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

Database and analysis system for cDNA clones obtained from full-length enriched cDNA libraries.

Tetsuo Nishikawa1, Toshio Ota, Yuri Kawai

  • 1Helix Research Institute, Chiba, Japan.

In Silico Biology
|January 26, 2002
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

Nationwide surveillance of antibacterial susceptibility patterns of bacterial pathogens isolated from otorhinolaryngological infectious diseases in Japan.

Journal of infection and chemotherapy : official journal of the Japan Society of Chemotherapy·2026
Same author

A Curiosity Estimation in Storytelling with Picture Books for Children Using Wearable Sensors.

Sensors (Basel, Switzerland)·2024
Same author

Detection of four isomers of the human cytomegalovirus genome using nanopore long-read sequencing.

Virus genes·2024
Same author

Exploring factors of successful transition to elementary school among children with autism spectrum disorder in Japan: a focus group study.

International journal of developmental disabilities·2024
Same author

IMiD/CELMoD-induced growth suppression of adult T-cell leukemia/lymphoma cells <i>via</i> cereblon through downregulation of target proteins and their downstream effectors.

Frontiers in oncology·2024
Same author

ABA signaling converts stem cell fate by substantiating a tradeoff between cell polarity, growth and cell cycle progression and abiotic stress responses in the moss <i>Physcomitrium patens</i>.

Frontiers in plant science·2023

This study introduces an efficient sequence analysis and database system for full-length cDNA clones. The system accurately predicts clone fullness, aiding in the retrieval of functionally interesting genes.

Area of Science:

  • Bioinformatics
  • Molecular Biology
  • Genomics

Background:

  • Full-length enriched cDNA libraries are crucial for understanding gene function.
  • Efficient analysis of cDNA sequences is essential for accurate gene annotation.
  • Existing methods for assessing cDNA clone completeness can be improved.

Purpose of the Study:

  • To develop an efficient sequence-analysis and database system for full-length cDNA clones.
  • To improve the accuracy of predicting sequence fullness and identifying Open Reading Frames (ORFs).
  • To facilitate the retrieval of full-length cDNA clones with potentially interesting functions.

Main Methods:

  • Development of a semi-automatic system for 5' and 3' end sequence analysis.
  • Implementation of programs for sequence pre-processing, clustering, similarity searching, and ORF analysis.

Related Experiment Videos

  • Utilizing ESTiMateFull and ATGpr programs for sequence fullness prediction.
  • Developing a system for assembling sequences with dbEST and retrieving clones based on ORF characteristics.

    • Main Results:

    • Achieved 70% accuracy in specificity and sensitivity for fullness predictions using full-length enriched cDNA clones and ATGpr.
    • Developed a system for predicting signal peptides and performing motif searches within predicted ORFs.
    • Created a retrieval system allowing keyword-based searching using combined analysis results and displaying multiple data types simultaneously.

    Conclusions:

    • The developed system provides an efficient method for analyzing full-length cDNA clones.
    • The combination of enriched libraries and advanced prediction tools enhances the accuracy of identifying complete gene sequences.
    • The system streamlines the discovery of full-length cDNA clones with significant biological functions.