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DOI: 10.4230/LIPIcs.APPROX-RANDOM.2015.931

Distance-based Species Tree Estimation: Information-Theoretic Trade-off between Number of Loci and Sequence Length under the Coalescent

Authors: Elchanan Mossel and Sebastien Roch

Published in: LIPIcs, Volume 40, Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2015)

Abstract

We consider the reconstruction of a phylogeny from multiple genes under the multispecies coalescent. We establish a connection with the sparse signal detection problem, where one seeks to distinguish between a distribution and a mixture of the distribution and a sparse signal. Using this connection, we derive an information-theoretic trade-off between the number of genes needed for an accurate reconstruction and the sequence length of the genes.

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Elchanan Mossel and Sebastien Roch. Distance-based Species Tree Estimation: Information-Theoretic Trade-off between Number of Loci and Sequence Length under the Coalescent. In Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2015). Leibniz International Proceedings in Informatics (LIPIcs), Volume 40, pp. 931-942, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2015)

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@InProceedings{mossel_et_al:LIPIcs.APPROX-RANDOM.2015.931,
  author =	{Mossel, Elchanan and Roch, Sebastien},
  title =	{{Distance-based Species Tree Estimation: Information-Theoretic Trade-off between Number of Loci and Sequence Length under the Coalescent}},
  booktitle =	{Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2015)},
  pages =	{931--942},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-939897-89-7},
  ISSN =	{1868-8969},
  year =	{2015},
  volume =	{40},
  editor =	{Garg, Naveen and Jansen, Klaus and Rao, Anup and Rolim, Jos\'{e} D. P.},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.APPROX-RANDOM.2015.931},
  URN =		{urn:nbn:de:0030-drops-53455},
  doi =		{10.4230/LIPIcs.APPROX-RANDOM.2015.931},
  annote =	{Keywords: phylogenetic reconstruction, multispecies coalescent, sequence length requirement.}
}

@InProceedings{mossel_et_al:LIPIcs.APPROX-RANDOM.2015.931,
  author =	{Mossel, Elchanan and Roch, Sebastien},
  title =	{{Distance-based Species Tree Estimation: Information-Theoretic Trade-off between Number of Loci and Sequence Length under the Coalescent}},
  booktitle =	{Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2015)},
  pages =	{931--942},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-939897-89-7},
  ISSN =	{1868-8969},
  year =	{2015},
  volume =	{40},
  editor =	{Garg, Naveen and Jansen, Klaus and Rao, Anup and Rolim, Jos\'{e} D. P.},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.APPROX-RANDOM.2015.931},
  URN =		{urn:nbn:de:0030-drops-53455},
  doi =		{10.4230/LIPIcs.APPROX-RANDOM.2015.931},
  annote =	{Keywords: phylogenetic reconstruction, multispecies coalescent, sequence length requirement.}
}

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Distance-based Species Tree Estimation: Information-Theoretic Trade-off between Number of Loci and Sequence Length under the Coalescent

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