SEQanswers.com

Illumina Announces Personal Genome Sequencing Service

Thu, 11 Jun 2009 07:48:03 +0000

SAN DIEGO--(BUSINESS WIRE)--Illumina, Inc. (NASDAQ:ILMN - News) today unveiled a service program to provide high-quality personal genome sequencing for consumers. This is the first service to offer complete coverage of the human genome sequence for under $50,000. The Personal Genome Sequencing Service is performed in Illumina’s recently certified CLIA laboratory utilizing Illumina’s industry leading Genome Analyzer technology. The offering includes sequencing of an individual’s DNA to 30 times...

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Geospiza and AB offer AmazonWS-based cloud NGS analysis services

Wed, 29 Apr 2009 14:46:20 +0000

This was released yesterday as part of LIFE/AB's Q1 earnings call. AB and Geospiza are teaming up to offer next gen data analysis services via the web. Specifically they will use Amazon's gargantuan web services to take the output files from your SOLiD and return various analytical reports. Press release is . Geospiza's info page is . Marketwatch blurb is .

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The Sixth Base: 5-hydroxymethylcytosine enriched in mammalian brains

Fri, 17 Apr 2009 05:06:54 +0000

This is undoubtedly a big finding that will cause all sorts of controversy and reevaluation of theories of epigenetics. Not to mention that it's probably of interest to the sequencing community that there is a sixth base to worry about! Skirmantas Kriaucionis of the Heintz lab at the Rockefeller University has just published a which describes the discovery of yet another modified cytosine nucleotide, 5-hydroxymethylcytosine, which seems particularly enriched in neuronal cells. A suggests...

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Amplicon sequencing: Method to prevent end over-representation & improve uniformity

Thu, 26 Mar 2009 20:44:21 +0000

Thought people would be interested in this! Harismendy O, Frazer K. Scripps Genomic Medicine, Scripps Translational Science Institute, Scripps Research Institute, La Jolla, CA, USA. One approach for high-throughput population-based sequencing of targeted intervals in the human genome is to amplify the regions using long-range PCR (LR-PCR) followed by sequencing with next-generation sequencing (NGS) technologies. Utilizing this method, we have observed that the 50 bp located at the...

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Sanger publishes amplification-free Illumina library prep paper

Tue, 17 Mar 2009 02:03:49 +0000

Pretty interesting paper from Sanger. Link . Looks like they basically add the flow cell primer portion to the to enrich directly on the flow cell, eliminating the PCR step and some bias. GenomeWeb discusses it a bit . ************************************************** ** Nature Methods Published online: 15 March 2009 | doi:10.1038/nmeth.1311 Iwanka Kozarewa1,2, Zemin Ning1,2, Michael A Quail1, Mandy J Sanders1, Matthew Berriman1 & Daniel J Turner1 Abstract Amplification artifacts...

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Oxford Nanopore publishes proof-of-concept paper

Fri, 27 Feb 2009 19:00:56 +0000

Continuous base identification for single-molecule nanopore DNA sequencing A single-molecule method for sequencing DNA that does not require fluorescent labelling could reduce costs and increase sequencing speeds. An exonuclease enzyme might be used to cleave individual nucleotide molecules from the DNA, and when coupled to an appropriate detection system, these nucleotides could be identified in the correct order. Here, we show that a protein nanopore with a covalently attached adapter...

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ChIP-Seq Challenge

Tue, 13 Jan 2009 20:13:26 +0000

Community ChIP-Seq Challenge 1.0 Hello Folks, We need your help! Yes you! Here is an experiment in open community development. We are not sure it will work but hope it will help with a growing problem�. Given the dozen or so ChIP-Seq analysis applications currently available, we would like to know which algorithms are the best with respect to 1) identifying real ChIP-Seq peaks and 2) estimating confidence in them with a false discovery rate. We propose a series of tests using spike-in...

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Oxford Nanopore and Illumina Announce Strategic Alliance

Mon, 12 Jan 2009 12:50:00 +0000

Very interesting news

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Volunteers wanted! Sequencing Quality Control Project (SEQC)

Mon, 29 Dec 2008 18:13:12 +0000

Volunteers wanted to participate in the SEQC project to objectively assess the technical performance of different next-generation sequencing technologies in DNA and RNA annalyses and to evalulate the advantages and limitations of various bioinformatics solutions in handling and analyzing the massive new data sets. This project is open to the public. Must sign up by Jan. 9. See full notice, description, contact info at from the Federal Register announcement December 23, 2008 Sponsored by...

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Epi Review: "Epigenetics meets next-generation sequencing" (OPEN ACCESS!)

Wed, 24 Dec 2008 03:35:02 +0000

Just saw a review about NGS epigenetics applications in the relatively new journal . Best part is, the article is open access. Abstract below, and link to the PDF at the end. . Kudo's to Epigenetics!

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Useful paper for GA users (Sanger's process improvements)

Sun, 30 Nov 2008 22:30:32 +0000

Here's a paper from the Sanger, talking about their experiences and process improvements with the genome analysers: Quail ME, Kozarewa I, Smith F, Scally A, Stephens PJ, Durbin R, Swerdlow H, Turner DJ Nature Methods 2008; 5(12): 1005-10 The Wellcome Trust Sanger Institute is one of the world's largest genome centers, and a substantial amount of our sequencing is performed with 'next-generation' massively parallel sequencing technologies: in June 2008 the...

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Pac Bio Proof-of-Concept Science Paper on Single-Molecule Sequencing Technology

Thu, 20 Nov 2008 23:45:39 +0000

Pacific Biosciences published a proof-of-concept study at online today in Science. Below is detailed news from Genomeweb: And the article is linked below:

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New Applications Forums

Wed, 19 Nov 2008 21:41:35 +0000

In an effort to increase the organization of the discussions and make things easier to find...I've created a new set of "Applications" forums: My intent is to segment the purely scientific/biology discussions away from the previously instrument provider-focused areas. I think this organization offers more opportunity for people with different instruments to cross-pollinate, as regardless of what chemistry/instrument produces the data, the biology remains (roughly!) the same. I...

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2008 ASHG Meeting Nov 11-15th, Philadelphia, PA

Tue, 11 Nov 2008 04:36:20 +0000

The 58th annual meeting of the American Society of Human Genetics starts within hours. The homepage of the conference is . Unfortunately, I won't be making it this year, from the (huge PDF warning) it looks like there will be an amazing amount of interesting stuff going on.

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ABI SOLiD $10k Grant Program: 60GB Mappable Sequencing Data

Tue, 04 Nov 2008 16:38:22 +0000

This just hit my inbox. AB has launched a grant program for SOLiD runs. They are giving away a significant number of reads to the best research project proposals.

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