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Algorithms for Computational Biology

8th International Conference, AlCoB 2021, Missoula, MT, USA, June 7–11, 2021, Proceedings

  • Conference proceedings
  • © 2021

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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    You can also search for this editor in PubMed   Google Scholar

Part of the book series: Lecture Notes in Computer Science (LNCS, volume 12715)

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

Included in the following conference series:

Conference proceedings info: AlCoB 2021.

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Table of contents (12 papers)

  1. Front Matter

    Pages i-x
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  2. Biological Dynamical Systems and Other Biological Processes

    1. Front Matter

      Pages 1-1
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    2. Learning Molecular Classes from Small Numbers of Positive Examples Using Graph Grammars

      • Ernst Althaus, Andreas Hildebrandt, Domenico Mosca
      Pages 3-15

    3. Can We Replace Reads by Numeric Signatures? Lyndon Fingerprints as Representations of Sequencing Reads for Machine Learning

      • Paola Bonizzoni, Clelia De Felice, Alessia Petescia, Yuri Pirola, Raffaella Rizzi, Jens Stoye et al.
      Pages 16-28

    4. Exploiting Variable Sparsity in Computing Equilibria of Biological Dynamical Systems by Triangular Decomposition

      • Wenwen Ju, Chenqi Mou
      Pages 29-41

    5. A Recovery Algorithm and Pooling Designs for One-Stage Noisy Group Testing Under the Probabilistic Framework

      • Yining Liu, Sachin Kadyan, Itsik Pe’er
      Pages 42-53

  3. Phylogenetics

    1. Front Matter

      Pages 55-55
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    2. Novel Phylogenetic Network Distances Based on Cherry Picking

      • Kaari Landry, Aivee Teodocio, Manuel Lafond, Olivier Tremblay-Savard
      Pages 57-81

    3. Best Match Graphs with Binary Trees

      • David Schaller, Manuela Geiß, Marc Hellmuth, Peter F. Stadler
      Pages 82-93

    4. Scalable and Accurate Phylogenetic Placement Using pplacer-XR

      • Eleanor Wedell, Yirong Cai, Tandy Warnow
      Pages 94-105

    5. Comparing Methods for Species Tree Estimation with Gene Duplication and Loss

      • James Willson, Mrinmoy Saha Roddur, Tandy Warnow
      Pages 106-117

  4. Sequence Alignment and Genome Rearrangement

    1. Front Matter

      Pages 119-119
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    2. Reversal Distance on Genomes with Different Gene Content and Intergenic Regions Information

      • Alexsandro Oliveira Alexandrino, Klairton Lima Brito, Andre Rodrigues Oliveira, Ulisses Dias, Zanoni Dias
      Pages 121-133

    3. Reversals Distance Considering Flexible Intergenic Regions Sizes

      • Klairton Lima Brito, Alexsandro Oliveira Alexandrino, Andre Rodrigues Oliveira, Ulisses Dias, Zanoni Dias
      Pages 134-145

    4. Improved DNA-versus-Protein Homology Search for Protein Fossils

      • Yin Yao, Martin C. Frith
      Pages 146-158

    5. The Maximum Weight Trace Alignment Merging Problem

      • Paul Zaharias, Vladimir Smirnov, Tandy Warnow
      Pages 159-171

  5. Back Matter

    Pages 173-173
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Other volumes

  1. Algorithms for Computational Biology

Keywords

About this book

This book constitutes the proceedings of the 8th International Conference on Algorithms for Computational Biology, AlCoB 2020, was planned to be held in Missoula, MT, USA in June 2021. Due to the Covid-19 pandemic, AlCoB 2020 and AlCoB 2021 were merged and held on these dates together. AlCoB 2020 proceedings were published as LNBI 12099.

The 12 full papers included in this volume were carefully reviewed and selected from 22 submissions. They were organized in topical sections on genomics, phylogenetics, and RNA-Seq and other biological processes.

The scope of AlCoB includes topics of either theoretical or applied interest, namely: sequence analysis; sequence alignment; sequence assembly; genome rearrangement; regulatory motif finding; phylogeny reconstruction; phylogeny comparison; structure prediction; compressive genomics; proteomics: molecular pathways, interaction networks, mass spectrometry analysis; transcriptomics: splicing variants, isoform inference and quantification, differential analysis; next-generation sequencing: population genomics, metagenomics, metatranscriptomics, epigenomics; genome CD architecture; microbiome analysis; cancer computational biology; and systems biology.

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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