Issue 2 - September 2011
Welcome to the second issue of
MetaboNews, a monthly newsletter for the worldwide
metabolomics community. In this month's Statistical Spotlight
article, we feature a commentary
on Statistical Analysis of Metabolomic Data, based largely on
a lecture given by Dr. David Wishart of the University of
newsletter is being produced by The Metabolomics Innovation
Centre (TMIC, http://www.metabolomicscentre.ca/) and is
intended to keep metabolomics researchers and other
professionals informed about new technologies, software,
databases, events, job postings, conferences, training
opportunities, interviews, publications, awards, and other
newsworthy items concerning metabolomics. We hope to provide
enough useful content to keep you interested and informed and
appreciate your feedback on how we can make this newsletter
Note: Our subscriber list
is managed using Mailman, the GNU Mailing List Manager. To
subscribe or unsubscribe, please visit https://mail.cs.ualberta.ca/mailman/listinfo/MetaboNews
Back issues of this newsletter can be viewed from the newsletter archive (http://www.metabonews.ca/archive.html).
1) Statistical Spotlight
2) Biomarker Beacon
3) Metabolomics Current Contents
|28 Sep 2011
MetaMap® Tox - a Novel Technology for Early Safety Enablement in Pharmaceutical Development Successfully Evaluated by Industry Consortium - The Drug Safety Executive Council (DSEC), an industry membership run by Cambridge Healthtech Associates (CHA), together with Metanomics Health GmbH, a BASF Group company, and leader in offering targeted and non-targeted metabolite profiling to healthcare customers, today announced the results of the technology assessment of MetaMap® Tox conducted by DSEC’s Technology Evaluation Consortium.
The consortium concluded that besides identifying key adverse events in test compounds comparable to the gold standard histopathology, MetaMap Tox® , a platform that uses metabolite patterns of rat plasma for early toxicity recognition of new drugs, provides significant additional value beyond results typically received from a 28-day Good Laboratory Practice (GLP) tox study.
The precompetitive consortium consisting of 12 leading biopharmaceutical companies evaluated and determined that there is value and utility in the use of MetaMap® Tox. In particular, the following areas are complementary to standard 28 day GLP tox studies: assessment of toxicity mechanisms of action and target organs, evaluation of systemic toxicity reactions, lead compound selection and toxicity differentiation for compounds with similar chemical structure and pharmacology.
The platform has been developed by Metanomics Health GmbH, a BASF Group company, and leader in offering targeted and non-targeted metabolite profiling to healthcare customers, and is already in routine use within the BASF Group.
|22 Sep 2011
21st century vaccines -- innovation in design and rational use - Innovation in the design of vaccines is rapidly expanding their use, safety, and effectiveness for disease prevention and therapeutic interventions. The enormous potential of OMICS sciences for global health and vaccine design is examined in "Vaccines of the 21st Century and Vaccinomics," a special issue of OMICS: A Journal of Integrative Biology, the peer-reviewed journal published by Mary Ann Liebert, Inc. The issue is available free online.
"Truly a fresh new look at how we design vaccines and apply them judiciously to benefit global health is essential and timely in the present age of data enabled science and postgenomics integrative biology," writes Eugene Kolker, PhD, Editor-in-Chief of OMICS, and Chief Data Officer, Seattle Children's Hospital, and Head, Bioinformatics & High-Throughput Analysis Laboratory, Seattle Children's Research Institute, and the Special Issue Guest Editor Vural Ozdemir (Associate Professor, McGill University, Canada), and co-authors of the Introductory Editorial, Tikki Pang (World Health Organization, Geneva, Switzerland), Bartha M. Knoppers, Denise Avard, Ma'n H. Zawati (Centre of Genomics and Policy, Department of Human Genetics, Faculty of Medicine, McGill University), and Samer A. Faraj (Desautels Faculty of Management, McGill University).
Despite advances in public health in the 21th century, we still lack safe and highly effective vaccines against the common pathogens seriously affecting global society such as neglected tropical diseases and helminth infections, tuberculosis, HIV, and malaria. These gaps in global health are deepened further by the lack of development of new antimicrobial drugs. The new field of vaccinomics relies on the integrated use of multi-omics data intensive biotechnologies (e.g., genomics, proteomics, metabolomics) to understand individual and population differences in immune responses to vaccines. Vaccinomics holds great promise for the design of safer and more effective vaccines, and their targeted rational use via novel postgenomics diagnostics to prevent and combat infectious diseases, and to intervene in chronic non-communicable diseases such as cancer, diabetes, and obesity.
Featuring global contributions from leading experts in Australia, Asia, Europe, and North America, "Vaccines of the 21st Century: Vaccinomics for Global Public Health" includes a series of articles on cutting-edge topics such as the conceptual basis of vaccinomics; high throughput ''game changing'' experimental approaches for 21st century vaccine design; case studies including previously neglected tropical diseases vastly affecting the developing countries (e.g., vaccinomics for helminth infections); the new therapeutic cancer vaccines; social science and policy analyses on vaccinomics and global health convergence, and the current strategies for vaccinomics-enabled rational vaccine design deployed by the vaccine industry.
|13 Sep 2011
MetaboLab - advanced NMR data processing and analysis for metabolomics
Background: Despite wide-spread use of Nuclear Magnetic Resonance (NMR) in metabolomics for the analysis of biological samples there is a lack of graphically driven, publicly available software to process large one and two-dimensional NMR data sets for statistical analysis.
Results: Here we present MetaboLab, a MATLAB based software package that facilitates NMR data processing by providing automated algorithms for processing series of spectra in a reproducible fashion. A graphical user interface provides easy access to all steps of data processing via a script builder to generate MATLAB scripts, providing an option to alter code manually. The analysis of two-dimensional spectra (1H,13C-HSQC spectra) is facilitated by the use of a spectral library derived from publicly available databases which can be extended readily. The software allows to display specific metabolites in small regions of interest where signals can be picked. To facilitate the analysis of series of two-dimensional spectra, different spectra can be overlaid and assignments can be transferred between spectra. The software includes mechanisms to account for overlapping signals by highlighting neighboring and ambiguous assignments.
Conclusions: The MetaboLab software is an integrated software package for NMR data processing and analysis, closely linked to the previously developed NMRLab software. It includes tools for batch processing and gives access to a wealth of algorithms available in the MATLAB framework. Algorithms within MetaboLab help to optimize the flow of metabolomics data preparation for statistical analysis. The combination of an intuitive graphical user interface along with advanced data processing algorithms facilitates the use of MetaboLab in a broader metabolomics context.
Source: C. Ludwig and U. Günther, BMC Bioinformatics 2011, 12:366
4 Oct 2011
ASMS Asilomar Metabolomics meeting
We will challenge ideas and concepts throughout the conference and have allocated ample time for discussions, e.g., during evening receptions. In addition to invited speakers, there will be poster sessions and oral contributions based on abstract submissions. We will focus on a range of hot topics, including: databases; metabolite/gene annotations; fluxes; compound identifications; metabolite imaging; secondary metabolism; metabolomics in human diseases; and quality control for high-throughput metabolomic quantifications.
Download conference brochure
For more information, please visit http://www.asms.org/Conferences/AsilomarConference/GeneralInformation/tabid/99/Default.aspx.
7th annual Advances in Metabolic Profiling
The conference will be co-located with Mass Spec Europe. Registered delegates will have access to both meetings ensuring a very cost-effective trip.
For more information, please visit http://www.selectbiosciences.com/conferences/AMP2011/.
International Conference on Natural Products
(ICNP2011) - Metabolomics
New Frontier in Natural Products Science
The conference is being organised by the Universiti Putra Malaysia and Malaysian Natural Products Society. The conference will be held at Palm Garden Hotel, IOI Resort, PUTRAJAYA from 13th -16th November 2011.
For more information, please visit http://www.icnp2011.upm.edu.my/index.html.
International Conference and Exhibition on
Metabolomics & Systems Biology
Metabolomics-2012 will serve as a catalyst for the advances in the study of Metabolomics & Systems Biology by connecting scientists within and across disciplines at sessions and exhibition held at the venue, creates an environment conducive to information exchange, generation of new ideas, and acceleration of applications that benefit Research in Metabolomics & Systems Biology.
Conference Highlights the following topics:
For more information, please visit http://omicsonline.org/metabolomics2012/.
analytica Conference 2012
In various symposiums, leading scientists from all over the world report on the latest developments, current trends and visions of the future. Analytic, diagnostic, biochemical and molecular biological methods and procedures are discussed here. On the last occasion, 140 well-known experts gave talks in 23 different thematic symposiums.
Main subject emphases/highlights of the analytica Conference 2010
For more information, please visit http://www.analytica.de/en/Home/congress/conference-program.
METABOLOMICS 2012: Breakthroughs in plant,
microbial and human biology, clinical and
nutritional research, and biomarker discovery
Local Organisers: Dan Bearden, Rick Beger, Rima Kaddurah-Daouk, Lloyd W. Sumner, Don Robertson, Padma Maruvada and Donna Kimball.
For more information, please visit http://www.metabolomics2012.org.
Please note: If you know of any metabolomics lectures, meetings, workshops, or training sessions that we should feature in future issues of this newsletter, please email Ian Forsythe (firstname.lastname@example.org).
6) Metabolomics Jobs
|Job Title||Employer||Location||Date Posted||Source|
||BASF – The Chemical Company
||Florham Park, New Jersey
||Metabolomics Society Jobs|
R&D Long Term Research Exercise Biology &
||New Haven, CT
(Greater New York City Area)
Director - Bioinformatics
Scientist 208819 (NCI) Job
||Frederick, MD, US
(Washington D.C. Metro Area)
Scientist, Metabolomics Platform Job
||PepsiCo||New Haven, CT
(Greater New York City Area)
Spectrometry Sales Specialist
(Montreal, Canada Area)
Research Associate position to analyze plant
||Iowa State University
Fellow in Metabolomics
Fellow: Biomarkers of Disease in Dairy Cows
||University of Alberta
Ian J. Forsythe, M.Sc.MetaboNews
| This newsletter is produced by The
Metabolomics Innovation Centre (TMIC, http://www.metabolomicscentre.ca/) for
the benefit of the worldwide metabolomics community.