Algebraic and Combinatorial Computational Biology - 1st Edition - ISBN: 9780128140666

Algebraic and Combinatorial Computational Biology

1st Edition

Editors: Raina Robeva Matthew Macauley
Paperback ISBN: 9780128140666
Imprint: Academic Press
Published Date: 1st August 2018
Page Count: 300
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Algebraic and Combinatorial Computational Biology introduces students and researchers to a panorama of powerful and current methods for mathematical problem-solving in modern computational biology. Presented in a modular format, each topic introduces the biological foundations of the field, covers specialized mathematical theory, and concludes by highlighting connections with ongoing research, particularly open questions. The work addresses problems from signaling, gene regulation, genomics, RNA folding, infectious disease dynamics, drug resistance modeling, phylogenetics, neuroscience, and ecological networks. Supporting online supplements are provided to aid instruction and provide practical experience with the material.

Key Features

  • Integrates a comprehensive selection of tools from computational biology into education or research programs
  • Emphasizes practical problem-solving through multiple exercises, projects and spinoff computational simulations
  • Contains scalable material for graduate classes and project use
  • Supported by illustrative datasets and adaptable MATLAB computer code


Upper division undergraduate and graduate students. Early career researchers in biology or mathematics, particularly those transitioning into the field of mathematical and computational biology. Some practitioners seeking a methods-based primer for the field

Table of Contents

1. DNA nanostructures: Mathematical design and problem encoding
2. Understanding DNA rearrangements: Graphs and polynomials
3. Multi-scale graph-theoretic modeling of bimolecular structures
4. Toward revealing protein function: Identifying biologically relevant clusters with graph spectral methods
5. Multistationarity in biochemical networks: Results, analysis, and examples
6. Regulation of gene expression by operons: Boolean, logical, and local models
7. Modeling the stochastic nature of gene regulation: probabilistic Boolean networks
8. Inferring interactions in molecular networks via primary decompositions of monomial ideals
9. Analysis of combinatorial neural codes: an algebraic approach
10. Predicting neural network dynamics: insights from graph theory
11. Clustering via self-organizing maps on biology and medicine
12. Optimization problems in phylogenetics: Polytopes, programming and interpretation
13. The relative accuracy of SVDquartets on simulated data with varying model conditions: connecting algebraic statistics to data analysis


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© Academic Press 2018
Academic Press
Paperback ISBN:

About the Editor

Raina Robeva

Raina Robeva

Raina Robeva was born in Sofia, Bulgaria. She has a PhD in Mathematics from the University of Virginia and has led multiple NSF-funded curriculum development projects at the interface of mathematics and biology. She is the lead author of the textbook An Invitation to Biomathematics (2008) and the lead editor of the volume Mathematical Concepts and Methods in Modern Biology: Using Modern Discrete Models (2013), both published by Academic Press. Robeva is the founding Chief Editor of the research journal Frontiers in Systems Biology. She is a professor of Mathematical Sciences at Sweet Briar College and lives in Charlottesville, Virginia.

Affiliations and Expertise

Professor of Mathematical Sciences, Sweet Briar College, Sweet Briar, VA, USA

Matthew Macauley

After getting a PhD in mathematics from the University of California, Santa Barbara, Macauley has been a research visitor at both the Biocomplexity Institute of Virginia Tech and the Institute for Systems Biology in Seattle. He has graduated two PhD and four MS students, and has advised a number of undergraduate research students. With Raina Robeva, he has co-organized three workshops on teaching discrete and algebraic mathematical biology to undergraduates.

Affiliations and Expertise

Associate professor, Clemson University, SC

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