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In Print: Last Week's Sequencing-Related Papers of Note: Sep 24, 2013


Electrical current signatures of DNA base modifications in single molecules immobilized in the α-hemolysin ion channel.
Wolna AH, Fleming AM, An N, He L, et al.
Isr J Chem. 2013 Jun 1;53(6-7):417-430.

SSR_pipeline: a bioinformatic infrastructure for identifying microsatellites from paired-end Illumina high-throughput DNA sequencing data.
Miller MP, Knaus BJ, Mullins TD, Haig SM.
J Hered. 2013 Sep 19. [Epub ahead of print]

DEXUS: identifying differential expression in RNA-seq studies with unknown conditions.
Klambauer G, Unterthiner T, Hochreiter S.
Nucleic Acids Res. 2013 Sep 17. [Epub ahead of print]

Genomic organization of human transcription initiation complexes.
Venters BJ, Pugh BF.
Nature. 2013 Sep 18. [Epub ahead of print]

Draft genome sequence of the mulberry tree Morus notabilis.
He N, Zhang C, Qi X, Zhao S, et al.
Nat Commun. 2013;4:2445.

miREval 2.0: a web tool for simple microRNA prediction in genome sequences.
Gao D, Middleton R, Rasko JE, Ritchie W.
Bioinformatics. 2013 Sep 18. [Epub ahead of print]

Comparing a few SNP calling algorithms using low-coverage sequencing data.
Yu X, Sun S.
BMC Bioinformatics. 2013 Sep 17;14(1):274.

Miniaturized sequencing gel system for quick analysis of DNA by hydroxyl radical cleavage.
Takasuka TE, Hsieh YJ, Stein A.
Appl Biochem Biotechnol. 2013 Sep 17. [Epub ahead of print]

Richness of human gut microbiome correlates with metabolic markers.
Le Chatelier E, Nielsen T, Qin J, Prifti E, et al.
Nature. 2013 Aug 29;500(7464):541-6.

The Scan

Germline-Targeting HIV Vaccine Shows Promise in Phase I Trial

A National Institutes of Health-led team reports in Science that a broadly neutralizing antibody HIV vaccine induced bnAb precursors in 97 percent of those given the vaccine.

Study Uncovers Genetic Mutation in Childhood Glaucoma

A study in the Journal of Clinical Investigation ties a heterozygous missense variant in thrombospondin 1 to childhood glaucoma.

Gene Co-Expression Database for Humans, Model Organisms Gets Update

GeneFriends has been updated to include gene and transcript co-expression networks based on RNA-seq data from 46,475 human and 34,322 mouse samples, a new paper in Nucleic Acids Research says.

New Study Investigates Genomics of Fanconi Anemia Repair Pathway in Cancer

A Rockefeller University team reports in Nature that FA repair deficiency leads to structural variants that can contribute to genomic instability.