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In Print: Last Week's Sequencing-Related Papers of Note: May 14, 2013

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iFUSE: integrated FUSion gene Explorer.
Hiltemann S, McClellan EA, van Nijnatten J, Horsman S, et al.
Bioinformatics. 2013 May 9. [Epub ahead of print]


Adaptive reference-free compression of sequence quality scores.
Janin L, Rosone G, Cox AJ.
Bioinformatics. 2013 May 9. [Epub ahead of print]


Reconstructing mitochondrial genomes directly from genomic next-generation sequencing reads−a baiting and iterative mapping approach.
Hahn C, Bachmann L, Chevreux B.
Nucleic Acids Res. 2013 May 9. [Epub ahead of print]


FACS purification of Drosophila larval neuroblasts for next-generation sequencing.
Harzer H, Berger C, Conder R, Schmauss G, Knoblich JA.
Nat Protoc. 2013 May 9;8(6):1088-99.


Quantitatively different, yet qualitatively alike: a meta-analysis of the mouse core gut microbiome with a view towards the human gut microbiome.
Krych L, Hansen CH, Hansen AK, van den Berg FW, Nielsen DS.
PLoS One. 2013 May 1;8(5):e62578.


Detection of significantly differentially methylated regions in targeted bisulfite sequencing data.
Hebestreit K, Dugas M, Klein HU.
Bioinformatics. 2013 May 8. [Epub ahead of print]


TrioVis: a visualisation approach for filtering genomic variants of parent-child trios.
Sakai R, Sifrim A, Vande Moere A, Aerts J.
Bioinformatics. 2013 May 8. [Epub ahead of print]


Reprever: resolving low-copy duplicated sequences using template driven assembly.
Kim S, Medvedev P, Paton TA, Bafna V.
Nucleic Acids Res. 2013 May 8. [Epub ahead of print]


Ancient DNA complements microfossil record in deep-sea subsurface sediments.
Lejzerowicz F, Esling P, Majewski W, Szczucinski W, et al.
Biol Lett. 2013 May 8;9(4):20130283.


Existence of G-quadruplex structures in promoter region of oncogenes confirmed by G-quadruplex DNA cross-linking strategy.
Yuan L, Tian T, Chen Y, Yan S, et al.
Sci Rep. 2013 May 9;3:1811.


DDBJ read annotation pipeline: a cloud computing-based pipeline for high-throughput analysis of next-generation sequencing data.
Nagasaki H, Mochizuki T, Kodama Y, Saruhashi S, et al.
DNA Res. 2013 May 8. [Epub ahead of print]


Discovering chromatin motifs using FAIRE sequencing and the human diploid genome.
Yang CC, Buck MJ, Chen MH, Chen YF, et al.
BMC Genomics. 2013 May 8;14(1):310.


G-quadruplex structures are stable and detectable in human genomic DNA.
Lam EY, Beraldi D, Tannahill D, Balasubramanian S.
Nat Commun. 2013;4:1796.


Physical mapping of 20 unmapped fragments of the Btau_4.0 genome assembly in cattle, sheep and river buffalo.
De Lorenzi L, Genualdo V, Perucatti A, Iannuzzi A, et al.
Cytogenet Genome Res. 2013 May 3:29-35.


Gene-based single nucleotide polymorphism discovery in bovine muscle using next-generation transcriptomic sequencing.
Djari A, Esquerré D, Weiss B, Martins F, et al.
BMC Genomics. 2013 May 7;14(1):307.


CLUSTOM: a novel method for clustering 16S rRNA next generation sequences by overlap minimization.
Hwang K, Oh J, Kim TK, Kim BK, et al.
PLoS One. 2013 May 1;8(5):e62623.


Complex history of the amphibian-killing chytrid fungus revealed with genome resequencing data.
Rosenblum EB, James TY, Zamudio KR, Poorten TJ, et al.
Proc Natl Acad Sci U S A. 2013 May 6. [Epub ahead of print]


Evolution of the plankton paleome in the Black Sea from the Deglacial to Anthropocene.
Coolen MJ, Orsi WD, Balkema C, Quince C, et al.
Proc Natl Acad Sci U S A. 2013 May 6. [Epub ahead of print]


Pathway-based approaches for sequencing-based genome-wide association studies.
Wu G, Zhi D.
Genet Epidemiol. 2013 May 5. [Epub ahead of print]


Pathway-based approaches for sequencing-based genome-wide association studies.
Wu G, Zhi D.
Genet Epidemiol. 2013 May 5. [Epub ahead of print]


Reducing sequence artifacts in amplicon-based massively parallel sequencing of formalin-fixed paraffin-embedded DNA by enzymatic depletion of uracil-containing templates.
Do H, Wong SQ, Li J, Dobrovic A.
Clin Chem. 2013 May 6. [Epub ahead of print]

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