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Recent Sequencing-Related Papers of Note: May 27, 2014


Graphene sculpturene nanopores for DNA nucleobase sensing.
Sadeghi H, Algharagholy LA, Pope T, Bailey SW, et al.
J Phys Chem B. 2014 May 21. [Epub ahead of print]

Draft sequences of the radish (Raphanus sativus L.) genome.
Kitashiba H, Li F, Hirakawa H, Kawanabe T, et al.
DNA Res. 2014 May 16. [Epub ahead of print]

Precise estimates of mutation rate and spectrum in yeast.
Zhu YO, Siegal ML, Hall DW, Petrov DA.
Proc Natl Acad Sci U S A. 2014 May 20. [Epub ahead of print]

Microbial community profiling of human saliva using shotgun metagenomic sequencing.
Hasan NA, Young BA, Minard-Smith AT, Saeed K, et al.
PLOS One. 2014 May 20;9(5):e97699.

Exploration and retrieval of whole-metagenome sequencing samples.
Seth S, Välimäki N, Kaski S, Honkela A.
Bioinformatics. 2014 May 19. [Epub ahead of print]

CLImAT: accurate detection of copy number alteration and loss of heterozygosity in impure and aneuploid tumor samples using whole-genome sequencing data.
Yu Z, Liu Y, Shen Y, Wang M, Li A.
Bioinformatics. 2014 May 19. [Epub ahead of print]

SparkSeq: fast, scalable, cloud-ready tool for the interactive genomic data analysis with nucleotide precision.
Wiewiórka MS, Messina A, Pacholewska A, Maffioletti S, et al.
Bioinformatics. 2014 May 19. [Epub ahead of print]

Molecular traces of alternative social organization in a termite genome.
Terrapon N, Li C, Robertson HM, Ji L4, Meng X, et al.
Nat Commun. 2014 May 20;5:3636.

GPU-BSM: A GPU-based tool to map bisulfite-treated reads.
Manconi A, Orro A, Manca E, Armano G, Milanesi L.
PLOS One. 2014 May 19;9(5):e97277.

HIV-1 Quasispecies delineation by tag linkage deep sequencing.
Wu NC, De La Cruz J, Al-Mawsawi LQ, Olson CA, et al.
PLOS One. 2014 May 19;9(5):e97505.

Fast assembly of the mitochondrial genome of a plant parasitic nematode (Meloidogyne graminicola) using next generation sequencing.
Besnard G, Jühling F, Chapuis E, Zedane L, et al.
C R Biol. 2014 May;337(5):295-301.

Direct, concurrent measurements of the forces and currents affecting DNA in a nanopore with comparable topography.
Nelson EM, Li H, Timp G.
ACS Nano. 2014 May 19. [Epub ahead of print]