efficient Combinatorial Algorithms for DNA Sequence Processing / Bhaskar DasGupta ; Ming-Yang Kao10:
Algorithms for Multiplex PCR Primer Set Selection with Amplification Length Constraints / K.M. Konwar ; I.I. Mandoiu ; A.C. Russell ; A.A. Shvartsman11:
Recent Developments in Alignment and Motif Finding for Sequences and Networks / Sing-Hoi Sze12:
Microarray Design and Data Analysis / Part III:
Algorithms for Oligonucleotide Microarray Layout / Sergio A. De Carvalho Jr.13:
Classification Accuracy Based Microarray Missing Value Imputation / Yi Shi ; Zhipeng Cai ; Guohui Lin14:
Meta-Analysis of Microarray Data / Saumyadipta Pyne ; Steve Skiena ; Bruce Futcher15:
Genetic Variation Analysis / Part IV:
Phasing Genotypes Using a Hidden Markov Model / P. Rastas ; M. Koivisto ; H. Mannila ; E. Ukkonen16:
Analytical and Algorithmic Methods for Haplotype Frequency Inference: What Do They Tell Us? / Steven Hecht Orzack ; Daniel Gusfield ; Lakshman Subrahmanyan ; Laurent Essioux ; Sebastien Lissarrague17:
Optimization Methods for Genotype Data Analysis in Epidemiological Studies / Dumitru Brinza ; Jingwu He ; Alexander Zelikovsky18:
Structural and Systems Biology / Part V:
Topological Indices in Combinatorial Chemistry / Sergey Bereg19:
Efficient Algorithms for Structural Recall in Databases / Hao Wang ; Patra Volarath ; Robert W. Harrison20:
Computational Approaches to Predict Protein-Protein and Domain-Domain Interactions / Raja Jothi21:
Index
Educating Biologists in the 21st century: Bioinformatics Scientists versus Bioinformatics Technicians / Pavel Pevznher
Graph Theoretical Approaches to Delineate Dynamics of biological Processes / Yuzhen Ye and Haixu Tang
The Comparison of Phylogenetic Networks: Algorithms and complexity
Integer Linear Programming Techniques for Discovering Approximate gene Clusters / Sven Rahmann and Gunnar W. Klau
Algorithms for Multiplex PCR Primer Set Selection with Amplification Length constraints
Recent Developments in Alignment and Motif Finding for Sequences and Networks (Sing-Hoi Sze
Analytical and Algorithmic Methods for Haplotype Frequency Inference: What Do they Tell Us? / Ukkonen ; Steven Hecth Orzack ; Lakshamn Subrahmanyan ; Sebastein Lissarrague
Preface
Contributors
Educating Biologists in the 21st Century: Bioinformatics Scientists versus Bioinformatics Technicians / Pavel Pevzner1:
4.

電子ブック

EB
Ion; Zelikovsky, Alexander Mandoiu, Alexander Zelikovsky
出版情報: Wiley Online Library - AutoHoldings Books , John Wiley & Sons, Incorporated, 2016
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5.

図書

図書
Corrado Priami, Alexander Zelikovsky (eds.)
出版情報: Berlin : Springer, c2005  vi, 152 p. ; 24 cm
シリーズ名: Lecture notes in computer science ; 3680 . Lecture notes in bioinformatics
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6.

図書

図書
edited by Ion I. Măndoiu and Alexander Zelikovsky
出版情報: Hoboken, N.J. : Wiley-Interscience, c2008  xiv, 500 p. ; 25 cm
シリーズ名: Wiley series on bioinformatics : computational techniques and engineering / series editors, Yi Pan and Albert Y. Zomaya
所蔵情報: loading…
目次情報: 続きを見る
Preface
Contributors
Educating Biologists in the 21st Century: Bioinformatics Scientists versus Bioinformatics Technicians / Pavel Pevzner1:
Techniques / Part I:
Dynamic Programming Algorithms for Biological Sequence and Structure Comparison / Yuzhen Ye ; Haixu Tang2:
Graph Theoretical Approaches to Delineate Dynamics of Biological Processes / Teresa M. Przytycka ; Elena Zotenko3:
Advances in Hidden Markov Models for Sequence Annotation / Brona Brejova ; Daniel G. Brown ; Tomas Vinar4:
Sorting- and FFT-Based Techniques in the Discovery of Biopatterns / Sudha Balla ; Sanguthevar Rajasekaran ; Jaime Davila5:
A Survey of Seeding for Sequence Alignment / 6:
The Comparison of Phylogenetic Networks: Algorithms and Complexity / Paola Bonizzoni ; Gianluca Della Vedova ; Riccardo Dondi ; Giancarlo Mauri7:
Genome and Sequence Analysis / Part II:
Formal Models of Gene Clusters / Anne Bergeron ; Cedric Chauve ; Yannick Gingras8:
Integer Linear Programming Techniques for Discovering Approximate Gene Clusters / Sven Rahmann ; Gunnar W. Klau9:
Efficient Combinatorial Algorithms for DNA Sequence Processing / Bhaskar DasGupta ; Ming-Yang Kao10:
Algorithms for Multiplex PCR Primer Set Selection with Amplification Length Constraints / K.M. Konwar ; I.I. Mandoiu ; A.C. Russell ; A.A. Shvartsman11:
Recent Developments in Alignment and Motif Finding for Sequences and Networks / Sing-Hoi Sze12:
Microarray Design and Data Analysis / Part III:
Algorithms for Oligonucleotide Microarray Layout / Sergio A. De Carvalho Jr.13:
Classification Accuracy Based Microarray Missing Value Imputation / Yi Shi ; Zhipeng Cai ; Guohui Lin14:
Meta-Analysis of Microarray Data / Saumyadipta Pyne ; Steve Skiena ; Bruce Futcher15:
Genetic Variation Analysis / Part IV:
Phasing Genotypes Using a Hidden Markov Model / P. Rastas ; M. Koivisto ; H. Mannila ; E. Ukkonen16:
Analytical and Algorithmic Methods for Haplotype Frequency Inference: What Do They Tell Us? / Steven Hecht Orzack ; Daniel Gusfield ; Lakshman Subrahmanyan ; Laurent Essioux ; Sebastien Lissarrague17:
Optimization Methods for Genotype Data Analysis in Epidemiological Studies / Dumitru Brinza ; Jingwu He ; Alexander Zelikovsky18:
Structural and Systems Biology / Part V:
Topological Indices in Combinatorial Chemistry / Sergey Bereg19:
Efficient Algorithms for Structural Recall in Databases / Hao Wang ; Patra Volarath ; Robert W. Harrison20:
Computational Approaches to Predict Protein-Protein and Domain-Domain Interactions / Raja Jothi21:
Index
Preface
Contributors
Educating Biologists in the 21st Century: Bioinformatics Scientists versus Bioinformatics Technicians / Pavel Pevzner1:
7.

電子ブック

EB
Alex Zelikovsky, Anu Bourgeois Zhipeng Cai, Anu Bourgeois, Anu G. Bourgeois, Alexander Zelikovsky
出版情報: SpringerLink Books - AutoHoldings , Springer International Publishing, 2014
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8.

電子ブック

EB
ISBRA 2007, Sorin Istrail, Pavel Pevzner, Alexander Zelikovsky
出版情報: SpringerLink Books - AutoHoldings , Springer Berlin Heidelberg, 2007
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9.

電子ブック

EB
ISBRA 2008, Sunderraman, Zelikovsky, Mandoiu, Rajshekhar Sunderraman, Alexander Zelikovsky
出版情報: SpringerLink Books - AutoHoldings , Springer Berlin Heidelberg, 2008
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目次情報: 続きを見る
Invited Keynote Talk: Set-Level Analyses for Genome-Wide Association Data (Abstract) / Dan L. Nicolae ; Omar De la Cruz ; William Wen ; Baoguan Ke ; Minsun Song
Hierarchical Clustering Using Constraints / Mariana Kant ; Maurice LeBon ; David Sankoff
The Gene-Duplication Problem: Near-Linear Time Algorithms for NNI Based Local Searches / Mukul S. Bansal ; Oliver Eulenstein
A Distance-Based Method for Detecting Horizontal Gene Transfer in Whole Genomes / Xintao Wei ; Lenore Cowen ; Carla Brodley ; Arthur Brady ; D. Sculley ; Donna K. Slonim
An Approach for Determining Evolutionary Distance in Network-Based Phylogenetic Analysis / Tingting Zhou ; Keith C.C. Chan ; Yi Pan ; Zhenghua Wang
Pairwise Statistical Significance Versus Database Statistical Significance for Local Alignment of Protein Sequences / Ankit Agrawal ; Volker Brendel ; Xiaoqiu Huang
Estimating Pairwise Statistical Significance of Protein Local Alignments Using a Clustering-Classification Approach Based on Amino Acid Composition / Arka Ghosh
Gapped Extension for Local Multiple Alignment of Interspersed DNA Repeats / Todd J. Treangen ; Aaron E. Darling ; Mark A. Ragan ; Xavier Messeguer
Improved Alignment of Protein Sequences Based on Common Parts / David Hoksza
Invited Keynote Talk: Computing P-Values for Peptide Identifications in Mass Spectrometry / Nikita Arnold ; Tema Fridman ; Robert M. Day ; Andrey A. Gorin
PFP: A Computational Framework for Phylogenetic Footprinting in Prokaryotic Genomes / Dongsheng Che ; Guojun Li ; Shane T. Jensen ; Jun S. Liu ; Ying Xu
Accelerating the Neighbor-Joining Algorithm Using the Adaptive Bucket Data Structure / Leonid Zaslavsky ; Tatiana A. Tatusova
Generalized Gene Adjacencies, Graph Bandwidth and Clusters in Yeast Evolution / Qian Zhu ; Zaky Adam ; Vicky Choi
Physicochemical Correlation between Amino Acid Sites in Short Sequences under Selective Pressure / David Campo ; Zoya Dimitrova ; Yuri Khudyakov
HCV Quasispecies Assembly Using Network Flows / Kelly Westbrooks ; Irina Astrovskaya ; Piotr Berman ; Alex Zelikovsky
A Dynamic Programming Algorithm for De Novo Peptide Sequencing with Variable Scoring / Matthew A. Goto ; Eric J. Schwabe
Invited Keynote Talk: Haplotype Sharing for Genome-Wide Case-Control Association Studies (Abstract) / Andrew S. Allen
Incorporating Literature Knowledge in Bayesian Network for Inferring Gene Networks with Gene Expression Data / Eyad Almasri ; Peter Larsen ; Guanrao Chen ; Yang Dai
Integrative Network Component Analysis for Regulatory Network Reconstruction / Chen Wang ; Jianhua Xuan ; Li Chen ; Po Zhao ; Yue Wang ; Robert Clarke ; Eric P. Hoffman
A Graph-Theoretic Method for Mining Overlapping Functional Modules in Protein Interaction Networks / Min Li ; Jianxin Wang ; Jianer Chen
Identification of Transcription Factor Binding Sites in Promoter Regions by Modularity Analysis of the Motif Co-occurrence Graph / Alexandre P. Francisco ; Arlindo L. Oliveira ; Ana T. Freitas
Mean Squared Residue Based Biclustering Algorithms / Stefan Gremalschi ; Gulsah Altun
Sparse Decomposition of Gene Expression Data to Infer Transcriptional Modules Guided by Motif Information / Ting Gong ; Rebecca B. Riggins
A Novel Metric for Redundant Gene Elimination Based on Discriminative Contribution / Xue-Qiang Zeng ; Guo-Zheng Li ; Jack Y. Yang ; Mary Qu Yang
Network-Based Inference of Cancer Progression from Microarray Data / Yongjin Park ; Stanley Shackney ; Russell Schwartz
Invited Keynote Talk: Quiet Revolution: Connectivity in the Cancer Research Community (Abstract) / Kenneth Buetow
Wavelet-Based 3-D Multifractal Spectrum with Applications in Breast MRI Images / Gordana Derado ; Kichun Lee ; Orietta Nicolis ; F. DuBois Bowman ; Mary Newell ; Fabrizio F. Ruggeri ; Brani Vidakovic
Accurate Inverse Consistent Non-rigid Image Registration and Its Application on Automatic Re-contouring / Qingguo Zeng ; Yunmei Chen
GlycoBrowser: A Tool for Contextual Visualization of Biological Data and Pathways Using Ontologies / Matthew Eavenson ; Maciej Janik ; Shravya Nimmagadda ; John A. Miller ; Krys J. Kochut ; William S. York
Pattern Matching in RNA Structures / Kejie Li ; Reazur Rahman ; Aditi Gupta ; Prasad Siddavatam ; Michael Gribskov
The Use of a Conformational Alphabet for Fast Alignment of Protein Structures / Wei-Mou Zheng
On-the-Fly Rotamer Pair Energy Evaluation in Protein Design / Andrew Leaver-Fay ; Jack Snoeyink ; Brian Kuhlman
Invited Keynote Talk: Integrative Viral Molecular Epidemiology: Hepatitis C Virus Modeling / James Lara
Multiple Kernel Support Vector Regression for siRNA Efficacy Prediction / Shibin Qiu ; Terran Lane
Hierarchical Clustering Support Vector Machines for Classifying Type-2 Diabetes Patients / Wei Zhong ; Rick Chow ; Richard Stolz ; Jieyue He ; Marsha Dowell
Computational Mutagenesis of E. Coli Lac Repressor: Insight into Structure-Function Relationships and Accurate Prediction of Mutant Activity / Majid Masso ; Kahkeshan Hijazi ; Nida Parvez ; Iosif I. Vaisman
Evaluating Genetic Algorithms in Protein-Ligand Docking / Rafael Ordog ; Vince Grolmusz
A Hidden Markov Model Approach for Prediction of Genomic Alterations from Gene Expression Profiling / Huimin Geng ; Hesham H. Ali ; Wing C. Chan
Evolutionary Algorithm for Feature Subset Selection in Predicting Tumor Outcomes Using Microarray Data / Qihua Tan ; Mads Thomassen ; Kirsten M. Jochumsen ; Jing Hua Zhao ; Kaare Christensen ; Torben A. Kruse
Incorporating Knowledge of Topology Improves Reconstruction of Interaction Networks from Microarray Data
Invited Keynote Talk: Data Mining and Statistical Methods for Analyzing Microarray Experiments (Abstract) / Shin-Lian Lo ; Kwok-Leung Tsui ; Benjamin Barwick
Seven Variations of an Alignment Workflow - An Illustration of Agile Process Design and Management in Bio-jETI / Anna-Lena Lamprecht ; Tiziana Margaria ; Bernhard Steffen
Supporting Computational Systems Science: Genomic Analysis Tool Federations Using Aspects and AOP / David Stotts ; Keith Lee ; Ivan Rusyn
BioDQ: Data Quality Estimation and Management for Genomics Databases / Alexandra Martinez ; Joachim Hammer ; Sanjay Ranka
Stepped Linear Regression to Accurately Assess Statistical Significance in Batch Confounded Differential Expression Analysis / Juntao Li ; Jianhua Liu ; R. Krishna Murthy Karuturi
Bagging Multiple Comparisons from Microarray Data / Dimitris N. Politis
Human Blood-Brain Differential Gene-Expression Correlates with Dipeptide Frequency of Gene Products / Shandar Ahmad
Author Index
Invited Keynote Talk: Set-Level Analyses for Genome-Wide Association Data (Abstract) / Dan L. Nicolae ; Omar De la Cruz ; William Wen ; Baoguan Ke ; Minsun Song
Hierarchical Clustering Using Constraints / Mariana Kant ; Maurice LeBon ; David Sankoff
The Gene-Duplication Problem: Near-Linear Time Algorithms for NNI Based Local Searches / Mukul S. Bansal ; Oliver Eulenstein
10.

電子ブック

EB
Jianer Chen, Takeo Kanade, Jianxin Wang, Alexander Zelikovsky
出版情報: SpringerLink Books - AutoHoldings , Springer Berlin Heidelberg, 2011
所蔵情報: loading…
目次情報: 続きを見る
Phylogenetics of Heterogeneous Samples / Russell Schwartz
OMG! Orthologs for Multiple Genomes - Competing Formulations / David Sankoff
Phylogenetic Analysis of Whole Genomes / Bernard M.E. Moret
Genetic and Pharmacogenetic Studies of Neuropsychiatric Disorders: Increasingly Critical Roles of Bioinformatics Research and Applications / Liping Wei
Genome-Phenome Association Analysis of Complex Diseases a Structured Sparse Regression Approach / Eric Xing
Prediction of Essential Proteins by Integration of PPI Network Topology and Protein Complexes Information / Jun Ren ; Jianxin Wang ; Min Li ; Euan Wang ; Binbin Liu
Computing the Protein Binding Sites / Fei Guo ; Lusheng Wang
SETTER - RNA SEcondary sTructure-based TERtiary Structure Similarity Algorithm / David Hoksza ; Daniel Svozil
Prediction of Essential Genes by Mining Gene Ontology Semantics / Yu-Cheng Liu ; Po-I Chiu ; Hsuan-Cheng Huang ; Vincent S. Tseng
High-Performance Blob-Based Iterative Reconstruction of Electron Tomography on Multi-GPUs / Xiaohua Wan ; Pa Zhang ; Qi Chu ; Zhiyong Liu
Component-Based Matching for Multiple Interacting RNA Sequences / Ghada Badr ; Marcel Turcotte
A New Method for Identifying Essential Proteins Based on Edge Clustering Coefficient / Huan Wang ; Yi Pan
Gene Order in Rosid Phylogeny, Inferred from Pairwise Syntenies among Extant Genomes / Chunfang Zheng
Algorithms to Detect Multiprotein Modularity Conserved during Evolution / Luqman Hodgkinson ; Richard M. Karp
The Kernel of Maximum Agreement Subtrees / Krister M. Swenson ; Eric Chen ; Nicholas D. Pattengale
A Consensus Approach to Predicting Protein Contact Map via Logistic Regression / Jian-Yi Yang ; Xin Chen
A Linear Time Algorithm for Error-Corrected Reconciliation of Unrooted Gene Trees / Pawel Górecki ; Oliver Eulenstein
Comprehensive Pharmacogenomic Pathway Screening by Data Assimilation / Takanori Hasegawa ; Rui Yamaguchi ; Masao Nagasaki ; Seith Imoto ; Satoru Miyano
The Deep Coalescence Consensus Tree Problem is Pareto on Clusters / Harris T. Lin ; J. Gordon Burleigh
Fast Local Search for Unrooted Robinson-Foulds Supertrees / Ruchi Chaudhary ; David Fernández-Baca
A Metric for Phylogenetic Trees Based on Matching / Yu Lin ; Vaibhav Rajan
Describing the Orthology Signal in a PPI Network at a Functional, Complex Level / Pavol Jancura ; Eleftheria Mavridou ; Beatriz Pontes ; Elena Marchiori
Algorithms for Rapid Error Correction for the Gene Duplication Problem
TransDomain: A Transitive Domain-Based Method in Protein-Protein Interaction Prediction / Yi-Tsung Tang ; Hung-Yu Kao
Rapid and Accurate Generation of Peptide Sequence Tags with a Graph Search Approach / Hui Li ; Lauren Scott ; Chunmei Liu ; Mugizi Rwebangira ; Legand Burge ; William Southerland
In Silico Evolution of Multi-scale Microbial systems in the Presence of Mobile Genetic Elements and Horizontal Gene Transfer / Vadim Mozhayskiy ; Ilias Tagkopoulos
Comparative Evalutaion of Set-Level Techniques in Microarray Classification / Jiri Klema ; Matej Holec ; Filip Zelezny ; Jakub Tolar
Gene Network Modules-Based Liner Discriminant Analysis of Microarray Gene Expression Data / Pingzhao Hu ; Shelley Bull ; Hui Jiang ; 286
A Polynomial Algebra Method for Computing Exemplar Breakpoint Distance / Bin Fu ; Louxin Zhang
The Maximum Clique Enumeration Problem: Algorithms, Applications and Implementations / John D. Eblen ; Charles A. Phillips ; Gary L. Rogers ; Michael A. Langston
Query-Adaptive Ranking with Support Vector Machines for Protein Homology Prediction / Yan Fu ; Rong Pan ; Qiang Yang ; Wen Gao
A Novel Core-Attachment Based Greedy Search Method for Mining Functional Modules in Protein Interaction Networks / Chaojun Li ; Jieyue He ; Baoliu Ye ; Wei Zhong
ProPhyC: A Probabilistic Phylogenetic Model for Refining Regulatory Networks / Xiuwei Zhang
Prediction of DNA-Binding Propensity of Proteins by the Ball-Histogram Method / Andrea Szabóová ; Ondrej Kuzelka ; Sergio Morales E. ; Filip Zelezný
Multi-label Correlated Semi-supervised Learning for Protein Function Prediction / Jonathan Q. Jiang
Regene: Automatic Construction of a Multiple Component Dirichlet Mixture Priors Covariance Model to Identify Non-coding RNA / Felipe Lessa ; Daniele Martins Neto ; Kátia Guimarães ; Marcelo Brigido ; Maria Emilia Walter
Accurate Estimation of Gene Expression Levels from DGE Sequencing Data / Marius Nicolae ; Ion Mandoiu
An Integrative Approach for Genomic Island Prediction in Prokaryotic Genomes / Han Wang ; John Fazekas ; Matthew Booth ; Qi Liu ; Dongsheng Che
A Systematic Comparison of Genome Scale Clustering Algorithms / Jeremy J. Jay ; Yun Zhang ; Mikael Benson ; Andy D. Perkins ; Arnold M. Saxton ; Brynn H. Voy ; Elissa J. Chester
Mining Biological Interaction Networks Using Weighted Quasi-Bicliques / Wen-Chieh Chang ; Sudheer Vakati ; Roland Krause
Towards a Characterisation of the Generalised Cladistic Character Compatibility Problem for Non-branching Character Trees / Ján Manuch ; Murray Patterson ; Arvind Gupta
Author Index
Phylogenetics of Heterogeneous Samples / Russell Schwartz
OMG! Orthologs for Multiple Genomes - Competing Formulations / David Sankoff
Phylogenetic Analysis of Whole Genomes / Bernard M.E. Moret
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