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In Print: Last Week's Sequencing-Related Papers of Note: Aug 21, 2012


Fast and automatic processing of multi-level events in nanopore translocation experiments.

Raillon C, Granjon P, Graf M, Steinbock LJ, Radenovic A.
Nanoscale. 2012 Aug 21;4(16):4916-24.

Electrokinetic ion and fluid transport in nanopores functionalized by polyelectrolyte brushes.
Yeh LH, Zhang M, Hu N, Joo SW, Qian S, Hsu JP.
Nanoscale. 2012 Aug 21;4(16):5169-77.

Mimicking DNA stretching with the Static Mode method: Shear stress versus transverse pulling stress.
Brut M, Estève A, Landa G, Djafari Rouhani M.
Eur Phys J E Soft Matter. 2012 Aug;35(8):9750.

Size-Dependent Evolution of Graphene Nanopores Under Thermal Excitation.
Xu T, Yin K, Xie X, He L, Wang B, Sun L.
Small. 2012 Aug 20. [Epub ahead of print]

Genomes of extremophile crucifers: new platforms for comparative genomics and beyond.
Dittami SM, Tonon T.
Genome Biol. 2012 Aug 16;13(8):166.

Integration of 198 ChIP-seq Datasets Reveals Human cis-Regulatory Regions.
Bolouri H, Ruzzo WL.
J Comput Biol. 2012 Aug 16. [Epub ahead of print]

Endonuclease V-assisted accurate cleavage of oligonucleotide probes controlled by deoxyinosine and deoxynucleoside phosphorothioate for sequencing-by-ligation.
Li Y, Pan Z, Tang J, Pu D, Xiao P, Lu Z.
Analyst. 2012 Aug 16. [Epub ahead of print]

Ecology of uncultured Prochlorococcus clades revealed through single-cell genomics and biogeographic analysis.
Malmstrom RR, Rodrigue S, Huang KH, Kelly L, et al.
ISME J. 2012 Aug 16. [Epub ahead of print]

A comprehensive molecular cytogenetic analysis of chromosome rearrangements in gibbons.
Capozzi O, Carbone L, Stanyon RR, Marra A, Yang F, Whelan CW, de Jong PJ, Rocchi M, Archidiacono N.
Genome Res. 2012 Aug 14. [Epub ahead of print]

Optimizing de novo common wheat transcriptome assembly using short-read RNA-seq data.
Duan J, Xia C, Zhao G, Jia J, Kong X.
BMC Genomics. 2012 Aug 14;13(1):392.

Quantitative trait locus analysis for next-generation sequencing with the functional linear models.
Luo L, Zhu Y, Xiong M.
J Med Genet. 2012 Aug;49(8):513-24.

The genome of the heartworm, Dirofilaria immitis, reveals drug and vaccine targets.
Godel C, Kumar S, Koutsovoulos G, Ludin P, Nilsson D, Comandatore F, et al.
ASEB J. 2012 Aug 13. [Epub ahead of print]

RNA-seq provides new insights in the transcriptome responses induced by the carcinogen benzo[a]pyrene.
van Delft J, Gaj S, Lienhard M, Albrecht M, Kirpiy A, Brauers K, et al.
Toxicol Sci. 2012 Aug 13. [Epub ahead of print]

Cloudgene: A graphical execution platform for MapReduce programs on private and public clouds.
Schoenherr S, Forer L, Weissensteiner H, Specht G, Kronenberg F, Kloss-Brandstaetter A.
BMC Bioinformatics. 2012 Aug 13;13(1):200.

The Scan

And Back

The New York Times reports that missing SARS-CoV-2 genome sequences are back in a different database.

Lacks Family Hires Attorney

A lawyer for the family of Henrietta Lacks plans to seek compensation from pharmaceutical companies that have used her cancer cells in product development, the Baltimore Sun reports.

For the Unknown

The Associated Press reports that family members are calling on the US military to use new DNA analysis techniques to identify unknown sailors and Marines who were on the USS Arizona.

PLOS Papers on Congenital Heart Disease, COVID-19 Infection Host MicroRNAs, Multiple Malformation Mutations

In PLOS this week: new genes linked to congenital heart disease, microRNAs with altered expression in COVID-19, and more.