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Design of nucleic acid sequences for DNA computing based on a thermodynamic approach
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instance of
scholarly article
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title
Design of nucleic acid sequences for DNA computing based on a thermodynamic approach
(English)
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main subject
DNA design
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thermodynamic computing
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author name string
Fumiaki Tanaka
series ordinal
1
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Atsushi Kameda
series ordinal
2
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Masahito Yamamoto
series ordinal
3
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Azuma Ohuchi
series ordinal
4
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language of work or name
English
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publication date
2005
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published in
Nucleic Acids Research
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volume
33
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issue
3
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page(s)
903-11
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cites work
Paradigms for computational nucleic acid design
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
retrieved
7 April 2017
Mfold web server for nucleic acid folding and hybridization prediction
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
retrieved
7 April 2017
Expression profiling of the schizont and trophozoite stages of Plasmodium falciparum with a long-oligonucleotide microarray
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
retrieved
7 April 2017
A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
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7 April 2017
Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
retrieved
7 April 2017
Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
retrieved
7 April 2017
Vienna RNA secondary structure server
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
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7 April 2017
Solution of a 20-variable 3-SAT problem on a DNA computer
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
retrieved
7 April 2017
A new algorithm for RNA secondary structure design
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
retrieved
28 September 2017
A 1.7-kilobase single-stranded DNA that folds into a nanoscale octahedron
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
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28 September 2017
RNAsoft: A suite of RNA secondary structure prediction and design software tools
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
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28 September 2017
OligoArray 2.0: design of oligonucleotide probes for DNA microarrays using a thermodynamic approach
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
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28 September 2017
A robust DNA mechanical device controlled by hybridization topology
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
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28 September 2017
Assessment of the sensitivity and specificity of oligonucleotide (50mer) microarrays
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
retrieved
28 September 2017
Thermodynamic parameters for DNA sequences with dangling ends
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
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28 September 2017
Molecular computation: RNA solutions to chess problems
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
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28 September 2017
Design and self-assembly of two-dimensional DNA crystals
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
retrieved
28 September 2017
Molecular computation of solutions to combinatorial problems
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
retrieved
28 September 2017
Thermodynamic study of internal loops in oligoribonucleotides: symmetric loops are more stable than asymmetric loops.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
retrieved
30 May 2018
Thermodynamic parameters based on a nearest-neighbor model for DNA sequences with a single-bulge loop.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
retrieved
28 November 2018
Fast evaluation of internal loops in RNA secondary structure prediction.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=549402
retrieved
28 November 2018
Identifiers
DOI
10.1093/NAR/GKI235
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PMC publication ID
549402
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PubMed publication ID
15701762
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ResearchGate publication ID
8030669
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