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» A Structured Set of Higher-Order Problems
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125
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ALMOB
2008
82views more  ALMOB 2008»
15 years 3 months ago
Protein sequence and structure alignments within one framework
Background: Protein structure alignments are usually based on very different techniques to sequence alignments. We propose a method which treats sequence, structure and even combi...
Gundolf Schenk, Thomas Margraf, Andrew E. Torda
126
Voted
BMCBI
2006
130views more  BMCBI 2006»
15 years 3 months ago
4SALE - A tool for synchronous RNA sequence and secondary structure alignment and editing
Background: In sequence analysis the multiple alignment builds the fundament of all proceeding analyses. Errors in an alignment could strongly influence all succeeding analyses an...
Philipp N. Seibel, Tobias Müller, Thomas Dand...
150
Voted
BMCBI
2004
208views more  BMCBI 2004»
15 years 3 months ago
Using 3D Hidden Markov Models that explicitly represent spatial coordinates to model and compare protein structures
Background: Hidden Markov Models (HMMs) have proven very useful in computational biology for such applications as sequence pattern matching, gene-finding, and structure prediction...
Vadim Alexandrov, Mark Gerstein
135
Voted
COMPLIFE
2005
Springer
15 years 9 months ago
Fast and Accurate Structural RNA Alignment by Progressive Lagrangian Optimization
During the last few years new functionalities of RNA have been discovered, renewing the need for computational tools for their analysis. To this respect, multiple sequence alignmen...
Markus Bauer, Gunnar W. Klau, Knut Reinert
118
Voted
SODA
2004
ACM
102views Algorithms» more  SODA 2004»
15 years 4 months ago
The hyperring: a low-congestion deterministic data structure for distributed environments
In this paper we study the problem of designing concurrent searchable data structures with performance guarantees that can be used in a distributed environment where data elements...
Baruch Awerbuch, Christian Scheideler