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Last Week's Sequencing-Related Papers of Note: Apr 1, 2014


Creating a single sensing zone within an alpha-hemolysin pore via site directed mutagenesis.
Ervin EN, Barrall GA, Pal P, Bean MK, et al.
Bionanoscience. 2014 Mar 1;4(1):78-84.

Some statistical strategies for DAE-seq data analysis: variable selection and modeling dependencies among observations.
Rashid NU, Sun W, Ibrahim JG.
J Am Stat Assoc. 2014 Jan 1;109(505):78-94.

Estimating genome-wide significance for whole-genome sequencing studies.
Xu C, Tachmazidou I, Walter K, Ciampi A, et al.
Genet Epidemiol. 2014 Feb 14. [Epub ahead of print]

Comparison of CAGE and RNA-seq transcriptome profiling using clonally amplified and single-molecule next-generation sequencing.
Kawaji H, Lizio M, Itoh M, Kanamori-Katayama M, et al.
Genome Res. 2014 Mar 27. [Epub ahead of print]

HapTree: a novel Bayesian framework for single individual polyplotyping using NGS data.
Berger E, Yorukoglu D, Peng J, Berger B.
PLOS Comput Biol. 2014 Mar 27;10(3):e1003502.

TSSAR: TSS annotation regime for dRNA-seq data.
Amman F, Wolfinger MT, Lorenz R, Hofacker IL, et al.
BMC Bioinformatics. 2014 Mar 27;15(1):89.

Deleted copy number variation of Hanwoo and Holstein using next generation sequencing at the population level.
Shin DH, Lee HJ, Cho S, Kim HJ, et al.
BMC Genomics. 2014 Mar 27;15(1):240.

A promoter-level mammalian expression atlas.
FANTOM Consortium and the RIKEN PMI and CLST (DGT).
Nature. 2014 Mar 27;507(7493):462-70.

Mod-seq: high-throughput sequencing for chemical probing of RNA structure.
Talkish J, May G, Lin Y, Woolford JL Jr, McManus CJ.
RNA. 2014 Mar 24. [Epub ahead of print]

Unbiased analysis by high throughput sequencing of the viral diversity in fetal bovine serum and trypsin used in cell culture.
Gagnieur L, Cheval J, Gratigny M, Hébert C, et al.
Biologicals. 2014 Mar 21. [Epub ahead of print]

The Scan

New Study Highlights Role of Genetics in ADHD

Researchers report in Nature Genetics on differences in genetic architecture between ADHD affecting children versus ADHD that persists into adulthood or is diagnosed in adults.

Study Highlights Pitfall of Large Gene Panels in Clinical Genomic Analysis

An analysis in Genetics in Medicine finds that as gene panels get larger, there is an increased chance of uncovering benign candidate variants.

Single-Cell Atlas of Drosophila Embryogenesis

A new paper in Science presents a single-cell atlas of fruit fly embryonic development over time.

Phage Cocktail Holds Promise for IBD

Researchers uncovered a combination phage therapy that targets Klebsiella pneumonia strains among individuals experiencing inflammatory bowel disease flare ups, as they report in Cell.