Navigation Links
EMBL GeneCore purchases Genomatix's next generation sequencing data analysis solution
Date:2/4/2009

Genomatix Software, a leading provider of complete solutions for the analysis of Next Generation Sequencing (NGS) data, announced today that the European Molecular Biology Laboratory (EMBL) installed a Genomatix Mining Station and a Genomatix Genome Analyzer at its Genomics Core Facility. These systems deliver the only complete and integrated analysis solution for NGS data, from the raw data generated by the sequencer, to a molecular level understanding of the biology being studied.

"Based on joint scientific approaches and collaborations, it is clear that we have a long term relationship with Genomatix. As such, we have received early access to their solution for NGS data analysis," says Dr. Vladimir Benes, Head of Genomics Core Facility at EMBL. "We did thorough tests with real life data sets and were impressed by the speed, ease of use and extended reach into the biology provided by their system. The amount of high quality data being produced at our core facility every day necessitates analysis pipelines that can keep pace."

Klaus May, Chief Business Officer at Genomatix says: "We are very pleased that the EMBL has chosen our GMS and GGA. With our combined hardware/software approach, we are prepared for the arrival of the data tsunami expected from Third Generation Sequencers and beyond. For EMBL, with brilliant scientists from all fields, ease of use was important so that the biologists can readily use the system through it's easy to use graphical interface. The bio-informaticians were equally pleased to find that they could approach the extensive software and data content with command line access. "

The Genomatix Mining Station (GMS) is based on a proprietary genomic pattern recognition paradigm, or GenomeThesaurus, which allows for input of raw sequence reads plus optional quality files from any deep sequencing hardware. It provides ultra fast mapping of sequences of any length (starting from 8 bp) with no practical limits on the number of point mutations and/or insertions and deletions that can be taken into account during the mapping process. Depending on the nature of the experiment, the GMS can provide SNP detection and genotyping, copy number analysis, and small RNA analysis. For ChIPseq data, the GMS delivers clustering and peak finding, and performs automated binding pattern identification. For RNAseq experiments, normalized expression values are calculated at the exon and transcript level. A special GenomeThesaurus is also provided for potential splice junctions, which allows for splice junction analysis and identification of new transcriptional units.

For genomic re-sequencing and newly sequenced genomes, a de novo assembly will be provided.

The Genomatix Genome Analyzer (GGA) delivers downstream software tools and databases for the deep biological analysis of data coming from the GMS. It allows for easy integration and visualization in the terabytes of background annotation of the ElDorado genome database. GGA extensively annotates genomic coordinates and surrounding areas derived by the GMS or any other mapping procedure. Clustering and peak finding, analysis for phylogenetic conservation, large scale correlation analysis with annotated genomic elements, meta-analysis of data correlation between different experiments, pathway mining for groups of identified genes, transcription factor binding site (TFBS) analysis ( identification, over-representation, binding partner analysis, framework identification, phylogenetic conservation, regulatory SNP effects) and much more are all processes carried out on the GGA.

EMBL's Genomics Core Facility (GeneCore) is the in-house genomics service centre at EMBL equipped with state-of-the-art technologies required for functional genomics analyses and operated by highly-qualified staff. The focus is on the benefits and utilization of new technologies, which are also developed at EMBL, to improve the quality, efficiency and relevance of laboratory data.


'/>"/>

Contact: Klaus May
may@genomatix.de
49-895-997-660
Genomatix Software GmbH
Source:Eurekalert

Related medicine news :

1. Quest Diagnostics Board Authorizes $500 Million in Share Repurchases
2. Kuwait Purchases 5.4 Million Doses of Emergency Nuclear Radiation Drug from Nukepills.com
3. AHP Recession Survey of Nonprofit Health Care Officials Finds Almost Half Expect Reduced Giving in 2009, Leading to Cuts in Hospital Construction and Equipment Purchases
4. Fox Chase Cancer Center Purchases CyberKnife System
5. BD Board Declares Dividend Increase and Authorizes Additional Share Repurchases
6. $3.5 Million in Reimbursements for Purchases of Automated External Defibrillators (AEDs) for Texas Schools Still Unclaimed With Deadline Approaching
7. Nektar Therapeutics Repurchases $100 Million of Convertible Debt and Reports Third Quarter 2008 Financial Results
8. AegisLiving Purchases Property in Bellevue for New Senior Living Community
9. Buyers Spend More With Non-Cash Purchases
10. Leading Neurosurgical Center in Moscow Purchases CyberKnife System to Expand Ability to Treat Brain and Spinal Tumors
11. AmeriCares Purchases 2nd BLU-MED Deployable Field Hospital for China Earthquake Relief
Post Your Comments:
*Name:
*Comment:
*Email:
(Date:6/27/2016)... ... June 27, 2016 , ... A revolution is underway. ... ambulance transport experience for the millions of people who require these medical transport ... taxi industry through the use of technology. Now, SmartEMS has put forth an ...
(Date:6/26/2016)... ... , ... PawPaws brand pet supplements owned by Whole Health Supply ... health of felines. The formula is all-natural and is made from Chinese herbs that ... Cat Kidney Support Supplement Soft Chews are Astragalus Root Extract and Rehmannia Root ...
(Date:6/25/2016)... ... June 25, 2016 , ... The temporary closing of Bruton Memorial Library on June ... , brings up a new, often overlooked aspect of head lice: the parasite’s ability to ... is not a common occurrence, but a necessary one in the event that lice have ...
(Date:6/25/2016)... ... June 25, 2016 , ... On Friday, June 10, Van ... Wellness at Work award to iHire in recognition of their exemplary accomplishments in worksite ... 7th annual Maryland Workplace Health & Wellness Symposium at the BWI Marriott in Linthicum ...
(Date:6/24/2016)... ... ... crisis. Her son James, eight, was out of control. Prone to extreme mood shifts and ... him, he couldn’t control his emotions,” remembers Marcy. “If there was a knife on ... say he was going to kill them. If we were driving on the freeway, ...
Breaking Medicine News(10 mins):
(Date:6/24/2016)... Belgium , June 24, 2016 /PRNewswire/ ... announced the appointment of Dr. Edward Futcher ... a Non-Executive Director, effective June 23, 2016.Dr. Futcher ... and Nominations and Governance Committees.  As a non-executive ... provide independent expertise and strategic counsel to VolitionRx ...
(Date:6/23/2016)... June 23, 2016 Research and Markets ... Market - Forecast to 2022" report to their offering. ... method for the patients with kidney failure, it replaces the ... from the patient,s blood and thus the treatment helps to ... chloride in balance. Increasing number of ESRD ...
(Date:6/23/2016)... , June 23, 2016  In a startling report released today, ... their residents by lacking a comprehensive, proven plan to eliminate prescription ... definitive ranking of how states are tackling the worst drug crisis ... four states – Kentucky , New ... Vermont . Of the 28 failing states, three – ...
Breaking Medicine Technology: