Observatorio de I+D+i UPM

Memorias de investigación
Research Publications in journals:
Reconstructing evolutionary trees in parallel for massive sequences
Year:2017
Research Areas
  • Computational biology
Information
Abstract
Building the evolutionary trees for massive unaligned DNA sequences is challenging and crucial. However, reconstructing evolutionary tree for ultra-large sequences is hard. Massive multiple sequence alignment is also challenging and time/space consuming. Hadoop and Spark are developed recently, which bring spring light for the classical computational biology problems. In this paper, we tried to solve the multiple sequence alignment and evolutionary reconstruction in parallel. HPTree, which is developed in this paper, can deal with big DNA sequence files quickly. It works well on the> 1GB files, and gets better performance than other evolutionary reconstruction tools. Users could use HPTree for reonstructing evolutioanry trees on the computer clusters or cloud platform (eg. Amazon Cloud). HPTree could help on population evolution research and metagenomics analysis....
International
Si
JCR
Si
Title
Bmc Systems Biology
ISBN
1752-0509
Impact factor JCR
2,303
Impact info
Volume
Journal number
From page
15
To page
88
Month
SIN MES
Ranking
Participants
  • Autor: Quan Zou
  • Autor: Shixian Wan
  • Autor: Zhansham Sam Ma
  • Autor: Xiangxiang Zeng (UPM)
Research Group, Departaments and Institutes related
  • Creador: Grupo de Investigación: Grupo de Inteligencia Artificial (LIA)
  • Departamento: Inteligencia Artificial
S2i 2020 Observatorio de investigación @ UPM con la colaboración del Consejo Social UPM
Cofinanciación del MINECO en el marco del Programa INNCIDE 2011 (OTR-2011-0236)
Cofinanciación del MINECO en el marco del Programa INNPACTO (IPT-020000-2010-22)