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Computational methods
Computational Methods include useful new routines and algorithms with applications to Bioinformatics such as new sequence manipulation and analysis methods. Also included are new methods of computational analysis of biological data that facilitate data interpretation.
Citations 111-120 of 359 total displayed.
- Methods Online
Positional clustering improves computational binding site detection and identifies novel cis-regulatory sites in mammalian GABAA receptor subunit genes
- Timothy E. Reddy, Boris E. Shakhnovich, Daniel S. Roberts, Shelley J. Russek, and Charles DeLisi
Nucleic Acids Res. 2007; 35: e20.
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- Methods Online
Positional artifacts in microarrays: experimental verification and construction of COP, an automated detection tool
- Haiyuan Yu, Katherine Nguyen, Tom Royce, Jiang Qian, Kenneth Nelson, Michael Snyder, and Mark Gerstein
Nucleic Acids Res. 2007; 35: e8.
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- Methods Online
A pHMM-ANN based discriminative approach to promoter identification in prokaryote genomic contexts
- Scott Mann, Jinyan Li, and Yi-Ping Phoebe Chen
Nucleic Acids Res. 2007; 35: e12.
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- Genomics
GISMO—gene identification using a support vector machine for ORF classification
- Lutz Krause, Alice C. McHardy, Tim W. Nattkemper, Alfred Pühler, Jens Stoye, and Folker Meyer
Nucleic Acids Res. 2007; 35: 540-549.
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- Computational Biology
Dynamic use of multiple parameter sets in sequence alignment
- Xiaoqiu Huang and Douglas L. Brutlag
Nucleic Acids Res. 2007; 35: 678-686.
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- Genomics
Recharacterization of ancient DNA miscoding lesions: insights in the era of sequencing-by-synthesis
- M. Thomas P. Gilbert, Jonas Binladen, Webb Miller, Carsten Wiuf, Eske Willerslev, Hendrik Poinar, John E. Carlson, James H. Leebens-Mack, and Stephan C. Schuster
Nucleic Acids Res. 2007; 35: 1-10.
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- Computational Biology
Operon prediction in Pyrococcus furiosus
- Thao T. Tran, Phuongan Dam, Zhengchang Su, Farris L. Poole, II, Michael W. W. Adams, G. Tong Zhou, and Ying Xu
Nucleic Acids Res. 2007; 35: 11-20.
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- Computational Biology
Epitope mapping using combinatorial phage-display libraries: a graph-based algorithm
- Itay Mayrose, Tomer Shlomi, Nimrod D. Rubinstein, Jonathan M. Gershoni, Eytan Ruppin, Roded Sharan, and Tal Pupko
Nucleic Acids Res. 2007; 35: 69-78.
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- RNA
Different levels of alternative splicing among eukaryotes
- Eddo Kim, Alon Magen, and Gil Ast
Nucleic Acids Res. 2007; 35: 125-131.
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- Computational Biology
Nonlinear differential equation model for quantification of transcriptional regulation applied to microarray data of Saccharomyces cerevisiae
- Tra Thi Vu and Jiri Vohradsky
Nucleic Acids Res. 2007; 35: 279-287.
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