<p>Orthogonal DNA sequences are the shortest possible single stranded nucleotide stretches constructed. These sequences are used as probes in DNA hybridization. Because of its length and construction it has least chance of binding with other probes. </p>

<p>This technique improves the efficacy and specificity and is clinically used to detect genetic disorders in shortest time duration.</p>

<p>Via:
<a href="https://www.nature.com/articles/srep24650" rel="nofollow noreferrer">https://www.nature.com/articles/srep24650</a></p>

<p><a href="https://www.pnas.org/content/106/7/2289" rel="nofollow noreferrer">https://www.pnas.org/content/106/7/2289</a></p>

CC BY-SA 4.0
2019-12-06T04:26:30.587Z
Thank you! @Twinkle Sheen
Luhui Zhang
CC BY-SA 4.0
2019-12-06T04:46:19.753Z
Please upvote if you found it useful :)
Twinkle Sheen
CC BY-SA 4.0
2019-12-07T05:16:28.937Z
No problem! I have upvoted. I was told that my vote was recorded, but it wouldn't change the publicly post score because my reputation in the system was less than 15.
Luhui Zhang
CC BY-SA 4.0
2019-11-01T17:37:05.783Z
2019-11-01T17:37:05.783Z
Twinkle Sheen
<p>When reading <a href="https://doi.org/10.1093/nar/gkt809" rel="nofollow noreferrer">a paper</a>, I came across the following statement</p>

<blockquote>
  <p>Standard vectors were constructed, flanked by pairs of homology sequences derived from yeast barcodes at the ends of each expression cassette. We reasoned that as these barcode sequences were designed to be <strong>orthogonal</strong>, they could serve a dual purpose of reducing the probability of mis-annealing and dictating the assembly order of multiple cassettes.</p>
</blockquote>

<p>I am not sure what the "orthogonal" means here. I think it is about synthetic biology.</p>

CC BY-SA 4.0
2019-10-22T06:12:15.253Z
Could you please put your question in contact? What is the reason for asking? How does this relate to your research area? Otherwise Google it
M__
CC BY-SA 4.0
2019-10-22T12:02:34.750Z
Could you be referring to orthologous? We can't answer this without more context.
terdon
CC BY-SA 4.0
2019-10-22T16:57:31.007Z
You are talking about synthetic biology, right? If you mean the orthogonal Shine-Dalgano sequences, it depends on the system and all are experimental and not as established as Amber supression codons. See [wiki](https://en.wikipedia.org/wiki/Expanded_genetic_code#Orthogonal_ribosomes)
Matteo Ferla
CC BY-SA 4.0
2019-10-25T03:47:14.173Z
Thank you all very much! When I read a paper, it says, "Standard vectors were constructed, flanked by pairs of homology sequences derived from yeast barcodes at the ends of each expression cassette. We reasoned that as these barcode sequences were designed to be **orthogonal**, they could serve a dual purpose of reducing the probability of mis-annealing and dictating the assembly order of multiple cassettes." I am not sure what the "orthogonal" means here. I think it is about synthetic biology. Thanks!
Luhui Zhang
CC BY-SA 4.0
2019-12-03T09:48:18.807Z
Orthogonal in that case means what it means normally. Namely, different enough to not cross-talk. Say A interacts with a and B with b, but A does not with b. If A did interact with b, it would not be orthogonal but it be non-orthogonal/cross-talking/cross-reaction (if chemical).
Matteo Ferla
CC BY-SA 4.0
2019-12-06T04:24:29.400Z
@MatteoFerla Thanks so much!
Luhui Zhang
<phylogenetics>
What are Orthogonal DNA Sequences?
# What are Orthogonal DNA Sequences?

(Asked by: username_0 on 2019-10-22)

When reading [a paper](https://doi.org/10.1093/nar/gkt809), I came across the following statement

> Standard vectors were constructed, flanked by pairs of homology sequences derived from yeast barcodes at the ends of each expression cassette. We reasoned that as these barcode sequences were designed to be **orthogonal**, they could serve a dual purpose of reducing the probability of mis-annealing and dictating the assembly order of multiple cassettes.

I am not sure what the "orthogonal" means here. I think it is about synthetic biology.

**Tags:** phylogenetics
> **Comments:**
> **username_1**: Could you please put your question in contact? What is the reason for asking? How does this relate to your research area? Otherwise Google it  
> **username_2**: Could you be referring to orthologous? We can't answer this without more context.  
> **username_3**: You are talking about synthetic biology, right? If you mean the orthogonal Shine-Dalgano sequences, it depends on the system and all are experimental and not as established as Amber supression codons. See [wiki](https://en.wikipedia.org/wiki/Expanded_genetic_code#Orthogonal_ribosomes)  
> **username_0**: Thank you all very much! When I read a paper, it says, "Standard vectors were constructed, flanked by pairs of homology sequences derived from yeast barcodes at the ends of each expression cassette. We reasoned that as these barcode sequences were designed to be **orthogonal**, they could serve a dual purpose of reducing the probability of mis-annealing and dictating the assembly order of multiple cassettes." I am not sure what the "orthogonal" means here. I think it is about synthetic biology. Thanks!  
> **username_3**: Orthogonal in that case means what it means normally. Namely, different enough to not cross-talk. Say A interacts with a and B with b, but A does not with b. If A did interact with b, it would not be orthogonal but it be non-orthogonal/cross-talking/cross-reaction (if chemical).  
> **username_0**: @MatteoFerla Thanks so much!  

---

## 1 answers

### Answer by username_4 on 2019-11-01. Score: 1

Orthogonal DNA sequences are the shortest possible single stranded nucleotide stretches constructed. These sequences are used as probes in DNA hybridization. Because of its length and construction it has least chance of binding with other probes.

This technique improves the efficacy and specificity and is clinically used to detect genetic disorders in shortest time duration.

Via:
<https://www.nature.com/articles/srep24650>

<https://www.pnas.org/content/106/7/2289>

> **Comments:**
> **username_0**: Thank you! @Twinkle Sheen  
> **username_4**: Please upvote if you found it useful :)  
> **username_0**: No problem! I have upvoted. I was told that my vote was recorded, but it wouldn't change the publicly post score because my reputation in the system was less than 15.  

---

