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Bioinformatics Research and Development Second International Conference, BIRD 2008, Vienna, Austria, July 7-9, 2008 Proceedings

:	Mourad Elloumi, Josef Küng, Michal Linial, Robert F. Murphy, Kristan Schneider, Cristian Toma
:	Bioinformatics Research and Development Second International Conference, BIRD 2008, Vienna, Austria, July 7-9, 2008 Proceedings
:	Springer-Verlag
:	9783540706007
:	1
:	CHF 75.40
:

:	Sonstiges
:	English

:	613
:	DRM
:	PC/MAC/eReader/Tablet
:	PDF

This book constitutes the refereed proceedings of the Second International Bioinformatics Research and Development Conference, BIRD 2008, held in Vienna, Austria in July 2008. The 49 revised full papers presented were carefully reviewed and selected. 30 papers are organized in topical sections followed by 11 papers from the ALBIO workshop and 8 papers from the PETRIN workshop.

	Preface	5
	Organization	6
	Table of Contents	14
	A Tree Index to Support Clustering Based Exploratory Data Analysis	19
	Introduction	19
	Methods	21
	Results	24
	Simulated Data	24
	Real-World Data	25
	Discussion	30
	Availability	31
	References	31
	XMAS: An Experiential Approach for Visualization, Analysis, and Exploration of Time Series Microarray Data	34
	Introduction	34
	System Description	37
	Data Sets	37
	Data Preprocessing	38
	Interoperable Data Operators, Visualization and HCI	38
	Interestingness Evaluators	41
	Interoperability, Interactivity and Extensibility of XMAS	42
	Experimental Evaluation	43
	Data Description	43
	XMAS as a Visual Interactive Tool to Aid in Data Comprehension	43
	Negative Expression Shift Approaching the End of Pregnancy	45
	Interoperable Pathway Analysis	46
	Conclusions	48
	References	48
	Clustering in a Fixed Manifold to Detect Groups of Genes with Similar Expression Patterns	50
	Introduction	50
	Statistical Model	51
	Results	55
	Conclusions and Future Works	59
	References	59
	Families of FPGA-Based Accelerators for BLAST Algorithm with Multi-seeds Detection and Parallel Extension	61
	Introduction	61
	BLAST Algorithm Overview	63
	The Structure of Multi-seeds Detection and Parallel Extension Engine	64
	Multi-seeds Detecting	65
	Successive Seeds Merging	66
	Multi-seeds Extension	66
	FPGA Implementation and Optimization	66
	Multi-seeds Detection Array	66
	Decomposing the Detection Array	67
	The Algorithm of Merging Successive Seeds	68
	Multi-channel Parallel Extension Strategy	69
	Experiments and Performance Comparison	69
	Test 1: Comparing Synthesis Performance to Systolic