Details
| Original language | English |
|---|---|
| Title of host publication | Insoluble Proteins |
| Subtitle of host publication | Methods and Protocols |
| Editors | Elena Garcia Fruitos, Anna Aris Giralt |
| Place of Publication | New York |
| Pages | 85-92 |
| Number of pages | 8 |
| ISBN (electronic) | 978-1-0716-1859-2 |
| Publication status | Published - 28 Jan 2022 |
| Externally published | Yes |
Publication series
| Name | Methods in Molecular Biology |
|---|---|
| Volume | 2406 |
| ISSN (Print) | 1064-3745 |
| ISSN (electronic) | 1940-6029 |
Abstract
For heterologous gene expression, codon optimization is required to enhance the quality and quantity of the protein product. Recently, we introduced the software tool OCTOPOS. This sequence optimizer combines a detailed mechanistic mathematical modeling of in vivo protein synthesis with a state-of-the-art machine learning algorithm to find the sequence that best serves a user’s needs. Here, we briefly describe the algorithm and its implementation as well as its application in practice using OCTOPOS.
Keywords
- Codon optimization, Heterologous gene expression, mRNA translation, OCTOPOS, Protein synthesis
ASJC Scopus subject areas
- Biochemistry, Genetics and Molecular Biology(all)
- Molecular Biology
- Biochemistry, Genetics and Molecular Biology(all)
- Genetics
Cite this
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Insoluble Proteins: Methods and Protocols. ed. / Elena Garcia Fruitos; Anna Aris Giralt. New York, 2022. p. 85-92 (Methods in Molecular Biology; Vol. 2406).
Research output: Chapter in book/report/conference proceeding › Contribution to book/anthology › Research
}
TY - CHAP
T1 - Tailoring Codon Usage to the Underlying Biology for Protein Expression Optimization
AU - Alirezaeizanjani, Zahra
AU - Trösemeier, Jan Hendrik
AU - Kamp, Christel
AU - Rudorf, Sophia
PY - 2022/1/28
Y1 - 2022/1/28
N2 - For heterologous gene expression, codon optimization is required to enhance the quality and quantity of the protein product. Recently, we introduced the software tool OCTOPOS. This sequence optimizer combines a detailed mechanistic mathematical modeling of in vivo protein synthesis with a state-of-the-art machine learning algorithm to find the sequence that best serves a user’s needs. Here, we briefly describe the algorithm and its implementation as well as its application in practice using OCTOPOS.
AB - For heterologous gene expression, codon optimization is required to enhance the quality and quantity of the protein product. Recently, we introduced the software tool OCTOPOS. This sequence optimizer combines a detailed mechanistic mathematical modeling of in vivo protein synthesis with a state-of-the-art machine learning algorithm to find the sequence that best serves a user’s needs. Here, we briefly describe the algorithm and its implementation as well as its application in practice using OCTOPOS.
KW - Codon optimization
KW - Heterologous gene expression
KW - mRNA translation
KW - OCTOPOS
KW - Protein synthesis
UR - http://www.scopus.com/inward/record.url?scp=85123901366&partnerID=8YFLogxK
U2 - 10.1007/978-1-0716-1859-2_4
DO - 10.1007/978-1-0716-1859-2_4
M3 - Contribution to book/anthology
C2 - 35089551
AN - SCOPUS:85123901366
SN - 978-1-0716-1858-5
T3 - Methods in Molecular Biology
SP - 85
EP - 92
BT - Insoluble Proteins
A2 - Garcia Fruitos, Elena
A2 - Aris Giralt, Anna
CY - New York
ER -