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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 21-30 of 359 total displayed.
- Methods Online
QUBIC: a qualitative biclustering algorithm for analyses of gene expression data
- Guojun Li, Qin Ma, Haibao Tang, Andrew H. Paterson, and Ying Xu
Nucleic Acids Res. 2009; 37: e101.
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- Methods Online
Using reads to annotate the genome: influence of length, background distribution, and sequence errors on prediction capacity
- Nicolas Philippe, Anthony Boureux, Laurent Bréhélin, Jorma Tarhio, Thérèse Commes, and Éric Rivals
Nucleic Acids Res. 2009; 37: e104.
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- Computational Biology
Gains and unexpected lessons from genome-scale promoter mapping
- K. S. Shavkunov, I. S. Masulis, M. N. Tutukina, A. A. Deev, and O. N. Ozoline
Nucleic Acids Res. 2009; 37: 4919-4931.
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- Chemistry and Synthetic Biology
Rapid prototyping of 3D DNA-origami shapes with caDNAno
- Shawn M. Douglas, Adam H. Marblestone, Surat Teerapittayanon, Alejandro Vazquez, George M. Church, and William M. Shih
Nucleic Acids Res. 2009; 37: 5001-5006.
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- Genomics
A computational procedure to identify significant overlap of differentially expressed and genomic imbalanced regions in cancer datasets
- Silvio Bicciato, Roberta Spinelli, Mattia Zampieri, Eleonora Mangano, Francesco Ferrari, Luca Beltrame, Ingrid Cifola, Clelia Peano, Aldo Solari, and Cristina Battaglia
Nucleic Acids Res. 2009; 37: 5057-5070.
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- Methods Online
In silico selection of RNA aptamers
- Yaroslav Chushak and Morley O. Stone
Nucleic Acids Res. 2009; 37: e87.
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- Methods Online
A complex-centric view of protein network evolution
- Nir Yosef, Martin Kupiec, Eytan Ruppin, and Roded Sharan
Nucleic Acids Res. 2009; 37: e88.
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- Methods Online
Measuring spatial preferences at fine-scale resolution identifies known and novel cis-regulatory element candidates and functional motif-pair relationships
- Ken Daigoro Yokoyama, Uwe Ohler, and Gregory A. Wray
Nucleic Acids Res. 2009; 37: e92.
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- Methods Online
A thermodynamic approach to PCR primer design
- Tobias Mann, Richard Humbert, Michael Dorschner, John Stamatoyannopoulos, and William Stafford Noble
Nucleic Acids Res. 2009; 37: e95.
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- Computational Biology
Stochastic sampling of the RNA structural alignment space
- Arif Ozgun Harmanci, Gaurav Sharma, and David H. Mathews
Nucleic Acids Res. 2009; 37: 4063-4075.
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