Skip to main content
Premium Trial:

Request an Annual Quote

Last Week's Sequencing-Related Papers of Note: Aug 16, 2011


ChimeraScan: A tool for identifying chimeric transcription in sequencing data.
Iyer MK, Chinnaiyan AM, Maher CA.
Bioinformatics. 2011 Aug 11. [Epub ahead of print]

Inference of population mutation rate and detection of segregating sites from next-generation sequence data.
Kang CJ, Marjoram P.
Genetics. 2011 Aug 11. [Epub ahead of print]

A statistical framework for eQTL mapping using RNA-seq data.
Sun W.
Biometrics. 2011 Aug 12. doi: 10.1111/j.1541-0420.2011.01654.x. [Epub ahead of print]

High-resolution description of antibody heavy-chain repertoires in humans.
Arnaout R, Lee W, Cahill P, Honan T, et al.
PLoS One. 2011;6(8):e22365.

Differential gene expression in the siphonophore Nanomia bijuga (cnidaria) assessed with multiple next-generation sequencing workflows.
Siebert S, Robinson MD, Tintori SC, Goetz F, et al.
PLoS One. 2011;6(7):e22953.

Oral microbiome profiles: 16S rRNA pyrosequencing and microarray assay comparison.
Ahn J, Yang L, Paster BJ, Ganly I, et al.
PLoS One. 2011;6(7):e22788.

Comparative analysis of Korean human gut microbiota by barcoded pyrosequencing.
Nam YD, Jung MJ, Roh SW, Kim MS, Bae JW.
PLoS One. 2011;6(7):e22109.

Genome evolution and meiotic maps by massively parallel DNA sequencing: spotted gar, an outgroup for the teleost genome duplication.
Amores A, Catchen J, Ferrara A, Fontenot Q, Postlethwait JH.
Genetics. 2011 Aug;188(4):799-808.

[ pagebreak ]

Transcriptome profiling and sequencing of differentiated human hematopoietic stem cells reveal lineage specific expression and alternative splicing of genes.
Liu P, Barb J, Woodhouse K, Taylor JG, et al.
Physiol Genomics. 2011 Aug 9. [Epub ahead of print]

Exome sequencing-based copy-number variation and loss of heterozygosity detection: ExomeCNV.
Sathirapongsasuti JF, Lee H, Horst BA, Brunner G, et al.
Bioinformatics. 2011 Aug 9. [Epub ahead of print]

TopHat-Fusion: an algorithm for discovery of novel fusion transcripts.
Kim D, Salzberg SL.
Genome Biol. 2011 Aug 11;12(8):R72.

Quantification of histone modification ChIP-seq enrichment for data mining and machine learning applications.
Hoang SA, Xu X, Bekiranov S.
BMC Res Notes. 2011 Aug 11;4(1):288.

Comparing next-generation sequencing and microarray technologies in a toxicological study of the effects of aristolochic acid on rat kidneys.
Su Z, Li Z, Chen T, Li QZ, et al.
Chem Res Toxicol. 2011 Aug 11. [Epub ahead of print]

Evaluation of next-generation sequencing software in mapping and assembly.
Bao S, Jiang R, Kwan W, Wang B, et al.
J Hum Genet. 2011 Aug 11. doi: 10.1038/jhg.2011.91. [Epub ahead of print]

The genome sequence of Atlantic cod reveals a unique immune system.
Star B , Nederbragt AJ, Jentoft S, Grimholt U, et al.
Nature. 2011 Aug 10. doi: 10.1038/nature10342. [Epub ahead of print]

Efficient counting of k-mers in DNA sequences using a Bloom filter.
Melsted P, Pritchard JK.
BMC Bioinformatics. 2011 Aug 10;12(1):333.

FDM: A graph-based statistical method to detect differential transcription using RNA-seq data.
Singh D, Orellana CF, Hu Y, Jones CD, et al.
Bioinformatics. 2011 Aug 8. [Epub ahead of print]

The Scan

Study Follows Consequences of Early Confirmatory Trials for Accelerated Approval Indications

Time to traditional approval or withdrawal was shorter when confirmatory trials started prior to accelerated approval, though overall regulatory outcomes remained similar, a JAMA study finds.

Sequencing Study Leads to Vaccine Target in Bacteria Behind Neonatal Meningitis

Researchers eBioMedicine track down potential vaccine targets with transposon sequencing on mutant bacteria causing neonatal meningitis in mouse models of the disease.

Multiple Myeloma Progression Influenced by Immune Microenvironment Expression

Researchers in NPJ Genomic Medicine compare RNA sequencing profiles of 102,207 individual cells in bone marrow samples from 18 individuals with rapid or non-progressing multiple myeloma.

Self-Reported Hearing Loss in Older Adults Begins Very Early in Life, Study Says

A JAMA Otolaryngology — Head & Neck Surgery study says polygenic risk scores associated with hearing loss in older adults is also associated with hearing decline in younger groups.