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» On Compressibility of Protein Sequences
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BMCBI
2011
13 years 1 months ago
Protein alignment algorithms with an efficient backtracking routine on multiple GPUs
Background: Pairwise sequence alignment methods are widely used in biological research. The increasing number of sequences is perceived as one of the upcoming challenges for seque...
Jacek Blazewicz, Wojciech Frohmberg, Michal Kierzy...
RECOMB
2007
Springer
14 years 10 months ago
Design of Compact, Universal DNA Microarrays for Protein Binding Microarray Experiments
Our group has recently developed a compact, universal protein binding microarray (PBM) that can be used to determine the binding preferences of transcription factors (TFs) [1]. Thi...
Anthony A. Philippakis, Aaron M. Qureshi, Michael ...
VIS
2005
IEEE
204views Visualization» more  VIS 2005»
14 years 11 months ago
Differential Protein Expression Analysis via Liquid-Chromatography/Mass-Spectrometry Data Visualization
Differential protein expression analysis is one of the main challenges in proteomics. It denotes the search for proteins, whose encoding genes are differentially expressed under a...
Lars Linsen, Julia Löcherbach, Matthias Berth...
BMCBI
2010
116views more  BMCBI 2010»
13 years 10 months ago
Optimization algorithms for functional deimmunization of therapeutic proteins
Background: To develop protein therapeutics from exogenous sources, it is necessary to mitigate the risks of eliciting an anti-biotherapeutic immune response. A key aspect of the ...
Andrew S. Parker, Wei Zheng, Karl E. Griswold, Chr...
BMCBI
2008
124views more  BMCBI 2008»
13 years 10 months ago
Alignment of protein structures in the presence of domain motions
Background: Structural alignment is an important step in protein comparison. Well-established methods exist for solving this problem under the assumption that the structures under...
Roberto Mosca, Barbara Brannetti, Thomas R. Schnei...