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Friday, May 18, 2012
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Biology of Genomes Presentations Highlight Burgeoning Single-Cell Sequencing Approaches

 

May 15, 2012

In Letter to Nature Biotech, Ion Torrent Claims Bias in Desktop Sequencer Comparison

 

May 15, 2012

Q&A: Detlef Weigel on the Impact of Next-Gen Sequencing on Plant Genomics Research

 

May 15, 2012

BGI Purchases 454 GS FLX+ System to Help with De Novo Assembly

 

May 15, 2012

In Print: Last Week's Sequencing-Related Papers of Note

 

May 15, 2012

Paired Ends: Mimi Healy, Leroy Hood, Paul Flicek, David Smith

 

May 15, 2012

Last Year's Production Delays Cause Slip in Complete Genomics' Q1 Revenues

 

May 08, 2012

As PacBio Orders Decline in Q1, Company Bets on Happy Customers for Future Sales

 

May 08, 2012

Awaiting Settlement of Patent Suit with PacBio, Helicos Sets Sights on Life Tech and Illumina

 

May 08, 2012

In-Q-Tel Supports Development of OpGen's Microbial Genome Mapping System, Migration to Cloud

 

May 08, 2012

In Print: Last Week's Sequencing-Related Papers of Note

 

May 08, 2012

Paired Ends: Harris Lewin

 

May 08, 2012

New Products: Eureka Genomics' Low Density Marker Assay Service; Cufflinks v 2.0.0

 

May 08, 2012
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In last week's issue of In Sequence

  • Last Year's Production Delays Cause Slip in Complete Genomics' Q1 Revenues
  • As PacBio Orders Decline in Q1, Company Bets on Happy Customers for Future Sales
  • Awaiting Settlement of Patent Suit with PacBio, Helicos Sets Sights on Life Tech and Illumina
  • In-Q-Tel Supports Development of OpGen's Microbial Genome Mapping System, Migration to Cloud
  • Video Spotlight

    Shashikant Kulkarni at ACMG

    See video

    BioArray News editor Justin Petrone sat down with Shashikant Kulkarni, an associate professor at Washington University School of Medicine at St. Louis, to discuss chromosomal microarrary analysis in the clinic, SNP arrays versus CGH platforms for post-natal testing, and more.

    May 16, 2012

    Miragen Therapeutics' Eva van Rooij

    See video

    Miragen Therapeutics' Eva van Rooij discusses microRNA-based therapeutics, the challenges associated with chronic microRNA knockdown, therapeutic microRNA antagonists, and more.

    May 08, 2012

    A Conversation with CeGaT's Saskia Biskup

    See video

    In this video, Julia Karow, Editor of Clinical Sequencing News, interviews Saskia Biskup, CEO of the Center for Genomics and Transcriptomics, or CeGaT, at the company's headquarters in Tübingen, Germany.

    May 02, 2012

    A Tour of Illumina's CLIA Lab

    See video

    In this video, Illumina's CLIA laboratory manager Suneer Jain gives InSequence and Clinical Sequencing News Editor Monica Heger a tour of Illumina's CLIA lab at the company's San Diego headquarters.

    April 25, 2012
  • Young Investigator Profile

    James Noonan

    Assistant Professor
    Yale University

    Development Deciphered

    The Noonan lab is studying changes in developmental gene regulation during human evolution on multiple levels. They are refining statistical methods to quantify the rate of human-specific sequence change in noncoding DNA, in order to identify regulatory elements that changed rapidly in human evolution. In addition, the lab is also characterizing individual cis-regulatory elements with human-specific developmental functions by reverse genetic analysis in mouse models.

  • Blog

    A Decline for Vermillion

    Vermillion reports a decline in first-quarter revenues; CEO is to leave.

    May 17, 2012

    An Imperfect Processor

    A Rice University team has developed an imperfect processor that might be perfect for application areas where energy consumption and speed are concerns.

    May 17, 2012

    This Week in Experimental and Molecular Pathology

    In Experimental and Molecular Pathology this week: age-dependent and tissue-specific genome structure, and more.

    May 17, 2012

    Exome Sequencing Is Not Perfect …

    … And here are 10 reasons why.

    May 17, 2012
  • Papers of Note

    KCTD13 a Driver of Neurodevelopmental Phenotypes Associated with the 16p11.2 CNV
    Golzio, Willer et al., Nature
    An international team led by investigators at Duke University shows that KCTD13 "is a major driver for the neurodevelopmental phenotypes associated with the 16p11.2 CNV [copy-number variant]," a finding that it says substantiates "the idea that one or a small number of transcripts within a CNV can underpin clinical phenotypes, and offer an efficient route to identifying dosage-sensitive loci."

    Approach to Reduce Allelic Bias in RNA-seq Read-Mapping
    Satya, Zavaljevski, and Reifman, Nucleic Acids Research
    Researchers at the US Department of Defense Biotechnology High Performance Computing Software Applications Institute present an approach to reduce allelic bias in RNA-seq read-mapping based on the "construction of an enhanced reference genome that includes the alternative alleles at known polymorphic loci." In this paper, the team shows that "mapping to this enhanced reference reduced the read-mapping biases, leading to more reliable estimates of ASE [allele-specific expression]."

  • People on the Move

    Genomic Health has appointed Richard Tompane as president of its new subsidiary InVitae, which will focus on developing next-generation-based sequencing diagnostics for genetic diseases. Tompane was previously president and CEO of Gemfire and has also served as an independent consultant.


    LaserGen has appointed Mimi Healy its new CEO and member of the board of directors. She previously served as CEO of Houston-based Bacterial Barcodes, a spin-off company of BCM Technologies.


    Trovagene has named Carlo Croce to serve on its scientific advisory board. Croce is director of the Human Cancer Genetics Program and the Genetics Institute at The Ohio State University, and he is John W. Wolfe Chair in Human Cancer Genetics.

  • Upcoming Events

    Conferences, Meetings & Deadlines

    The iMedicine & Mobile Life Sciences World Summit
    May 16-17 / Boston
    Arrowhead Publishers

    New Perspectives on Immunity to Infection
    May 19-22 / Heidelberg, Germany
    EMBL

    TIDES: Oligonucleotides and Peptide Technology & Product Development
    Applications of Nucleic Acids Technologies in Molecular Diagnostics, Oligonucleotide Therapeutics Discovery, and Peptide Discovery and Development

    May 20-23 / Las Vegas
    IBC Life Sciences

    Microtubules: Structure, Regulation and Functions
    May 23-26 / Heidelberg, Germany
    EMBL

    Evidence for Clinical Utility of Molecular Diagnostics in Oncology: A Workshop
    May 24 / Washington, DC
    Institute of Medicine

    Abstract & Registration Deadlines

    more
  • Science

    Researchers from Duke University and the University of Michigan successfully diagnosed around half of the individuals that they tested during a pilot study on the use of clinical exome sequencing. The investigators did whole-exome sequencing on individuals from a dozen parent-child trios for the study and pinned down likely causal mutations in six of the individuals, including new mutations in genes linked to Mendelian diseases.
  • Business

    Fluidigm and the Broad Institute launched a new center, housed at the Broad's Cambridge, Mass.-based headquarters, aimed at developing new methods and discoveries in mammalian single-cell genomics. The center intends to develop novel single-cell, microfluidic methods for gene expression profiling, RNA/DNA sequencing, and epigenetic analysis with an aim at making single-cell research accessible to the greater research community.
  • Funding

    Launching what will be the maiden initiative for the months-old National Center for Advancing Translational Sciences, NIH Director Francis Collins unveiled a program that will support researchers using biomarker-based studies and other approaches to repurpose compounds owned by three of the world's largest drug developers. NCATS will provide up to $20 million in 2013 through two types of cooperative agreements to fuel the new projects.
  • Genome Technology Magazine

    For this month's Q&A, Matthew Dublin speaks with McGill University's John Breitner about a European consortium that aims to develop molecular diagnostics for both Alzheimer's and Parkinson's disease. As part of the program, Breitner is developing standardized ways to describe patient samples as a first step in bringing innovations to the clinic. Breitner says that there are a number of biomarkers than can confirm or deny a presumptive diagnosis, but there is not yet a standard way to run tests based on such markers.

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