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» An error model for protein quantification
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TCBB
2010
80views more  TCBB 2010»
13 years 3 months ago
On the Importance of Comprehensible Classification Models for Protein Function Prediction
—The literature on protein function prediction is currently dominated by works aimed at maximizing predictive accuracy, ignoring the important issues of validation and interpreta...
Alex Alves Freitas, Daniela Wieser, Rolf Apweiler
JCB
2008
106views more  JCB 2008»
13 years 5 months ago
Statistics of Random Protein Superpositions: p-Values for Pairwise Structure Alignment
Quantification of statistical significance is essential for the interpretation of protein structural similarity. To address this, a random model for protein structure comparison w...
James O. Wrabl, Nick V. Grishin
BMCBI
2008
114views more  BMCBI 2008»
13 years 5 months ago
Testing the Coulomb/Accessible Surface Area solvent model for protein stability, ligand binding, and protein design
Background: Protein structure prediction and computational protein design require efficient yet sufficiently accurate descriptions of aqueous solvent. We continue to evaluate the ...
Marcel Schmidt am Busch, Anne Lopes, Najette Amara...
BMCBI
2007
160views more  BMCBI 2007»
13 years 5 months ago
Identifying protein complexes directly from high-throughput TAP data with Markov random fields
Background: Predicting protein complexes from experimental data remains a challenge due to limited resolution and stochastic errors of high-throughput methods. Current algorithms ...
Wasinee Rungsarityotin, Roland Krause, Arno Sch&ou...
BMCBI
2008
103views more  BMCBI 2008»
13 years 5 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