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BIOINFORMATICS
2007
55views more  BIOINFORMATICS 2007»
13 years 4 months ago
Using an alignment of fragment strings for comparing protein structures
Iddo Friedberg, Tim Harder, Rachel Kolodny, Einat ...
BMCBI
2008
103views more  BMCBI 2008»
13 years 4 months ago
TOPS++FATCAT: Fast flexible structural alignment using constraints derived from TOPS+ Strings Model
Background: Protein structure analysis and comparison are major challenges in structural bioinformatics. Despite the existence of many tools and algorithms, very few of them have ...
Mallika Veeramalai, Yuzhen Ye, Adam Godzik
ISBRA
2010
Springer
13 years 2 months ago
Residue Contexts: Non-sequential Protein Structure Alignment Using Structural and Biochemical Features
The study of non-sequential alignments, with different connectivity of the aligned fragments in the proteins being compared can offer a more complete picture of the structural, evo...
Jay W. Kim, Rahul Singh
BMCBI
2004
208views more  BMCBI 2004»
13 years 4 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
BIOCOMP
2008
13 years 5 months ago
GIPSCo: A Method for Comparison of Protein Structures Based on Geometric Invariants
Protein structure comparison is important for elucidation of evolutionary relationships, function and functionally important amino acid residues. We propose Geometric Invariant bas...
Sandeep Deshmukh, Aniket Dalal, Pramod Wangikar