Tag Archives: DNA Sequencing

Cell Paper Reports Massive Genome Study for Lung Cancer

A paper that came out last month in Cell describes a massive effort to generate the exome and/or genome sequences of 183 tumor/normal pairs for people with a specific type of lung cancer. Authors hailed from Harvard University, New York … more »

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The Use of NexGen Sequencing and Junction Sequence Analysis Bioinformatics to Achieve Molecular Characterization of Crops Improved Through Modern Biotechnology

October 2012 Authors: David Kovalic, Carl Garnaat, Liang Guo, Yongpan Yan, Jeanna Groat, Andre Silvanovich, Lyle Ralston, Mingya Huang, Qing Tian, Allen Christian, Nordine Cheikh, Jerry Hjelle, Stephen Padgette and Gary Bannon Info: Materials and Methods: Illumina TruSeq paired-end library … more »

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Draft Genome Sequence of Flavobacterium sp. Strain F52, Isolated from the Rhizosphere of Bell Pepper (Capsicum annuum L. cv. Maccabi)

October 2012 Authors: Max Kolton, Stefan J. Green, Yael Meller Harel, Noa Sela, Yigal Elad, and Eddie Cytryna Info: A brief report of whole genome sequence of a novel Flavobacterium. The bacterial library was created with the EpiCentre Nextera kit. … more »

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Towards quantitative metagenomics of wild viruses and other ultra-low concentration DNA samples: a rigorous assessment and optimization of the linker amplification method

September 2012 Authors: Melissa B. Duhaime, Li Deng, Bonnie T. Poulos, and Matthew B. Sullivan Info: A study of most reproducible and sample-efficient methods for sequencing meta-genomic samples with very low abundance samples (20 L ocean water ->1 pg to … more »

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Transcriptional Amplification in Tumor Cells with Elevated c-Myc

September 2012 Authors: Charles Y. Lin, Jakob Loven,Peter B. Rahl, Ronald M. Paranal, Christopher B. Burge, James E. Bradner, Tong Ihn Lee, and Richard A. Young Info: This high impact study completely revises knowledge on how c-myc gene is involved … more »

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Scientists Use Pippin in Sequencing Effort for Seven Cholera Isolates

A paper published this month in BMC Genomics discusses findings from a collaborative project to sequence cholera samples linked to the 2010 outbreak in Haiti — and we’re pleased to report that the Pippin platform from Sage Science was used … more »

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High depth, whole-genome sequencing of cholera isolates from Haiti and the Dominican Republic

September 2012 Authors: Rachel Sealfon, Stephen Gire, Crystal Ellis, Stephen Calderwood, Firdausi Qadri, Lisa Hensley, Manolis Kellis, Edward T Ryan, Regina C LaRocque, Jason B Harris, Pardis C Sabeti Info: Study performs high-depth NGS on V. cholerae strains from Haiti … more »

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Mapping the Hallmarks of Lung Adenocarcinoma with Massively Parallel Sequencing

September 2012 Authors: Marcin Imielinski et al. Info: A landmark study of lung cancer genomes with 183 tumor/normal genomes compared. Sequencing was carried out mainly by the Broad Illumina Platform (8 Pippins in production). The Pippin Prep is cited in … more »

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Publication: Spike-In Standards for Managing Systematic Sequencing Errors

Here’s a paper worth checking out: “Synthetic Spike-in Standards Improve Run-Specific Systematic Error Analysis for DNA and RNA Sequencing” from lead author Justin Zook at the National Institute of Standards and Technology. Published in PLoS One last month, the paper … more »

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For NRC Team, Pippin Platform Leads to Higher-Quality Assemblies

At the DNA Technologies Laboratory at the National Research Council of Canada, scientists are using the Pippin size selection platform to improve the quality of their genome assemblies. Andrew Sharpe, Research Officer and Group Leader of the Saskatoon-based laboratory, got … more »

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