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» Approximate Structural Consistency
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BMCBI
2010
104views more  BMCBI 2010»
15 years 7 months ago
Analysis of protein-protein docking decoys using interaction fingerprints: application to the reconstruction of CaM-ligand compl
Background: Protein-protein docking for proteins with large conformational changes was analyzed by using interaction fingerprints, one of the scales for measuring similarities amo...
Nobuyuki Uchikoga, Takatsugu Hirokawa
JAR
2006
236views more  JAR 2006»
15 years 6 months ago
Deciding Boolean Algebra with Presburger Arithmetic
We describe an algorithm for deciding the first-order multisorted theory BAPA, which combines 1) Boolean algebras of sets of uninterpreted elements (BA) and 2) Presburger arithmeti...
Viktor Kuncak, Huu Hai Nguyen, Martin C. Rinard
WWW
2003
ACM
16 years 7 months ago
On the bursty evolution of blogspace
We propose two new tools to address the evolution of hyperlinked corpora. First, we define time graphs to extend the traditional notion of an evolving directed graph, capturing li...
Ravi Kumar, Jasmine Novak, Prabhakar Raghavan, And...
SIGMOD
2005
ACM
166views Database» more  SIGMOD 2005»
16 years 7 months ago
Substructure Similarity Search in Graph Databases
Advanced database systems face a great challenge raised by the emergence of massive, complex structural data in bioinformatics, chem-informatics, and many other applications. The ...
Xifeng Yan, Philip S. Yu, Jiawei Han
BMCBI
2010
175views more  BMCBI 2010»
15 years 7 months ago
Calibur: a tool for clustering large numbers of protein decoys
Background: Ab initio protein structure prediction methods generate numerous structural candidates, which are referred to as decoys. The decoy with the most number of neighbors of...
Shuai Cheng Li, Yen Kaow Ng