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Papers of Note: Nov 16, 2010


A de novo paradigm for mental retardation.
Vissers LE, de Ligt J, Gilissen C, Janssen I, et al.
Nat Genet. 2010 Nov 14. [Epub ahead of print]

Resequencing of 31 wild and cultivated soybean genomes identifies patterns of genetic diversity and selection.
Lam HM, Xu X, Liu X, Chen W, et al.
Nat Genet. 2010 Nov 14. [Epub ahead of print]

Identifying single bases in a DNA oligomer with electron tunnelling.
Huang S, He J, Chang S, Zhang P, et al.
Nat Nanotechnol. 2010 Nov 14. [Epub ahead of print]

Statistical confidence measures for genome maps: application to the validation of genome assemblies.
Servin B, de Givry S, Faraut T.
Bioinformatics. 2010 Nov 13. [Epub ahead of print]

The Uniqueome: A mappability resource for short-tag sequencing.
Koehler R, Issac H, Cloonan N, Grimmond SM.
Bioinformatics. 2010 Nov 12. [Epub ahead of print]

The honey bee epigenomes: differential methylation of brain DNA in queens and workers.
Lyko F, Foret S, Kucharski R, Wolf S, et al.
PLoS Biol. 2010 Nov 2;8(11):e1000506.

RNA polymerase II binding patterns reveal genomic regions involved in microRNA gene regulation.
Wang G, Wang Y, Shen C, Huang YW, et al.
PLoS One. 2010 Nov 2;5(11):e13798.

Cooperative translocation dynamics of biopolymer chains through nanopores in a membrane: Slow dynamics limit.
Wang HJ, Gu F, Hong XZ, Ba XW.
Eur Phys J E Soft Matter. 2010 Oct 31. [Epub ahead of print]

Sequence capture and next-generation resequencing of multiple tagged nucleic acid samples for mutation screening of urea cycle disorders.
Amstutz U, Andrey-Zürcher G, Suciu D, Jaggi R, et al.
Clin Chem. 2010 Nov 10. [Epub ahead of print]

Mutation analysis of 18 nephronophthisis associated ciliopathy disease genes using a DNA pooling and next generation sequencing strategy.
Otto EA, Ramaswami G, Janssen S, Chaki M, et al.
J Med Genet. 2010 Nov 10. [Epub ahead of print]

PriSM: A primer selection and matching tool for amplification and sequencing of viral genomes.
Yu Q, Ryan EM, Allen TM, Birren BW, et al.
Bioinformatics. 2010 Nov 9. [Epub ahead of print]

A first genome assembly of the barley fungal pathogen Pyrenophora teres f. teres.
Ellwood SR, Liu Z, Syme RA, Lai Z, et al.
Genome Biol. 2010 Nov 10;11(11):R109.

DNMT3A mutations in acute myeloid leukemia.
Ley TJ, Ding L, Walter MJ, McLellan MD, et al.
N Engl J Med. 2010 Nov 10. [Epub ahead of print]

Targeted resequencing of candidate genes using selector probes.
Johansson H, Isaksson M, Falk Sörqvist E, Roos F, et al.
Nucleic Acids Res. 2010 Nov 8. [Epub ahead of print]

Accurate quantification of transcriptome from RNA-seq data by effective length normalization.
Lee S, Seo CH, Lim B, Yang JO, et al.
Nucleic Acids Res. 2010 Nov 8. [Epub ahead of print]

Rapid innovation in ChIP-seq peak-calling algorithms is outdistancing benchmarking efforts.
Szalkowski AM, Schmid CD.
Abstract Brief Bioinform. 2010 Nov 8. [Epub ahead of print]

Spatially differing bacterial communities in water columns of the northern Baltic Sea.
Koskinen K, Hultman J, Paulin L, Auvinen P, Kankaanpää H.
FEMS Microbiol Ecol. 2010 Oct 18. [Epub ahead of print]

Assessment of genetic variation for the LINE-1 retrotransposon from next generation sequence data.
Rouchka E, Montoya-Durango DE, Stribinskis V, Ramos K, Kalbfleisch T.
BMC Bioinformatics. 2010 Oct 28;11 Suppl 9:S12.

The Scan

Call to Look Again

More than a dozen researchers penned a letter in Science saying a previous investigation into the origin of SARS-CoV-2 did not give theories equal consideration.

Not Always Trusted

In a new poll, slightly more than half of US adults have a great deal or quite a lot of trust in the Centers for Disease Control and Prevention, the Hill reports.

Identified Decades Later

A genetic genealogy approach has identified "Christy Crystal Creek," the New York Times reports.

Science Papers Report on Splicing Enhancer, Point of Care Test for Sexual Transmitted Disease

In Science this week: a novel RNA structural element that acts as a splicing enhancer, and more.