Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Experiment Videos

Combinatorial codons: a computer program to approximate amino acid probabilities with biased nucleotide usage.

E Wolf1, P S Kim

  • 1Howard Hughes Medical Institute, Department of Biology, MIT, Cambridge, Massachusetts 02142, USA.

Protein Science : a Publication of the Protein Society
|March 26, 1999
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Spectral changes produced by static scattering on a system of particles.

Optics letters·2007
Same author

Do evanescent waves contribute to the far field? Errata.

Optics letters·2007
Same author

Do evanescent waves contribute to the far field?

Optics letters·2007
Same author

Phase conjugation with random fields and with deterministic and random scatterers.

Optics letters·2007
Same author

Storage and retrieval of correlation functions of partially coherent fields.

Optics letters·2007
Same author

Light beams with minimum phase space product.

Optics letters·2007
Same journal

Macromolecular crowding inhibits degradation of alpha-synuclein amyloid fibrils induced by cathepsins and MMP9.

Protein science : a publication of the Protein Society·2026
Same journal

Sequence-encoded differences in the conformational ensembles of CITED transcriptional activation domains impact coactivator binding.

Protein science : a publication of the Protein Society·2026
Same journal

The phospholipid biosynthesis enzyme PlsB contains three distinct domains for membrane association, lysophosphatidic acid synthesis, and dimerization.

Protein science : a publication of the Protein Society·2026
Same journal

Structural basis of ligand selectivity in FAD/NAD(P)H-dependent dehydrogenases: insights from trypanothione reductase and type II NADH dehydrogenase.

Protein science : a publication of the Protein Society·2026
Same journal

Achieving protease substrate-specific inhibition by mAb dual functional selections.

Protein science : a publication of the Protein Society·2026
Same journal

How important are quantum mechanical effects in controlling biological functions: Enzymes, electron transfer and bird navigation.

Protein science : a publication of the Protein Society·2026
See all related articles

This study introduces a computer program that approximates desired amino acid probability distributions using nucleotide biases in codons. The tool generates optimal and sub-optimal codon sets for mutational studies and library design.

Area of Science:

  • Computational Biology
  • Molecular Biology
  • Bioinformatics

Background:

  • Generating specific amino acid frequencies is crucial for biological research.
  • The genetic code's inherent dependencies complicate precise amino acid distribution control.

Purpose of the Study:

  • To develop a computational tool for approximating desired amino acid probability distributions.
  • To facilitate the creation of biased codons for mutational studies and synthetic biology applications.

Main Methods:

  • Utilized optimization theory to develop a computer program.
  • Imposed probability distributions on nucleotides at each codon position.
  • Generated both optimal and classified sub-optimal solutions.

Main Results:

Related Experiment Videos

  • The program approximates desired amino acid distributions by controlling nucleotide frequencies in codons.
  • It provides users with a range of solutions, balancing accuracy with practical constraints.
  • Offers families of similar solutions for flexible application.

Conclusions:

  • The developed program offers a practical approach to generating biased codons.
  • It supports advanced applications in mutational analysis and the design of biological libraries.
  • The Combinatorial Codons program is accessible via the web.