Sequencing-Related Papers of Note, January 2008
Authors Title Citation
Bailo E, Deckert V..

Tip-enhanced Raman spectroscopy of single RNA strands: towards a novel direct-sequencing method.

 Angew Chem Int Ed Engl. 2008;47(9):1658-61.
Bentley SD, Corton C, Brown SE, Barron A, et al. Genome of the actinomycete plant pathogen Clavibacter michiganensis subspecies sepedonicus suggests recent niche adaptation. J Bacteriol. 2008 Jan 11 [Epub ahead of print]
Brockman W, Alvarez P, Young S, Garber M, et al. Quality scores and SNP detection in sequencing-by-synthesis systems. Genome Res. 2008 Jan 22 [Epub ahead of print]
Coarfa C, Milosavljevic A. Pash 2.0: scaleable sequence anchoring for next-generation sequencing technologies. Pac Symp Biocomput. 2008; 102-13.
Cockroft SL, Chu J, Amorin M, Ghadiri MR. A single-molecule nanopore device detects DNA polymerase activity with single-nucleotide resolution. J Am Chem Soc. 2008 Jan 23;130(3):818-20. Epub 2008 Jan 1.
Döring A, Weese D, Rausch T, Reinert K. SeqAn an efficient, generic C++ library for sequence analysis. BMC Bioinformatics. 2008 Jan 9;9:11.
Fredlake CP, Hert DG, Kan CW, Chiesl TN, et al. Ultrafast DNA sequencing on a microchip by a hybrid separation mechanism that gives 600 bases in 6.5 minutes. Proc Natl Acad Sci
U S A. 2008 Jan 15;105(2):476-81. Epub 2008 Jan 9.
Gartemann KH, Abt B, Bekel T, Burger A, et al. The genome sequence of the tomato-pathogenic actinomycete Clavibacter michiganensis subspecies michiganensis NCPPB382 reveals a large island involved in pathogenicity. J Bacteriol. 2008 Jan 11 [Epub ahead of print]
Hafner M, Landgraf P, Ludwig J, Rice A, et al. Identification of microRNAs and other small regulatory RNAs using cDNA library sequencing. Methods. 2008 Jan;44(1):3-12.
Hillier LW, Marth GT, Quinlan AR, Dooling D, et al. Whole-genome sequencing and variant discovery in C. elegans. Nat Methods. 2008 Feb;5(2):183-8. Epub 2008 Jan 20.
Hong CP, Kwon SJ, Kim JS, Yang TJ, Park BS, Lim YP. Progress in understanding and sequencing the genome of Brassica rapa. Int J Plant Genomics. 2008;2008:582837.
Jex AR, Hu M, Littlewood DT, Waeschenbach A, Gasser RB. Using 454 technology for long-PCR based sequencing of the complete mitochondrial genome from single Haemonchus contortus (Nematoda). BMC Genomics. 2008 Jan 11;9(1):11 [Epub ahead of print]
Korlach J, Marks PJ, Cicero RL, Gray JJ, et al. Selective aluminum passivation for targeted immobilization of single DNA polymerase molecules in zero-mode waveguide nanostructures. Proc Natl Acad Sci
U S A. 2008 Jan 29;105(4):1176-81. Epub 2008 Jan 23.
Li R, Li Y, Kristiansen K, Wang J. SOAP: short oligonucleotide alignment program. Bioinformatics. 2008 Jan 28 [Epub ahead of print]
Meyer M, Stenzel U, Hofreiter M. Parallel tagged sequencing on the 454 platform. Nat Protoc. 2008;3(2):267-78.
Olson AJ, Brennecke J, Aravin AA, Hannon GJ, Sachidanandam R. Analysis of large-scale sequencing of small RNAs. Pac Symp Biocomput. 2008; 126-36.
Piganeau G, Desdevises Y, Derelle E, Moreau H. Picoeukaryotic sequences in the Sargasso Sea metagenome. Genome Biol. 2008 Jan 7;9(1):R5 [Epub ahead of print]
Reynolds B, Miller R, Williams JG, Anderson JP. Synthesis and stability of novel terminal phosphate-labeled nucleotides. Nucleosides Nucleotides Nucleic Acids. 2008;27(1):18-30.
Seedorf H, Fricke WF, Veith B, Brüggemann H, Liesegang H, et al. The genome of Clostridium kluyveri, a strict anaerobe with unique metabolic features. Proc Natl Acad Sci
U S A. 2008 Feb 12;105(6):2128-33. Epub 2008 Jan 24.
Tyler DM, Okamura K, Chung WJ, Hagen JW, Berezikov E, Hannon GJ, Lai EC. Functionally distinct regulatory RNAs generated by bidirectional transcription and processing of microRNA loci. Genes Dev. 2008 Jan 1;22(1):26-36.
Williamson SJ, Rusch DB, Yooseph S, Halpern AL, et al. The Sorcerer II global ocean sampling expedition: metagenomic characterization of viruses within aquatic microbial samples. PLoS ONE. 2008 Jan 23;3(1):e1456.
Wommack KE, Bhavsar J, Ravel J. Metagenomics: Read length matters. Appl Environ Microbiol. 2008 Jan 11 [Epub ahead of print]
Wu JQ, Du J, Rozowsky J, Zhang Z, et al. Systematic analysis of transcribed loci in ENCODE regions using RACE sequencing reveals extensive transcription in the human genome. Genome Biol. 2008 Jan 3;9(1):R3 [Epub ahead of print]
Xu Z, Zhou Y, Li L, Zhou R, Xiao S, Wan Y, et al. Genome biology of Actinobacillus pleuropneumoniae JL03, an isolate of serotype 3 prevalent in China. PLoS ONE. 2008 Jan 16;3(1):e1450.