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BMCBI
2010
121views more  BMCBI 2010»
15 years 4 months ago
Knowledge-based annotation of small molecule binding sites in proteins
Background: The study of protein-small molecule interactions is vital for understanding protein function and for practical applications in drug discovery. To benefit from the rapi...
Ratna R. Thangudu, Manoj Tyagi, Benjamin A. Shoema...
BMCBI
2008
128views more  BMCBI 2008»
15 years 4 months ago
Finding sequence motifs with Bayesian models incorporating positional information: an application to transcription factor bindin
Background: Biologically active sequence motifs often have positional preferences with respect to a genomic landmark. For example, many known transcription factor binding sites (T...
Nak-Kyeong Kim, Kannan Tharakaraman, Leonardo Mari...
BMCBI
2008
121views more  BMCBI 2008»
15 years 4 months ago
ReAlignerV: Web-based genomic alignment tool with high specificity and robustness estimated by species-specific insertion sequen
Background: Detecting conserved noncoding sequences (CNSs) across species highlights the functional elements. Alignment procedures combined with computational prediction of transc...
Hisakazu Iwama, Yukio Hori, Kensuke Matsumoto, Koj...
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OOPSLA
2010
Springer
15 years 3 months ago
An input-centric paradigm for program dynamic optimizations
Accurately predicting program behaviors (e.g., locality, dependency, method calling frequency) is fundamental for program optimizations and runtime adaptations. Despite decades of...
Kai Tian, Yunlian Jiang, Eddy Z. Zhang, Xipeng She...
BMCBI
2011
14 years 8 months ago
PI: An open-source software package for validation of the SEQUEST result and visualization of mass spectrum
Background: Tandem mass spectrometry (MS/MS) has emerged as the leading method for high- throughput protein identification in proteomics. Recent technological breakthroughs have d...
Yantao Qiao, Hong Zhang, Dongbo Bu, Shiwei Sun