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Related Experiment Videos

ODS_BOOTSTRAP: assessing the statistical reliability of physical maps by bootstrap resampling

Y Wang1, R A Prade, J Griffith

  • 1Genetics Department, University of Georgia, Athens 30602, USA.

Computer Applications in the Biosciences : CABIOS
|December 1, 1994
PubMed
Summary

The ODS_BOOTSTRAP program rapidly orders genomic clones into physical maps using binary fingerprints and bootstrap resampling. This method statistically assesses the reliability of clonal ordering for genomic research.

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Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • Physical mapping of genomic libraries is crucial for understanding genome organization.
  • Assessing the statistical reliability of clonal ordering is essential for accurate physical maps.
  • Existing methods may lack robust statistical validation for clonal order.

Purpose of the Study:

  • To introduce the ODS_BOOTSTRAP program for rapid physical map construction.
  • To apply bootstrap resampling for statistically evaluating clonal ordering reliability.
  • To provide confidence statistics for links within physical maps.

Main Methods:

  • Assigning binary fingerprints to clones using experimental approaches (e.g., probe hybridization).
  • Inputting the binary data matrix into ODS_BOOTSTRAP for physical map construction.

Related Experiment Videos

  • Employing bootstrap resampling by randomly sampling probes to generate multiple physical maps.

    • Main Results:

    • Generated multiple physical maps through resampling to compare with the original map.
    • Quantified the reappearance of neighboring clones and contigs across resampled maps.
    • Introduced three confidence statistics (C1, C2, C3) to measure link reliability.

    Conclusions:

    • ODS_BOOTSTRAP offers an efficient methodology for physical map creation.
    • Bootstrap resampling provides a robust statistical framework for assessing clonal ordering reliability.
    • The developed confidence statistics enhance the interpretability and trustworthiness of physical maps.