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Last Week's Sequencing-Related Papers of Note: Apr 22, 2014


Validation of noise models for single-cell transcriptomics.
Grün D, Kester L, van Oudenaarden A.
Nat Methods. 2014 Apr 20. [Epub ahead of print]

DSRC 2-Industry-oriented compression of FASTQ files.
Roguski L, Deorowicz S.
Bioinformatics. 2014 Apr 18. [Epub ahead of print]

An atlas of active enhancers across human cell types and tissues.
Andersson R, Gebhard C, Miguel-Escalada I, Hoof I, et al.
Nature. 2014 Mar 27;507(7493):455-61.

FANSe2: a robust and cost-efficient alignment tool for quantitative next-generation sequencing applications.
Xiao CL, Mai ZB, Lian XL, Zhong JY, et al.
PLOS One. 2014 Apr 17;9(4):e94250.

Reconstructing lineage hierarchies of the distal lung epithelium using single-cell RNA-seq.
Treutlein B, Brownfield DG, Wu AR, Neff NF, et al.
Nature. 2014 Apr 13. [Epub ahead of print]

Microsecond simulations of DNA and ion transport in nanopores with novel ion-ion and ion-nucleotides effective potentials.
De Biase PM, Markosyan S, Noskov S.
J Comput Chem. 2014 Apr 5;35(9):711-21.

Rearrangement structure-independent strategy of CNV breakpoint analysis.
Xiao J, Zhang L, Wang J, Jiang Y, et al.
Mol Genet Genomics. 2014 Apr 16. [Epub ahead of print]

The impacts of read length and transcriptome complexity for de novo assembly: a simulation study.
Chang Z, Wang Z, Li G.
PLOS One. 2014 Apr 15;9(4):e94825.

Long-read sequencing of chicken transcripts and identification of new transcript isoforms.
Thomas S, Underwood JG, Tseng E, Holloway AK, et al.
PLOS One. 2014 Apr 15;9(4):e94650.

ngs.plot: Quick mining and visualization of next-generation sequencing data by integrating genomic databases.
Shen L, Shao N, Liu X, Nestler E.
BMC Genomics. 2014 Apr 15;15(1):284.

BisQC: an operational pipeline for multiplexed bisulfite sequencing.
Chen GG, Diallo AB, Poujol R, Nagy C, et al.
BMC Genomics. 2014 Apr 16;15(1):290.

Sequencing-by-ligation using oligonucleotide probes with 3'-thio-deoxyinosine.
Pu D, Chen J, Bai Y, Tu J, et al.
J Biomed Nanotechnol. 2014 May;10(5):751-9.

Copy number variation detection using next generation sequencing read counts.
Wang H, Nettleton D, Ying K.
BMC Bioinformatics. 2014 Apr 14;15(1):109.