Skip to main content
Premium Trial:

Request an Annual Quote

In Print: Last Week's Sequencing-Related Papers of Note: Aug 28, 2012


Dynamic regulation of HIV-1 mRNA populations analyzed by single-molecule enrichment and long-read sequencing.
Ocwieja KE, Sherrill-Mix S, Mukherjee R, Custers-Allen R, et al.
Nucleic Acids Res. 2012 Aug 25. [Epub ahead of print]

Chromatin accessibility, p300 and histone acetylation define PML-RARα and AML1-ETO binding sites in acute myeloid leukemia.
Saeed S, Logie C, Francoijs KJ, Frigè G, Romanenghi M, et al.
Blood. 2012 Aug 24. [Epub ahead of print]

Genomic and transcriptomic studies of an RDX-degrading actinobacterium.
Chen HP, Zhu SH, Casabon I, Hallam SJ, Crocker FH, Mohn WW, Indest KJ, Eltis LD.
Appl Environ Microbiol. 2012 Aug 24. [Epub ahead of print]

Next-generation sequencing of microbial communities in the Athabasca River and its tributaries in relation to oil sands mining activities.
Yergeau E, Lawrence JR, Sanschagrin S, Waiser MJ, Korber DR, Greer CW.
Appl Environ Microbiol. 2012 Aug 24. [Epub ahead of print]

GFOLD: a generalized fold change for ranking differentially expressed genes from RNA-seq data.
Feng J, Meyer CA, Wang Q, Liu JS, Liu XS, Zhang Y.
Bioinformatics. 2012 Aug 24. [Epub ahead of print]

Transcriptome sequencing and annotation of the predatory mite Metaseiulus occidentalis (Acari: Phytoseiidae): a cautionary tale about possible contamination by prey sequences.
Hoy MA, Yu F, Meyer JM, Tarazona OA, Jeyaprakash A, Wu K.
Exp Appl Acarol. 2012 Aug 25. [Epub ahead of print]

The draft genome of a diploid cotton Gossypium raimondii.
Wang K, Wang Z, Li F, Ye W, Wang J, Song G, Yue Z, Cong L, et al.
Nat Genet. 2012 Aug 26. [Epub ahead of print]

Yellow lupin (Lupinus luteus L. ) transcriptome sequencing: molecular marker development and comparative studies.
Parra-Gonzalez LB, Aravena-Abarzua GA, Navarro-Navarro CS, et al.
BMC Genomics. 2012 Aug 24;13(1):425.

Human-specific transcriptional networks in the brain.
Konopka G, Friedrich T, Davis-Turak J, Winden K, Oldham MC, et al.
Neuron. 2012 Aug 23;75(4):601-17.

Full genomic sequence of an African Avian Paramyxovirus Type 4 strain isolated from a wild duck.
Abolnik C, de Castro M, Rees J.
Virus Genes. 2012 Aug 24. [Epub ahead of print]

Sequencing and characterisation of the FVB/NJ mouse genome.
Wong K, Bumpstead S, van der Weyden L, Reinholdt LG, et al.
Genome Biol. 2012 Aug 23;13(8):R72.

An Empirical Bayes Mixture Model for SNP Detection in Pooled Sequencing Data.
Zhou B.
Bioinformatics. 2012 Aug 22. [Epub ahead of print]

Qualimap: evaluating next generation sequencing alignment data.
García-Alcalde F, Okonechnikov K, Carbonell J, et al.
Bioinformatics. 2012 Aug 22. [Epub ahead of print]

Improving mapping and SNP-calling performance in multiplexed targeted next-generation sequencing.
Elsharawy A, Forster M, Schracke N, Keller A, Thomsen I, et al.
BMC Genomics. 2012 Aug 22;13(1):417.
(see related story, this issue).

The Scan

Unique Germline Variants Found Among Black Prostate Cancer Patients

Through an exome sequencing study appearing in JCO Precision Oncology, researchers have found unique pathogenic or likely pathogenic variants within a cohort of Black prostate cancer patients.

Analysis of Endogenous Parvoviral Elements Found Within Animal Genomes

Researchers at PLOS Biology have examined the coevolution of endogenous parvoviral elements and animal genomes to gain insight into using the viruses as gene therapy vectors.

Saliva Testing Can Reveal Mosaic CNVs Important in Intellectual Disability

An Australian team has compared the yield of chromosomal microarray testing of both blood and saliva samples for syndromic intellectual disability in the European Journal of Human Genetics.

Octopus Brain Complexity Linked to MicroRNA Expansions

Investigators saw microRNA gene expansions coinciding with complex brains when they analyzed certain cephalopod transcriptomes, as they report in Science Advances.