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

Analyzing partially randomized nucleic acid pools: straight dope on doping.

Rob Knight1, Michael Yarus

  • 1Department of Molecular, Cellular and Developmental Biology, Campus Box 347, University of Colorado, Boulder, CO 80309, USA. rob@spot.colorado.edu

Nucleic Acids Research
|March 11, 2003
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

Ordering events in a developing genetic code.

RNA biology·2024
Same author

The Genetic Code Assembles via Division and Fusion, Basic Cellular Events.

Life (Basel, Switzerland)·2023
Same author

A crescendo of competent coding (c3) contains the Standard Genetic Code.

RNA (New York, N.Y.)·2022
Same author

Fitting the standard genetic code into its triplet table.

Proceedings of the National Academy of Sciences of the United States of America·2021
Same author

Optimal Evolution of the Standard Genetic Code.

Journal of molecular evolution·2021
Same author

Evolution of the Standard Genetic Code.

Journal of molecular evolution·2021
Same journal

Cap 2'-O-methyltransferase CMTR2 regulates male meiosis independent of its methyltransferase activity.

Nucleic acids research·2026
Same journal

APE1 binds and processes abasic sites present in i-motif DNA and cooperates with PCBP1 in maintenance of telomeric stability.

Nucleic acids research·2026
Same journal

Acquisition of a novel restriction modification system regulates genetic flux and gene expression in the hypervirulent and globally disseminated CC17 lineage of group B Streptococcus.

Nucleic acids research·2026
Same journal

Trans-species microRNAs from the parasitic plant Cuscuta campestris specifically avoid loading onto self Argonautes.

Nucleic acids research·2026
Same journal

Neurochondrin promotes U5 snRNP maturation by regulating AAR2 release from PRPF8.

Nucleic acids research·2026
Same journal

Elongationless start-stop elements are stress-resilient translation gates that are more repressive than uTranslons.

Nucleic acids research·2026
See all related articles

Calculating unique sequences in partially randomized (doped) pools is crucial for optimizing molecular activities. Small variations in doping significantly impact the distribution of sequence variants, affecting exploration of sequence space during experiments.

Area of Science:

  • Molecular Biology
  • Biotechnology
  • Bioinformatics

Background:

  • Partially randomized (doped) pools are essential for optimizing molecular functions identified through selection-amplification (SELEX).
  • These pools help in pinpointing critical nucleotides responsible for specific biological activities.
  • Understanding sequence diversity within doped pools is key for experimental success.

Purpose of the Study:

  • To introduce a method for calculating the number of unique sequences in a doped pool.
  • To determine the expected copy number for each unique sequence based on its deviation from the original sequence.
  • To analyze the impact of various experimental parameters on sequence space exploration in doped pools.

Main Methods:

  • Development of a computational method to quantify unique sequences and their copy numbers in doped pools.

Related Experiment Videos

  • Simulation and analysis of doped reselection experiments.
  • Investigation of factors including pool size, doping percentage, and random region length.

    • Main Results:

    • A surprising finding revealed that minor changes in doping levels can disproportionately affect the abundance of sequences with specific variations.
    • Demonstrated how pool size, doping percentage, and random region length influence the exploration of sequence diversity.
    • The study provides a tool for customized calculations related to doped pool composition.

    Conclusions:

    • Accurate calculation of sequence diversity in doped pools is vital for optimizing SELEX and functional studies.
    • Doping strategies must be carefully considered due to their significant impact on sequence representation.
    • The presented method and tool aid researchers in designing and interpreting experiments involving partially randomized pools.