Local protein threading by Mixed Integer Programming

نویسندگان
چکیده

برای دانلود باید عضویت طلایی داشته باشید

برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

منابع مشابه

Local protein threading by Mixed Integer Programming

During the last decade, significant progresses have been made in solving the Protein Threading Problem (PTP). However, all previous approaches to PTP only perform global sequence–structure alignment. This obvious limitation is in clear contrast with the ”world of sequences”, where local sequence-sequence alignments are widely used to find functionally important regions in families of proteins. ...

متن کامل

Protein Threading Based on Nonlinear Integer Programming

Protein threading is a method of computational protein structure prediction used for protein sequences which have the same fold as proteins of known structures but do not have homologous proteins with known structure. The most popular algorithm is based on linear integer programming. In this paper, we consider methods based on nonlinear integer programming. Actually, the existing linear integer...

متن کامل

Local cuts for mixed-integer programming

A general framework for cutting-plane generation was proposed by Applegate et al. in the context of the traveling salesman problem. The process considers the image of a problem space under a linear mapping, chosen so that a relaxation of the mapped problem can be solved efficiently. Optimization in the mapped space can be used to find a separating hyperplane if one exists, and via substitution ...

متن کامل

Protein Threading by Linear Programming

Protein three-dimensional structure prediction through threading approach has been extensively studied and various models and algorithms have been proposed. In order to further explore ways to improve accuracy and efficiency of the threading process, this paper investigates the effectiveness of a new method: protein threading via linear programming. Based on the contact map model of protein 3D ...

متن کامل

Raptor: Optimal Protein Threading by Linear Programming

This paper presents a novel linear programming approach to do protein 3-dimensional (3D) structure prediction via threading. Based on the contact map graph of the protein 3D structure template, the protein threading problem is formulated as a large scale integer programming (IP) problem. The IP formulation is then relaxed to a linear programming (LP) problem, and then solved by the canonical br...

متن کامل

ذخیره در منابع من


  با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید

ژورنال

عنوان ژورنال: Discrete Applied Mathematics

سال: 2011

ISSN: 0166-218X

DOI: 10.1016/j.dam.2010.05.024