<p>Not exactly what you're asking, but the modeling program/API <a href="http://rna.tbi.univie.ac.at/" rel="nofollow noreferrer">ViennaRNA</a> has excellent and accurate utilities for predicting the stability (<span class="math-container">$\Delta \Delta G$</span> of folding) for arbitrary oligonucleotide RNA/DNA sequences.</p>
<p>Failing that, as mentioned in the comments, there are many studies with some restricted datasets (such as <a href="https://file:///Users/maxp/Downloads/pnas.1920886117.sapp.pdf" rel="nofollow noreferrer">this one</a>, see Table S4, and <a href="https://www.sciencedirect.com/science/article/pii/S0006349522039352" rel="nofollow noreferrer">this one</a>. See also references therein).</p>
<p>I am having trouble finding an actual database as most hybridization studies seem to have been performed before data deposition was standard practice, and my inference is that people tend to trust the models at this point. See for example <a href="https://www.geneseo.edu/%7Emacula/Cou_F05/biomathF05/annurev.biophys.32.110601.141800.pdf" rel="nofollow noreferrer">this evaluation of the nearest-neighbor model for duplex formation</a>.</p>

CC BY-SA 4.0
2024-05-05T01:55:10.497Z
I confer this answer. ViennaRNA has a massive bank of programs for this exact task and predicts thermodynamic stability in each. They are highly reputable, choosing the appropriate program can be a bit tricky, there's a lot of them.
M__
CC BY-SA 4.0
2024-05-04T17:04:02.663Z
2024-05-04T17:04:02.663Z
Maximilian Press
<p>I am looking for melting temperatures of oligonucleotide duplexes, but I am having trouble finding data. Can be DNA-DNA, DNA-RNA, or RNA-RNA duplexes, native or modified nucleotides.</p>

CC BY-SA 4.0
2024-05-02T01:47:35.100Z
DNA-DNA you can easily find in many website if you do some google search. I can tell you relative stability of these duplexes. RNA-RNA > DNA-RNA > DNA-DNA.
Supertech
<public-databases><rna><public-dataset><dna>
Is there a database of oligonucleotide duplex sequences and their melting temperatures
# Is there a database of oligonucleotide duplex sequences and their melting temperatures

(Asked by: username_0 on 2024-05-01)

I am looking for melting temperatures of oligonucleotide duplexes, but I am having trouble finding data. Can be DNA-DNA, DNA-RNA, or RNA-RNA duplexes, native or modified nucleotides.

**Tags:** public-databases, rna, public-dataset, dna
> **Comments:**
> **username_1**: DNA-DNA you can easily find in many website if you do some google search. I can tell you relative stability of these duplexes. RNA-RNA > DNA-RNA > DNA-DNA.  

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## 1 answers

### Answer by username_2 on 2024-05-04. Score: 1

Not exactly what you're asking, but the modeling program/API [ViennaRNA](http://rna.tbi.univie.ac.at/) has excellent and accurate utilities for predicting the stability ($\Delta \Delta G$ of folding) for arbitrary oligonucleotide RNA/DNA sequences.

Failing that, as mentioned in the comments, there are many studies with some restricted datasets (such as [this one](https://file:///Users/maxp/Downloads/pnas.1920886117.sapp.pdf), see Table S4, and [this one](https://www.sciencedirect.com/science/article/pii/S0006349522039352). See also references therein).

I am having trouble finding an actual database as most hybridization studies seem to have been performed before data deposition was standard practice, and my inference is that people tend to trust the models at this point. See for example [this evaluation of the nearest-neighbor model for duplex formation](https://www.geneseo.edu/%7Emacula/Cou_F05/biomathF05/annurev.biophys.32.110601.141800.pdf).

> **Comments:**
> **username_3**: I confer this answer. ViennaRNA has a massive bank of programs for this exact task and predicts thermodynamic stability in each. They are highly reputable, choosing the appropriate program can be a bit tricky, there's a lot of them.  

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