Preface |
|
v | |
APBC 2008 Organization |
|
vii | |
|
|
|
Recent Progress in Phylogenetic Combinatorics |
|
|
1 | (4) |
|
|
KEGG for Medical and Pharmaceutical Applications |
|
|
5 | (2) |
|
|
Protein Interactions Extracted from Genomes and Papers |
|
|
7 | (2) |
|
|
|
|
String Kernels with Feature Selection for SVM Protein Classification |
|
|
9 | (10) |
|
|
|
Predicting Nucleolar Proteins Using Support-Vector Machines |
|
|
19 | (10) |
|
|
Supervised Ensembles of Prediction Methods for Subcellular Localization |
|
|
29 | (10) |
|
|
|
|
|
|
|
Chemical Compound Classification with Automatically Mined Structure Patterns |
|
|
39 | (10) |
|
|
|
|
Structure-Approximating Design of Stable Proteins in 2D HP Model Fortified by Cysteine Monomers |
|
|
49 | (10) |
|
Alireza Hadj Khodabakhshi |
|
|
|
|
|
Discrimination of Native Folds Using Network Properties of Protein Structures |
|
|
59 | (10) |
|
|
|
|
Interacting Amino Acid Preferences of 3D Pattern Pairs at the Binding Sites of Transient and Obligate Protein Complexes |
|
|
69 | (10) |
|
|
|
|
|
Structural Descriptors of Protein-Protein Binding Sites |
|
|
79 | (10) |
|
|
|
|
|
|
A Memory Efficient Algorithm for Structural Alignment of RNAs with Embedded Simple Pseudoknots |
|
|
89 | (12) |
|
|
|
|
|
A Novel Method for Reducing Computational Complexity of Whole Genome Sequence Alignment |
|
|
101 | (10) |
|
|
|
fRMSDAlign: Protein Sequence Alignment Using Predicted Local Structure Information for Pairs with Low Sequence Identity |
|
|
111 | (12) |
|
|
|
Run Probability of High-Order Seed Patterns and Its Applications to Finding Good Transition Seeds |
|
|
123 | (10) |
|
|
|
Seed Optimization Is No Easier than Optimal Golomb Ruler Design |
|
|
133 | (12) |
|
|
|
Integrating Hierarchical Controlled Vocabularies with OWL Ontology: A Case Study from the Domain of Molecular Interactions |
|
|
145 | (10) |
|
|
|
|
|
|
Semantic Similarity Definition over Gene Ontology by Further Mining of the Information Content |
|
|
155 | (10) |
|
|
|
From Text to Pathway: Corpus Annotation for Knowledge Acquisition from Biomedical Literature |
|
|
165 | (12) |
|
|
|
|
|
Classification of Protein Sequences Based on Word Segmentation Methods |
|
|
177 | (10) |
|
|
|
|
Analysis of Structural Strand Asymmetry in Non-coding RNAs |
|
|
187 | (12) |
|
|
|
|
Finding Non-coding RNAs Through Genome-Scale Clustering |
|
|
199 | (12) |
|
|
|
|
|
|
A Fixed-Parameter Approach for Weighted Cluster Editing |
|
|
211 | (10) |
|
|
|
|
|
Image Compression-based Approach to Measuring the Similarity of Protein Structures |
|
|
221 | (10) |
|
|
|
Genome Halving with Double Cut and Join |
|
|
231 | (10) |
|
|
|
Phylogenetic Reconstruction from Complete Gene Orders of Whole Genomes |
|
|
241 | (10) |
|
|
|
|
|
SPR-based Tree Reconciliation: Non-binary Trees and Multiple Solutions |
|
|
251 | (10) |
|
|
|
Alignment of Minisatellite Maps: A Minimum Spanning Tree-based Approach |
|
|
261 | (12) |
|
|
|
|
|
Metabolic Pathway Alignment (M-Pal) Reveals Diversity and Alternatives in Conserved Networks |
|
|
273 | (14) |
|
|
|
|
|
Automatic Modeling of Signal Pathways from Protein-Protein Interaction Networks |
|
|
287 | (10) |
|
|
|
|
|
Simultaneously Segmenting Multiple Gene Expression Time Courses by Analyzing Cluster Dynamics |
|
|
297 | (10) |
|
|
|
|
|
|
Symbolic Approaches for Finding Control Strategies in Boolean Networks |
|
|
307 | (14) |
|
Christopher James Langmead |
|
|
|
Estimation of Population Allele Frequencies from Small Samples Containing Multiple Generations |
|
|
321 | (12) |
|
|
|
Linear Time Probabilistic Algorithms for the Singular Haplotype Reconstruction Problem from SNP Fragments |
|
|
333 | (10) |
|
|
|
|
|
|
|
Optimal Algorithm for Finding DNA Motifs with Nucleotide Adjacent Dependency |
|
|
343 | (10) |
|
|
|
|
|
Primer Selection Methods for Detection of Genomic Inversions and Deletions via PAMP |
|
|
353 | (10) |
|
|
|
|
GenePC and ASPIC Integrate Gene Predictions with Expressed Sequence Alignments to Predict Alternative Transcripts |
|
|
363 | (10) |
|
|
|
|
|
Comparing and Analysing Gene Expression Patterns Across Animal Species Using 4D Xpress |
|
|
373 | (10) |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
Near-Sigmoid Modeling to Simultaneously Profile Genome-wide DNA Replication Timing and Efficiency in Single DNA Replication Microarray Studies |
|
|
383 | (10) |
|
|
|
|
Radha Krishna Murthy Karuturi |
|
Author Index |
|
393 | |