FRONT MATTER
| i |
| Part A Full Papers |
AN APPROACH TO TRANSCRIPTOME ANALYSIS OF NON-MODEL ORGANISMS USING SHORT-READ SEQUENCES
LESLEY J COLLINS, PATRICK J BIGGS, CLAUDIA VOELCKEL and SIMON JOLY | 3 |
Factoring local sequence composition in motif significance analysis
Patrick Ng and Uri Keich | 15 |
A New Model of Multi-Marker Correlation for Genome-Wide Tag SNP Selection
WEI-BUNG WANG and TAO JIANG | 27 |
PHENOTYPE PROFILING OF SINGLE GENE DELETION MUTANTS OF E. COLI USING BIOLOG TECHNOLOGY
YUKAKO TOHSATO and HIROTADA MORI | 42 |
IMPROVED ALGORITHMS FOR ENUMERATING TREE-LIKE CHEMICAL GRAPHS WITH GIVEN PATH FREQUENCY
YUSUKE ISHIDA, LIANG ZHAO, HIROSHI NAGAMOCHI and TATSUYA AKUTSU | 53 |
BSAlign: A RAPID GRAPH-BASED ALGORITHM FOR DETECTING LIGAND-BINDING SITES IN PROTEIN STRUCTURES
ZEYAR AUNG and JOO CHUAN TONG | 65 |
PROTEIN COMPLEX PREDICTION BASED ON MUTUALLY EXCLUSIVE INTERACTIONS IN PROTEIN INTERACTION NETWORK
SUK HOON JUNG, WOO-HYUK JANG, HEE-YUNG HUR, BORA HYUN and DONG-SOO HAN | 77 |
ON THE RECONSTRUCTION OF THE MUS MUSCULUS GENOME-SCALE METABOLIC NETWORK MODEL
LAKE-EE QUEK and LARS K. NIELSEN | 89 |
PREDICTING DIFFERENCES IN GENE REGULATORY SYSTEMS BY STATE SPACE MODELS
RUI YAMAGUCHI, SEIYA IMOTO, MAI YAMAUCHI, MASAO NAGASAKI, RYO YOSHIDA, TEPPEI SHIMAMURA, YOSUKE HATANAKA, KAZUKO UENO, TOMOYUKI HIGUCHI, NORIKO GOTOH and SATORU MIYANO | 101 |
Exploratory simulation of cell ageing using hierarchical models
Marija Cvijovic, Hayssam Soueidan, David James Sherman, Edda Klipp and Macha Nikolski | 114 |
INFERRING DIFFERENTIAL LEUKOCYTE ACTIVITY FROM ANTIBODY MICROARRAYS USING A LATENT VARIABLE MODEL
JOSHUA W.K. HO, RAJEEV KOUNDINYA, TIBÉRIO S. CAETANO, CRISTOBAL G. DOS REMEDIOS and MICHAEL A. CHARLESTON | 126 |
Assessing and Predicting Protein Interactions Using Both Local and Global Network Topological Metrics
Guimei Liu, Jinyan Li and Limsoon Wong | 138 |
Modelling the evolution of protein coding sequences sampled from Measurably Evolving Populations
Matthew Goode, Stéphane Guindon and Allen Rodrigo | 150 |
A PHYLOGENOMIC APPROACH FOR STUDYING PLASTID ENDOSYMBIOSIS
AHMED MOUSTAFA, CHEONG XIN CHAN, MEGAN DANFORTH, DAVID ZEAR, HIBA AHMED, NAGNATH JADHAV, TREVOR SAVAGE and DEBASHISH BHATTACHARYA | 165 |
CIS-REGULATORY ELEMENT BASED GENE FINDING: AN APPLICATION IN ARABIDOPSIS THALIANA
YONG LI, YANMING ZHU, YANG LIU, YONGJUN SHU, FANJIANG MENG, YANMIN LU, BEI LIU, XI BAI and DIANJING GUO | 177 |
USING SIMPLE RULES ON PRESENCE AND POSITIONING OF MOTIFS FOR PROMOTER STRUCTURE MODELING AND TISSUE-SPECIFIC EXPRESSION PREDICTION
ALEXIS VANDENBON and KENTA NAKAI | 188 |
IMPROVING GENE EXPRESSION CANCER MOLECULAR PATTERN DISCOVERY USING NONNEGATIVE PRINCIPAL COMPONENT ANALYSIS
XIAOXU HAN | 200 |
SIMULATION ANALYSIS FOR THE EFFECT OF LIGHT-DARK CYCLE ON THE ENTRAINMENT IN CIRCADIAN RHYTHM
NATSUMI MITOU, YUTO IKEGAMI, HIROSHI MATSUNO, SATORU MIYANO and SHIN-ICHI T. INOUYE | 212 |
| Part B Keynote Addresses |
SEQUENCING THE TRANSCRIPTOME IN TOTO
SEAN M. GRIMMOND | 227 |
MODERN HOMOLOGY SEARCH
MING LI | 229 |
MODELING HUMAN GENOME-WIDE COMBINATORIAL REGULATORY NETWORKS INITIATED BY TRANSCRIPTION FACTORS AND MICRORNAS USING FORWARD AND REVERSE ENGINEERING
YI-XUE LI | 230 |
RECONSTRUCTING THE CIRCUITS OF DISEASE: FROM MOLECULAR STATES TO PHYSIOLOGICAL STATES
ERIC E. SCHADT | 231 |
THE EMERGING GENERALIZATIONS OF PROKARYOTIC GENOMICS
EUGENE V. KOONIN | 232 |
A NEW UNDERSTANDING OF THE HUMAN GENOME
JOHN MATTICK | 233 |
BACK MATTER
| 235 |
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