Sciweavers

BMCBI
2011
12 years 11 months ago
MRCQuant- an accurate LC/MS relative isotopic quantification algorithm on TOF instruments
Background: Relative isotope abundance quantification, which can be used for peptide identification and differential peptide quantification, plays an important role in liquid chro...
William H. Haskins, Konstantinos Petritis, Jianqiu...
BMCBI
2010
107views more  BMCBI 2010»
12 years 11 months ago
Interaction prediction and classification of PDZ domains
Background: PDZ domain is a well-conserved, structural protein domain found in hundreds of signaling proteins that are otherwise unrelated. PDZ domains can bind to the C-terminal ...
Sibel Kalyoncu, Ozlem Keskin, Attila Gürsoy
JCC
2007
82views more  JCC 2007»
13 years 4 months ago
Peptide reagent design based on physical and chemical properties of amino acid residues
: It has tremendous values for both drug discovery and basic research to develop a solid bioinformatical tool for guiding peptide reagent design. Based on the physical and chemical...
Qishi Du, Ri-Bo Huang, Yu-Tuo Wei, Cheng-Hua Wang,...
BMCBI
2005
93views more  BMCBI 2005»
13 years 4 months ago
SPdb - a signal peptide database
Background: The signal peptide plays an important role in protein targeting and protein translocation in both prokaryotic and eukaryotic cells. This transient, short peptide seque...
Khar Heng Choo, Tin Wee Tan, Shoba Ranganathan
BMCBI
2007
131views more  BMCBI 2007»
13 years 4 months ago
Prediction of peptides observable by mass spectrometry applied at the experimental set level
Background: When proteins are subjected to proteolytic digestion and analyzed by mass spectrometry using a method such as 2D LC MS/MS, only a portion of the proteotypic peptides a...
William S. Sanders, Susan M. Bridges, Fiona M. McC...
BMCBI
2006
148views more  BMCBI 2006»
13 years 4 months ago
Predicting Class II MHC-Peptide binding: a kernel based approach using similarity scores
Background: Modelling the interaction between potentially antigenic peptides and Major Histocompatibility Complex (MHC) molecules is a key step in identifying potential T-cell epi...
Jesper Salomon, Darren R. Flower
BMCBI
2006
78views more  BMCBI 2006»
13 years 4 months ago
Modelling study of dimerization in mammalian defensins
Background: Defensins are antimicrobial peptides of innate immunity functioning by non-specific binding to anionic phospholipids in bacterial membranes. Their cationicity, amphipa...
Anita Suresh, Chandra Verma
BMCBI
2006
101views more  BMCBI 2006»
13 years 4 months ago
SuperMimic - Fitting peptide mimetics into protein structures
Background: Various experimental techniques yield peptides that are biologically active but have unfavourable pharmacological properties. The design of structurally similar organi...
Andrean Goede, Elke Michalsky, Ulrike Schmidt, Rob...
BMCBI
2008
115views more  BMCBI 2008»
13 years 4 months ago
Improving peptide-MHC class I binding prediction for unbalanced datasets
Background: Establishment of peptide binding to Major Histocompatibility Complex class I (MHCI) is a crucial step in the development of subunit vaccines and prediction of such bin...
Ana Paula Sales, Georgia D. Tomaras, Thomas B. Kep...
BMCBI
2008
104views more  BMCBI 2008»
13 years 4 months ago
Evolutionary Pareto-optimization of stably folding peptides
Background: As a rule, peptides are more flexible and unstructured than proteins with their substantial stabilizing hydrophobic cores. Nevertheless, a few stably folding peptides ...
Wolfram Gronwald, Tim Hohm, Daniel Hoffmann