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A new graph model and algorithms for consistent superstring problems.

Joong Chae Na1, Sukhyeun Cho, Siwon Choi

  • 1Department of Computer Science and Engineering, Sejong University, , Seoul 143-747, South Korea.

Philosophical Transactions. Series A, Mathematical, Physical, and Engineering Sciences
|April 23, 2014
PubMed
Summary
This summary is machine-generated.

This study introduces a novel graph model for consistent superstrings, addressing challenges in data compression and bioinformatics. The new algorithms efficiently find the shortest and longest consistent superstrings, expanding solvable cases.

Keywords:
consistent superstringstring inclusionstring non-inclusion

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Area of Science:

  • Computational biology
  • Computer science
  • Data compression

Background:

  • String inclusion and non-inclusion problems are critical in diverse fields.
  • Consistent superstrings are essential for representing positive strings while excluding negative ones.

Purpose of the Study:

  • To propose a new graph model for consistent superstrings.
  • To develop efficient algorithms for finding the shortest and longest consistent superstrings.

Main Methods:

  • A novel graph model is introduced to represent consistent superstrings.
  • Algorithms are presented for both shortest and longest consistent superstring problems.

Main Results:

  • The graph model accurately represents the set of consistent superstrings.
  • Algorithms solve consistent superstring problems for all cases, including previously unconsidered ones.
  • Polynomial-time solutions are provided for more cases than previous algorithms, with improved efficiency.

Conclusions:

  • The proposed graph model and algorithms offer a comprehensive solution for consistent superstring problems.
  • The new approach enhances efficiency and expands the scope of solvable problems in string computation.