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Papers of Note: Jul 13, 2010

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DNA translocation through graphene nanopores.
Schneider GF, Kowalczyk SW, Calado VE, et al.
Nano Lett. 2010 Jul 7. [Epub ahead of print]


Optimus Primer: A PCR enrichment primer design program for next-generation sequencing of human exonic regions.
Brown AM, Lo KS, Guelpa P, et al.
BMC Res Notes. 2010 Jul 7;3(1):185. [Epub ahead of print]


Deep mapping: A novel mutagen-based strategy for direct mapping and mutation identification using whole genome sequencing.
Zuryn S, Le Gras S, Jamet K, Jarriault S.
Genetics. 2010 Jul 6. [Epub ahead of print]


Tissue-specific transcript annotation and expression profiling with complementary next-generation sequencing technologies.
Hestand MS, Klingenhoff A, Scherf M, Ariyurek Y, et al.
Nucleic Acids Res. 2010 Jul 7. [Epub ahead of print]


Detection of inherited mutations for breast and ovarian cancer using genomic capture and massively parallel sequencing.
Walsh T, Lee MK, Casadei S, Thornton AM, et al.
Proc Natl Acad Sci U S A. 2010 Jun 28. [Epub ahead of print]


Whole human exome capture for high-throughput sequencing.
Kim DW, Nam SH, Kim RN, Choi SH, Park HS.
Genome. 2010 Jul;53(7):568-74.


G-SQZ: Compact encoding of genomic sequence and quality data.
Tembe W, Lowey J, Suh E.
Bioinformatics. 2010 Jul 6. [Epub ahead of print]


Whole exome sequencing and homozygosity mapping identify mutation in the cell polarity protein GPSM2 as the cause of nonsyndromic hearing loss DFNB82.
Walsh T, Shahin H, Elkan-Miller T, Lee MK, et al.
Am J Hum Genet. 2010 Jul 9;87(1):90-94. Epub 2010 Jun 17.


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Massively parallel display of genomic DNA fragments by rolling-circle amplification and strand displacement amplification on chip.
Zhao H, Gao L, Luo J, Zhou D, Lu Z.
Talanta. 2010 Jul 15;82(2):477-482. Epub 2010 May 11.


Next-generation sequencing: The solution for high-resolution, unambiguous HLA typing.
Lind C, Ferriola D, Mackiewicz K, Heron S, et al.
Hum Immunol. 2010 Jul 2. [Epub ahead of print]


HPeak: an HMM-based algorithm for defining read-enriched regions in ChIP-seq data.
Qin ZS, Yu J, Shen J, Maher CA, et al.
BMC Bioinformatics. 2010 Jul 2;11(1):369. [Epub ahead of print]


An efficient annotation and gene-expression derivation tool for Illumina Solexa datasets.
Hosseini P, Tremblay A, Matthews BF, Alkharouf NW.
BMC Res Notes. 2010 Jul 2;3(1):183. [Epub ahead of print]


A method for full genome sequencing of all four serotypes of the dengue virus.
Christenbury JG, Aw PP, Ong SH, Schreiber MJ, et al.
J Virol Methods. 2010 Jul 2. [Epub ahead of print]


ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data.
Wang K, Li M, Hakonarson H.
Nucleic Acids Res. 2010 Jul 3. [Epub ahead of print]


Sequencing of 50 human exomes reveals adaptation to high altitude.
Yi X, Liang Y, Huerta-Sanchez E, Jin X, et al.
Science. 2010 Jul 2;329(5987):75-78.


MicroRNA profiling of clear cell renal cell carcinoma by whole-genome small RNA deep sequencing of paired frozen and formalin-fixed, paraffin-embedded tissue specimens.
Weng L, Wu X, Gao H, Mu B et al.
J Pathol. 2010 May 21. [Epub ahead of print]


Optimization of protocol for sequencing of difficult templates.
Kieleczawa J, Mazaika E.
J Biomol Tech. 2010 Jul;21(2):97-102.


Comparison of the Illumina Genome Analyzer and Roche 454 GS FLX for resequencing of hypertrophic cardiomyopathy-associated genes.
Dames S, Durtschi J, Geiersbach K, Stephens J, Voelkerding KV.
J Biomol Tech. 2010 Jul;21(2):73-80.

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NPR reports that the World Health Organization has hired a South African biotech company to recreate mRNA vaccine for SARS-CoV-2 that is similar to the one developed by Moderna.

Slow Start

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Genome Research Papers on Cancer Chromatin, Splicing in the Thymus, Circular RNAs in Cancer

In Genome Research this week: analysis of bivalent chromatin sites, RBFOX splicing factors' role in thymic epithelial cells, and more.