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Algorithms for Computational Biology

7th International Conference, AlCoB 2020, Missoula, MT, USA, April 13–15, 2020, Proceedings

  • Conference proceedings
  • © 2020

Overview

Editors:
  1. Carlos Martín-Vide

    1. Rovira i Virgili University, Tarragona, Spain

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    You can also search for this editor in PubMed   Google Scholar

  2. Miguel A. Vega-Rodríguez

    1. University of Extremadura, Cáceres, Spain

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    You can also search for this editor in PubMed   Google Scholar

  3. Travis Wheeler

    1. University of Montana, Missoula, USA

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Part of the book series: Lecture Notes in Computer Science (LNCS, volume 12099)

Part of the book sub series: Lecture Notes in Bioinformatics (LNBI)

Included in the following conference series:

Conference proceedings info: AlCoB 2020.

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Table of contents (15 papers)

  1. Front Matter

    Pages i-xviii
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  2. Genomics

    1. Front Matter

      Pages 1-1
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    2. Parallel Generalized Suffix Tree Construction for Genomic Data

      • Md Momin Al Aziz, Parimala Thulasiraman, Noman Mohammed
      Pages 3-15

    3. A 3.5-Approximation Algorithm for Sorting by Intergenic Transpositions

      • Andre Rodrigues Oliveira, Géraldine Jean, Guillaume Fertin, Klairton Lima Brito, Ulisses Dias, Zanoni Dias
      Pages 16-28

    4. Heuristics for Reversal Distance Between Genomes with Duplicated Genes

      • Gabriel Siqueira, Klairton Lima Brito, Ulisses Dias, Zanoni Dias
      Pages 29-40

    5. Extending Maximal Perfect Haplotype Blocks to the Realm of Pangenomics

      • Lucia Williams, Brendan Mumey
      Pages 41-48

    6. Gaps and Runs in Syntenic Alignments

      • Zhe Yu, Chunfang Zheng, David Sankoff
      Pages 49-60

  3. Phylogenetics

    1. Front Matter

      Pages 61-61
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    2. Comparing Integer Linear Programming to SAT-Solving for Hard Problems in Computational and Systems Biology

      • Hannah Brown, Lei Zuo, Dan Gusfield
      Pages 63-76

    3. Combining Networks Using Cherry Picking Sequences

      • Remie Janssen, Mark Jones, Yukihiro Murakami
      Pages 77-92

    4. Linear Time Algorithm for Tree-Child Network Containment

      • Remie Janssen, Yukihiro Murakami
      Pages 93-107

    5. PathOGiST: A Novel Method for Clustering Pathogen Isolates by Combining Multiple Genotyping Signals

      • Mohsen Katebi, Pedro Feijao, Julius Booth, Mehrdad Mansouri, Sean La, Alex Sweeten et al.
      Pages 108-124

    6. TreeSolve: Rapid Error-Correction of Microbial Gene Trees

      • Misagh Kordi, Mukul S. Bansal
      Pages 125-139

  4. RNA-Seq and Other Biological Processes

    1. Front Matter

      Pages 141-141
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    2. Time Series Adjustment Enhancement of Hierarchical Modeling of Arabidopsis Thaliana Gene Interactions

      • Edward E. Allen, John Farrell, Alexandria F. Harkey, David J. John, Gloria Muday, James L. Norris et al.
      Pages 143-154

    3. BESTox: A Convolutional Neural Network Regression Model Based on Binary-Encoded SMILES for Acute Oral Toxicity Prediction of Chemical Compounds

      • Jiarui Chen, Hong-Hin Cheong, Shirley Weng In Siu
      Pages 155-166

    4. Stratified Test Alleviates Batch Effects in Single-Cell Data

      • Shaoheng Liang, Qingnan Liang, Rui Chen, Ken Chen
      Pages 167-177

    5. A Topological Data Analysis Approach on Predicting Phenotypes from Gene Expression Data

      • Sayan Mandal, Aldo Guzmán-Sáenz, Niina Haiminen, Saugata Basu, Laxmi Parida
      Pages 178-187

    6. BOAssembler: A Bayesian Optimization Framework to Improve RNA-Seq Assembly Performance

      • Shunfu Mao, Yihan Jiang, Edwin Basil Mathew, Sreeram Kannan
      Pages 188-197

  5. Back Matter

    Pages 199-199
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Other volumes

  1. Algorithms for Computational Biology

Keywords

About this book

This book constitutes the proceedings of the 7th International Conference on Algorithms for Computational Biology, AlCoB 2020, was planned to be held in Missoula, MT, USA in April 2020. Due to the corona pandemic the conference was postponed to be held together with AlCoB 2021.
The 15 full papers included in this volume were carefully reviewed and selected from 24 submissions. They were organized in topical sections on genomics, phylogenetics, and RNA-Seq and other biological processes. 

Editors and Affiliations

  • Rovira i Virgili University, Tarragona, Spain

    Carlos Martín-Vide

  • University of Extremadura, Cáceres, Spain

    Miguel A. Vega-Rodríguez

  • University of Montana, Missoula, USA

    Travis Wheeler

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