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In Print: Last Week's Sequencing-Related Papers of Note: Mar 13, 2012


Methylome analysis using MeDIP-seq with low DNA concentrations.
Taiwo O, Wilson GA, Morris T, Seisenberger S, et al.
Nat Protoc. 2012 Mar 8;7(4):617-36.

YOABS: Yet Other Aligner of Biological Sequences — an efficient linearly scaling nucleotide aligner.
Galinsky V.
Bioinformatics. 2012 Mar 7. [Epub ahead of print]

Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms.
Caporaso JG, Lauber CL, Walters WA, Berg-Lyons D, et al.
ISME J. 2012 Mar 8. [Epub ahead of print]

Transriptome analysis of single bovine embryos by RNA-seq.
Ross PJ, Chitwood JL.
Reprod Fertil Dev. 2011 Dec;24(1):182.

Sequencing and annotation of the genome of the Holstein cow.
Lilleoja R, Reimann E, Jaakma U, Köks S.
Reprod Fertil Dev. 2011 Dec;24(1):179.

Probabilistic inference for nucleosome positioning with MNase-based or sonicated short-read data.
Zhang X, Robertson G, Woo S, Hoffman BG, Gottardo R.
PLoS One. 2012;7(2):e32095.

Transcriptome survey reveals increased complexity of the alternative splicing landscape in Arabidopsis.
Marquez Y, Brown JW, Simpson CG, Barta A, Kalyna M.
Genome Res. 2012 Mar 5. [Epub ahead of print]

The Scan

Researchers Compare WGS, Exome Sequencing-Based Mendelian Disease Diagnosis

Investigators find a diagnostic edge for whole-genome sequencing, while highlighting the cost advantages and improving diagnostic rate of exome sequencing in EJHG.

Researchers Retrace Key Mutations in Reassorted H1N1 Swine Flu Virus With Avian-Like Features

Mutations in the acidic polymerase-coding gene boost the pathogenicity and transmissibility of Eurasian avian-like H1N1 swine influenza viruses, a PNAS paper finds.

Genome Sequences Reveal Evolutionary History of South America's Canids

An analysis in PNAS of South American canid species' genomes offers a look at their evolutionary history, as well as their relationships and adaptations.

Lung Cancer Response to Checkpoint Inhibitors Reflected in Circulating Tumor DNA

In non-small cell lung cancer patients, researchers find in JCO Precision Oncology that survival benefits after immune checkpoint blockade coincide with a dip in ctDNA levels.