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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 1-10 of 355 total displayed.
- Methods Online
VENN, a tool for titrating sequence conservation onto protein structures
- Jay Vyas, Michael R. Gryk, and Martin R. Schiller
Nucleic Acids Res. 2009; 37: e124.
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- Methods Online
SubpathwayMiner: a software package for flexible identification of pathways
- Chunquan Li, Xia Li, Yingbo Miao, Qianghu Wang, Wei Jiang, Chun Xu, Jing Li, Junwei Han, Fan Zhang, Binsheng Gong, and Liangde Xu
Nucleic Acids Res. 2009; 37: e131.
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- Computational Biology
Detecting species-site dependencies in large multiple sequence alignments
- Roland Schwarz, Philipp N. Seibel, Sven Rahmann, Christoph Schoen, Mirja Huenerberg, Clemens Müller-Reible, Thomas Dandekar, Rachel Karchin, Jörg Schultz, and Tobias Müller
Nucleic Acids Res. 2009; 37: 5959-5968.
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- Computational Biology
Combinatorial network of primary and secondary microRNA-driven regulatory mechanisms
- Kang Tu, Hui Yu, You-Jia Hua, Yuan-Yuan Li, Lei Liu, Lu Xie, and Yi-Xue Li
Nucleic Acids Res. 2009; 37: 5969-5980.
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- Structural Biology
Sequence variant (CTAGGG)n in the human telomere favors a G-quadruplex structure containing a G·C·G·C tetrad
- Kah Wai Lim, Patrizia Alberti, Aurore Guédin, Laurent Lacroix, Jean-François Riou, Nicola J. Royle, Jean-Louis Mergny, and Anh Tuân Phan
Nucleic Acids Res. 2009; 37: 6239-6248.
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- Computational Biology
Multiplex primer prediction software for divergent targets
- Shea N. Gardner, Amy L. Hiddessen, Peter L. Williams, Christine Hara, Mark C. Wagner, and Bill W. Colston, Jr
Nucleic Acids Res. 2009; 37: 6291-6304.
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- Computational Biology
Internal standard-based analysis of microarray data. Part 1: analysis of differential gene expressions
- Igor Dozmorov and Ivan Lefkovits
Nucleic Acids Res. 2009; 37: 6323-6339.
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- Methods Online
Detection of single nucleotide variations in expressed exons of the human genome using RNA-Seq
- Iouri Chepelev, Gang Wei, Qingsong Tang, and Keji Zhao
Nucleic Acids Res. 2009; 37: e106.
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- Methods Online
ORMA: a tool for identification of species-specific variations in 16S rRNA gene and oligonucleotides design
- Marco Severgnini, Paola Cremonesi, Clarissa Consolandi, Giada Caredda, Gianluca De Bellis, and Bianca Castiglioni
Nucleic Acids Res. 2009; 37: e109.
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- Methods Online
Extracting transcription factor targets from ChIP-Seq data
- Geetu Tuteja, Peter White, Jonathan Schug, and Klaus H. Kaestner
Nucleic Acids Res. 2009; 37: e113.
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