Standard
Metagenomic species profiling using universal phylogenetic marker genes. / Sunagawa, Shinichi; Mende, Daniel R.; Zeller, Georg; Izquierdo-Carrasco, Fernando; Berger, Simon A.; Kultima, Jens Roat; Coelho, Luis Pedro; Arumugam, Manimozhiyan; Tap, Julien; Nielsen, Henrik Bjørn; Rasmussen, Simon; Brunak, Søren; Pedersen, Oluf Borbye; Guarner, Francisco; de Vos, Willem M; Wang, Jun; Li, Junhua; Doré, Joël; Ehrlich, S Dusko; Stamatakis, Alexandros; Bork, Peer.
In:
Nature Methods, Vol. 10, No. 12, 2013, p. 1196-1199.
Research output: Contribution to journal › Journal article › Research › peer-review
Harvard
Sunagawa, S, Mende, DR, Zeller, G, Izquierdo-Carrasco, F, Berger, SA, Kultima, JR, Coelho, LP
, Arumugam, M, Tap, J, Nielsen, HB
, Rasmussen, S, Brunak, S
, Pedersen, OB, Guarner, F, de Vos, WM, Wang, J, Li, J, Doré, J, Ehrlich, SD, Stamatakis, A & Bork, P 2013, '
Metagenomic species profiling using universal phylogenetic marker genes',
Nature Methods, vol. 10, no. 12, pp. 1196-1199.
https://doi.org/10.1038/nmeth.2693APA
Sunagawa, S., Mende, D. R., Zeller, G., Izquierdo-Carrasco, F., Berger, S. A., Kultima, J. R., Coelho, L. P.
, Arumugam, M., Tap, J., Nielsen, H. B.
, Rasmussen, S., Brunak, S.
, Pedersen, O. B., Guarner, F., de Vos, W. M., Wang, J., Li, J., Doré, J., Ehrlich, S. D., ... Bork, P. (2013).
Metagenomic species profiling using universal phylogenetic marker genes.
Nature Methods,
10(12), 1196-1199.
https://doi.org/10.1038/nmeth.2693Vancouver
Sunagawa S, Mende DR, Zeller G, Izquierdo-Carrasco F, Berger SA, Kultima JR et al.
Metagenomic species profiling using universal phylogenetic marker genes.
Nature Methods. 2013;10(12):1196-1199.
https://doi.org/10.1038/nmeth.2693Author
Sunagawa, Shinichi ; Mende, Daniel R. ; Zeller, Georg ; Izquierdo-Carrasco, Fernando ; Berger, Simon A. ; Kultima, Jens Roat ; Coelho, Luis Pedro ; Arumugam, Manimozhiyan ; Tap, Julien ; Nielsen, Henrik Bjørn ; Rasmussen, Simon ; Brunak, Søren ; Pedersen, Oluf Borbye ; Guarner, Francisco ; de Vos, Willem M ; Wang, Jun ; Li, Junhua ; Doré, Joël ; Ehrlich, S Dusko ; Stamatakis, Alexandros ; Bork, Peer. / Metagenomic species profiling using universal phylogenetic marker genes. In: Nature Methods. 2013 ; Vol. 10, No. 12. pp. 1196-1199.
Bibtex
@article{ed0dc31576374798a99926ed797ec1b9,
title = "Metagenomic species profiling using universal phylogenetic marker genes",
abstract = "To quantify known and unknown microorganisms at species-level resolution using shotgun sequencing data, we developed a method that establishes metagenomic operational taxonomic units (mOTUs) based on single-copy phylogenetic marker genes. Applied to 252 human fecal samples, the method revealed that on average 43% of the species abundance and 58% of the richness cannot be captured by current reference genome-based methods. An implementation of the method is available at http://www.bork.embl.de/software/mOTU/.",
author = "Shinichi Sunagawa and Mende, {Daniel R.} and Georg Zeller and Fernando Izquierdo-Carrasco and Berger, {Simon A.} and Kultima, {Jens Roat} and Coelho, {Luis Pedro} and Manimozhiyan Arumugam and Julien Tap and Nielsen, {Henrik Bj{\o}rn} and Simon Rasmussen and S{\o}ren Brunak and Pedersen, {Oluf Borbye} and Francisco Guarner and {de Vos}, {Willem M} and Jun Wang and Junhua Li and Jo{\"e}l Dor{\'e} and Ehrlich, {S Dusko} and Alexandros Stamatakis and Peer Bork",
year = "2013",
doi = "10.1038/nmeth.2693",
language = "English",
volume = "10",
pages = "1196--1199",
journal = "Nature Methods",
issn = "1548-7091",
publisher = "nature publishing group",
number = "12",
}
RIS
TY - JOUR
T1 - Metagenomic species profiling using universal phylogenetic marker genes
AU - Sunagawa, Shinichi
AU - Mende, Daniel R.
AU - Zeller, Georg
AU - Izquierdo-Carrasco, Fernando
AU - Berger, Simon A.
AU - Kultima, Jens Roat
AU - Coelho, Luis Pedro
AU - Arumugam, Manimozhiyan
AU - Tap, Julien
AU - Nielsen, Henrik Bjørn
AU - Rasmussen, Simon
AU - Brunak, Søren
AU - Pedersen, Oluf Borbye
AU - Guarner, Francisco
AU - de Vos, Willem M
AU - Wang, Jun
AU - Li, Junhua
AU - Doré, Joël
AU - Ehrlich, S Dusko
AU - Stamatakis, Alexandros
AU - Bork, Peer
PY - 2013
Y1 - 2013
N2 - To quantify known and unknown microorganisms at species-level resolution using shotgun sequencing data, we developed a method that establishes metagenomic operational taxonomic units (mOTUs) based on single-copy phylogenetic marker genes. Applied to 252 human fecal samples, the method revealed that on average 43% of the species abundance and 58% of the richness cannot be captured by current reference genome-based methods. An implementation of the method is available at http://www.bork.embl.de/software/mOTU/.
AB - To quantify known and unknown microorganisms at species-level resolution using shotgun sequencing data, we developed a method that establishes metagenomic operational taxonomic units (mOTUs) based on single-copy phylogenetic marker genes. Applied to 252 human fecal samples, the method revealed that on average 43% of the species abundance and 58% of the richness cannot be captured by current reference genome-based methods. An implementation of the method is available at http://www.bork.embl.de/software/mOTU/.
U2 - 10.1038/nmeth.2693
DO - 10.1038/nmeth.2693
M3 - Journal article
C2 - 24141494
VL - 10
SP - 1196
EP - 1199
JO - Nature Methods
JF - Nature Methods
SN - 1548-7091
IS - 12
ER -
