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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 191-200 of 359 total displayed.
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Comparative genomics analysis of NtcA regulons in cyanobacteria: regulation of nitrogen assimilation and its coupling to photosynthesis
- Zhengchang Su, Victor Olman, Fenglou Mao, and Ying Xu
Nucleic Acids Res. 2005; 33: 5156-5171.
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- Articles
The Gumbel pre-factor k for gapped local alignment can be estimated from simulations of global alignment
- Sergey Sheetlin, Yonil Park, and John L. Spouge
Nucleic Acids Res. 2005; 33: 4987-4994.
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- Articles
A thermodynamic approach to designing structure-free combinatorial DNA word sets
- Michael R. Shortreed, Seo Bong Chang, DongGee Hong, Maggie Phillips, Bridget Campion, Dan C. Tulpan, Mirela Andronescu, Anne Condon, Holger H. Hoos, and Lloyd M. Smith
Nucleic Acids Res. 2005; 33: 4965-4977.
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- Methods Online
Scoring schemes of palindrome clusters for more sensitive prediction of replication origins in herpesviruses
- David S. H. Chew, Kwok Pui Choi, and Ming-Ying Leung
Nucleic Acids Res. 2005; 33: e134.
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- Methods Online
Detecting seeded motifs in DNA sequences
- Cinzia Pizzi, Stefania Bortoluzzi, Andrea Bisognin, Alessandro Coppe, and Gian Antonio Danieli
Nucleic Acids Res. 2005; 33: e135.
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Identifying cooperative transcriptional regulations using protein–protein interactions
- Nobuyoshi Nagamine, Yuji Kawada, and Yasubumi Sakakibara
Nucleic Acids Res. 2005; 33: 4828-4837.
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Using multiple alignments to improve seeded local alignment algorithms
- Jason Flannick and Serafim Batzoglou
Nucleic Acids Res. 2005; 33: 4563-4577.
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GANA—a genetic algorithm for NMR backbone resonance assignment
- Hsin-Nan Lin, Kun-Pin Wu, Jia-Ming Chang, Ting-Yi Sung, and Wen-Lian Hsu
Nucleic Acids Res. 2005; 33: 4593-4601.
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Computer identification of snoRNA genes using a Mammalian Orthologous Intron Database
- Alexei Fedorov, Jesse Stombaugh, Michael W. Harr, Saihua Yu, Lorena Nasalean, and Valery Shepelev
Nucleic Acids Res. 2005; 33: 4578-4583.
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- Articles
Refinement of docked protein–ligand and protein–DNA structures using low frequency normal mode amplitude optimization
- Erik Lindahl and Marc Delarue
Nucleic Acids Res. 2005; 33: 4496-4506.
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