NUPACK

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1	Software News and Updates NUPACK: Analysis and Design of Nucleic Acid Systems JOSEPH N. ZADEH,1† CONRAD D. STEENBERG,1† JUSTIN S. BOIS,1† BRIAN R. WOLFE,1† MARSHALL B. PIERCE,1 ASIF R. KHAN,1 ROBERT M. DIRKS,1 NI Add to Reading List Source URL: web.caltech.edu Language: English - Date: 2011-01-10 13:21:29 DNA NUPACK Biophysics Molecular biology Nucleic acid secondary structure Nucleic acid Base pair Gene Pseudoknot Biology Genetics RNA
2	An Algorithm for Computing Nucleic Acid Base-Pairing Probabilities Including Pseudoknots ROBERT M. DIRKS,1 NILES A. PIERCE2 1 Department of Chemistry, California Institute of Technology, Pasadena, California 91125 Add to Reading List Source URL: piercelab.caltech.edu Language: English - Date: 2010-09-08 02:56:26 Biology Genetics Pseudoknot Nucleic acid secondary structure Dynamic programming NUPACK Partition Algorithm Recursion Mathematics RNA Mathematical logic
3	Nucleic Acid Sequence Design via Efficient Ensemble Defect Optimization JOSEPH N. ZADEH,1 BRIAN R. WOLFE,1 NILES A. PIERCE1,2 1 Department of Bioengineering, California Institute of Technology, Pasadena, California, 911 Add to Reading List Source URL: web.caltech.edu Language: English - Date: 2011-01-10 13:21:53 Algorithm Applied mathematics Mathematics Science Operations research NUPACK Mathematical optimization