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Recent Sequencing-Related Papers of Note: Jul 8, 2014


Evaluation of the Ion Torrent HID SNP 169-plex: A SNP typing assay developed for human identification by second generation sequencing.
Børsting C, Fordyce SL, Olofsson J, Mogensen HS, Morling N.
Forensic Sci Int Genet. 2014 Jun 14. [Epub ahead of print]

Next generation sequencing gives an insight into the characteristics of highly selected breeds versus non-breed horses in the course of domestication.
Metzger J, Tonda R, Beltran S, Agueda L, et al.
BMC Genomics. 2014 Jul 4;15(1):562.

Unforeseen consequences of excluding missing data from next-generation sequences: simulation study of RAD sequences.
Huang H, Knowles LL.
Syst Biol. 2014 Jul 4. [Epub ahead of print]

Low incidence of off-target mutations in individual CRISPR-Cas9 and TALEN targeted human stem cell clones detected by whole-genome sequencing.
Veres A, Gosis BS, Ding Q, Collins R, et al.
Cell Stem Cell. 2014 Jul 3;15(1):27-30.

Whole-genome sequencing analysis reveals high specificity of CRISPR/Cas9 and TALEN-based genome editing in human iPSCs.
Smith C, Gore A, Yan W, Abalde-Atristain L, et al.
Cell Stem Cell. 2014 Jul 3;15(1):12-3.

Targeted gene correction minimally impacts whole-genome mutational load in human-disease-specific induced pluripotent stem cell clones.
Suzuki K, Yu C, Qu J, Li M, et al.
Cell Stem Cell. 2014 Jul 3;15(1):31-6.

Exome sequencing from nanogram amounts of starting DNA: comparing three approaches.
Rykalina VN, Shadrin AA, Amstislavskiy VS, Rogaev EI, et al.
PLOS One. 2014 Jul 3;9(7):e101154.

Assessment of the impact of using a reference transcriptome in mapping short RNA-seq reads.
Zhao S.
PLOS One. 2014 Jul 3;9(7):e101374.

Whole-genome analyses of Korean native and Holstein cattle breeds by massively parallel sequencing.
Choi JW, Liao X, Stothard P, Chung WH, et al.
PLOS One. 2014 Jul 3;9(7):e101127.

Genetic analysis of hair samples attributed to yeti, bigfoot and other anomalous primates.
Sykes BC, Mullis RA, Hagenmuller C, Melton TW, Sartori M.
Proc Biol Sci. 2014 Aug 22;281(1789).

Detecting DNA depurination with solid-state nanopores.
Marshall MM, Ruzicka JA, Taylor EW, Hall AR.
PLOS One. 2014 Jul 2;9(7):e101632.

Joint assembly and genetic mapping of the Atlantic horseshoe crab genome reveals ancient whole genome duplication.
Nossa CW, Havlak P, Yue JX, Lv J, et al.
Gigascience. 2014 May 14;3:9.

Microsatellite instability detection by next generation sequencing.
Salipante SJ, Scroggins SM, Hampel HL, Turner EH, Pritchard CC.
Clin Chem. 2014 Jun 30. [Epub ahead of print]

Pathway analysis with next-generation sequencing data.
Zhao J, Zhu Y, Boerwinkle E, Xiong M.
Eur J Hum Genet. 2014 Jul 2. [Epub ahead of print]

Characterization of ancient DNA supports long-term survival of Haloarchaea.
Sankaranarayanan K, Lowenstein TK, Timofeeff MN, Schubert BA, Lum JK.
Astrobiology. 2014 Jun 30. [Epub ahead of print]

Whole-genome sequence variation, population structure and demographic history of the Dutch population.
The Genome of the Netherlands Consortium, Francioli LC, Menelaou A, et al.
Nat Genet. 2014 Jun 29. [Epub ahead of print]

COSMOS: Python library for massively parallel workflows.
Gafni E, Luquette LJ, Lancaster AK, Hawkins JB, et al.
Bioinformatics. 2014 Jun 30. [Epub ahead of print]

IVT-seq reveals extreme bias in RNA-sequencing.
Lahens NF, Kavakli IH, Zhang R, Hayer K, et al.
Genome Biol. 2014 Jun 30;15(6):R86.