Encyclopedia of Bioinformatics and Computational Biology / editors-in-chief Shoba Ranganathan, Mario Cannataro and Asif M. Khan.

Format:

Book

Database & Article Index

Contributor:

Ranganathan, Shoba.

Cannataro, Mario.

Asif Khan, Mohammad.

Series:

Encyclopedia of bioinformatics and computational biology

Language:

English

Subjects (All):

Bioinformatics--Encyclopedias.

Bioinformatics.

Computational biology--Encyclopedias.

Computational biology.

Physical Description:

1 online resource (6 volumes) illustrations (chiefly color), charts.

Edition:

2nd edition.

Place of Publication:

Amsterdam : Elsevier, 2025.

Summary:

"Bioinformatics and Computational Biology (BCB) combine elements of computer science, information technology, mathematics, statistics, and biotechnology, providing the methodology and in silico solutions to mine biological data and processes, for knowledge discovery. In the era of molecular diagnostics, targeted drug design, translational medicine and Big Data for personalized medicine, computational methods for data analysis are essential tools for biochemistry, biology, biotechnology, pharmacology, biomedical and computer science, as well as mathematics and statistics. New areas are emerging, and relatively isolated fields are becoming current hot research areas in BCB, such as Artificial Intelligence, Quantitative Biology, Computational Vaccinology, Epidemiology and Infection Diffusion, Synthetic Biology, and Phenomics. The role of BCB in characterizing SARS-CoV-2 variants and facing the COVID-19 pandemic is just one example of how these tools can help us better prepare for such future events."-- Provided by the publisher.

Contents:

E978032395502701

Cover

ENCYCLOPEDIA OF BIOINFORMATICS ANDCOMPUTATIONAL BIOLOGY

CONTENTS OF VOLUME 1

LIST OF CONTRIBUTORS FOR VOLUME 1

EDITOR BIOGRAPHIES

PREFACE

Introduction to Methods Section

Algorithms Foundations

Key Points

Introduction

Algorithms and Their Complexity

Iterative Algorithms

Recursive Algorithms: Divide and Conquer

Data Structures

Examples: Arrays and Trees

Heap: a tree-based data structure

Heapsort

Dictionaries

Data Structures in Bioinformatics

Closing Remarks

References

Techniques for Designing Bioinformatics Algorithms

Exhaustive Search

Decrease and Conquer

Transform and Conquer

Divide and Conquer

Randomized Algorithms

Dynamic Programming

Backtracking and Branch-and-Bound

Greedy Algorithms

Conclusion

References

Algorithms for High Utility Pattern Mining

Background

Approaches for HUPM and its Variants

Algorithms for HUPM

Two-phase algorithms

One-phase algorithms

Variants of the classical HUPM problem

Extending HUPM

Extended Models for HUPM

Application of the Extended Model to a Biomedical Context

Acknowledgment

Algorithms for Strings and Sequences: Pairwise Alignment

Methodologies

Global Alignment

Local Alignment

Extension to Affine gap Model

Scoring Functions

Algorithm Implementations

Further Reading

Algorithms for Strings and Sequences: Multiple Alignment

Multiple Sequence Alignment Algorithms

Tools for Multiple Sequence Alignment

Conclusion

Algorithms for Structure Comparison and Analysis: Prediction of Structures of Proteins

Introduction of the Topic

Milestones of Protein Structure Prediction Before AI: Review of the Literature

Prediction of Secondary Structures of the Proteins

Prediction of Tertiary Structures of the Proteins

Deep Learning: The Tale of the "Game Changer" in the Field of Protein Structure Prediction

State-of-the-Art of the Topic

Prospect and Challenges

Relevant Websites

Ab initio Protein Structure Prediction

Physics-based functions

Knowledge-based functions

Physics and knowledge-based integrated functions

Conformation Sampling

Automation of Ab initio Structure Prediction

Rosetta

QUARK

TOUCHSTONE

Bhageerath

ASTRO-FOLD

RaptorX-FM

RM2TS

UniCon3D

Accuracy Measures for Comparing Structures

Root Mean Square Deviation (RMSD)

Global Distance Test (GDT) Score

Notes:

Title from online title page (viewed on April 21, 2025).

Template Modeling (TM) Score

Other Format:

Print version: Ranganathan, Shoba Encyclopedia of Bioinformatics and Computational Biology

ISBN:

9780323955034

0323955037

OCLC:

1512320301

Access Restriction:

Restricted for use by site license.