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Bioinformatics News 10/2009

Orexigen's Empatic Phase 2b results exhibit meaningful weight loss (News-Medical-Net)
Orexigen® Therapeutics, Inc. today announced that its 24-week, Phase 2b trial for Empatic(TM) (bupropion SR/zonisamide SR), the Company's second late stage investigational combination drug for the treatment of obesity, met its primary efficacy endpoint by demonstrating statistically significantly greater weight loss for both Empatic doses compared to monotherapies and placebo.

OICR completes evaluation of NEB's new reagents for use with the Illumina Genome Analyzer (News-Medical-Net)
Dr. John McPherson, Platform Leader, Cancer Genomics and High-Throughput Screening, and Dr. Kamran Shazand, Project Manager, of the Ontario Institute for Cancer Research (OICR) led a team of scientists who have completed a thorough evaluation of the NEBNext(TM) DNA Sample Prep Reagents for use with OICR's Illumina® Genome Analyzer II.

The National Cancer Institute Selects Integral Molecular to Map Epitopes on Cancer Biomarkers using Shotgun ... (Business Wire via Yahoo! Finance)
PHILADELPHIA----Integral Molecular, Inc. has been selected by the National Cancer Institute to map epitopes for monoclonal antibodies directed against cancer biomarkers. Protein targets of interest to the Clinical Cancer Proteomics community will be analyzed using Shotgun Mutagenesis Mapping technology to identify amino acids that are essential for antibody binding, allowing the discovery and ...

NCI selects Integral Molecular to map epitopes for monoclonal antibodies (News-Medical-Net)
Integral Molecular, Inc. has been selected by the National Cancer Institute (NCI) to map epitopes for monoclonal antibodies directed against cancer biomarkers. Protein targets of interest to the Clinical Cancer Proteomics community will be analyzed using Shotgun Mutagenesis Mapping technology to identify amino acids that are essential for antibody binding, allowing the discovery and ...

Researchers present MRAM-based FPGA architecture (EETimes)
Researchers at the Montpellier Laboratory of Informatics, Robotics and Microelectronics, in France, claimed they have developed a FPGA circuit based on non volatile resistive memory cell.

New Products (GenomeWeb News)
Agilent Technologies this week launched the Agilent Complex Proteomics Standard for the validation of mass spectrometry-based workflows for protein identification.

Related Articles (Pharmaceutical Business Review)
KINAXO Biotechnologies has added KinAffinity to its service portfolio. KinAffinity provides invaluable information about a kinase inhibitor’s selectivity in a cell or tissue of interest.

Cold Spring Harbor Protocols features RNA analysis methods (EurekAlert!)
( Cold Spring Harbor Laboratory ) Techniques for isolating RNA and for uncovering its interactions with proteins have taken on new importance as many laboratories define the roles of specific RNAs in the cell. The October issue of "Cold Spring Harbor Protocols" features two articles detailing methods for RNA analysis in zebrafish and the worm C. elegans.

Genomics and Universal Healthcare (GenomeWeb News)
If the US enters the genomics-based medicine age without universal healthcare, Jeremy Grushcow at The Cross-Border Biotech Blog says that "it will exacerbate existing inequalities and create new ones we haven't even imagined."

ANTI-ATKINS LOW PROTEIN DIET EXTENDS LIFESPAN IN FLIES (Newswise)
This study, appearing in Cell, provides details of a causal relationship between diet and mitochondrial function. It also provides the first genome-wide study of how proteins are translated under dietary restriction in any organism. Flies fed a low protein diet live longer because their mitochondria function better. The molecular mechanisms involved are conserved among many species making the ...

'Anti-Atkins' low protein diet extends lifespan in flies (EurekAlert!)
( Buck Institute for Age Research ) This study, appearing in Cell, provides details of a causal relationship between diet and mitochondrial function. It also provides the first genome-wide study of how proteins are translated under dietary restriction in any organism. Flied fed a low protein diet live longer because their mitochondria function better. The molecular mechanisms involved are ...

Reportlinker Adds In Vitro Diagnostics US Market Report (PR Newswire via Yahoo! Finance)
Reportlinker.com announces that a new market research report is available in its catalogue.

Human Proteome Organization honors PNNL scientist (EurekAlert!)
( DOE/Pacific Northwest National Laboratory ) Laboratory and Battelle Fellow Dick Smith of the Department of Energy's Pacific Northwest National Laboratory has been recognized by the Human Proteome Organization for his many accomplishments in pioneering the development of proteomics tools.

United States and Four Latin American Countries Partner to Battle Cancer (National Institutes of Health)
The United States National Cancer Institute (NCI), part of the National Institutes of Health, formalized bilateral partnerships this week with the governments of Argentina, Brazil, Mexico, and Uruguay, to accelerate progress against cancer in Hispanic populations in the United States and Latin America and improve cancer research.

Longer-lived, healthier mice offer promise of drug treatments for age-related diseases (EurekAlert!)
( Wellcome Trust ) Scientists have managed to extend the lifespan of mice by up to a fifth and reduce the number of age-related diseases the animals suffer. The research, which involved blocking a key molecular pathway, mimics the health benefits of reducing calorie intake and suggests that drug treatments for aging and age-related diseases are feasible.

NCI Awards Integral Molecular $150K to ID Cancer Biomarkers (GenomeWeb News)
NEW YORK (GenomeWeb News) – Integral Molecular said today that the National Cancer Institute has awarded it a $150,000 contract to map epitopes for monoclonal antibodies directed against cancer biomarkers.

UCSC breaks in new Extension Service in Silicon Valley (Santa Cruz Sentinel)
SANTA CLARA - Not unlike Silicon Valley itself, UC Santa Cruz Extension in Silicon Valley has downsized and rebranded to save money and meet the changing needs of its customers.

Q&A: Nicola Ancona Compares Gene Set Enrichment Methods Head-to-Head (GenomeWeb News)
Gene set enrichment — interpreting gene expression data by analyzing it within the context of sets of genes in pathways rather than individual genes — has gained ground since researchers from the Broad Institute published their Gene Set Enrichment Analysis method in PNAS in 2005.

HMS Brian Liu on Using Reverse-Capture Microarrays to Discover Disease Biomarkers (GenomeWeb News)
Position: Assistant professor of urology, Brigham and Women's Hospital, Harvard Medical School, since 1999. Background: Assistant professor, Department of Urology, Mount Sinai School of Medicine, 1990-1999.

Different Organs Appear to Have Their Own Time Zones (GenomeWeb News)
SAN FRANCISCO, April 22 - The liver and heart beat to different time keepers, microarray technology has allowed researchers to learn.

Krakow - Poland: An emerging R&D center for US companies (ZDNet)
Krakow, in Poland, is emerging as a key R&D center for many US firms . . .

Federal money boosts local health and social services non-profits (Seattle Times)
Update Friday: The University of Washington said this morning that it will use $25 million in Recovery Act funding from NIH to create a new Northwest Genomics Center and explore the origins of common heart, lung and blood disorders.

UCSC opens leaner Extension program in Silicon Valley (Santa Cruz Sentinel)
SANTA CLARA -- Not unlike Silicon Valley itself, UC Santa Cruz Extension in Silicon Valley has downsized and rebranded to save money and meet the changing needs of its customers.

Professor Jens Reich Received Carl Friedrich von Weizsäcker Award (uniprotokolle)
Professor Jens Reich of the Max Delbrück Centrum for Molecular Medicine (MDC) Berlin-Buch has been honored with the Carl Friedrich von Weizsäcker Award of the National Academy of Sciences Leopoldina and the Stifterverband für die Deutsche Wissenschaft.

ImmunoCellular Therapeutics' Antibody Shows Promise In Detecting Pancreatic And Lung Cancer In Serum Test (Medical News Today)
ImmunoCellular Therapeutics, Ltd. (OTCBB: IMUC), a clinical-stage biotechnology company that is developing immune-based therapies for the treatment of brain and other cancers, announced today results from its pilot study evaluating the cancer detection abilities of one of its lead monoclonal antibody product candidates, ICT-109.

In Memoriam: Wesley Bonds, Pioneered High School Biotechnology Study (Yale University Office of Public Affairs)
Wesley D. Bonds Jr., a former Yale research scientist who helped develop biotechnology instruction programs for high school students, died on Sept. 14.

NCRR Grants Support 'Omics in Five States (GenomeWeb News)
NEW YORK (GenomeWeb News) – Several new grants from the National Center for Research Resources will provide tens of millions of support for resources and programs at various research institutions throughout the country, including funding for genomics, proteomics, bioinformatics, and educational development.

NIH to Fund Resource Centers for Basic Aging Biology (GenomeWeb News)
NEW YORK (GenomeWeb News) - The National Institute of Aging plans to commit $4 million in 2010 to fund research centers that will focus on the basic biology of aging, including molecular and cell biology, genomics, proteomics, flow cytometry, bioimaging, and other ‘omics technlogies.

Low Protein Diet Extends Lifespan In Flies (redOrbit)
Diet boosts mitochondrial function, has implications for humansFlies fed an "anti-Atkins" low protein diet live longer because their mitochondria function better.

Provincial funding for cancer institute (News 91.9)
MONCTON, NB - The Graham government has announced $1 million for the Atlantic Cancer Research Institute (ACRI) at the Dumont Hospital in Moncton. Health Minister Mary Schryer is part of an ongoing commitment by the province to invest $5 million dollars in the institute over the next five years.

Lifespan In Flies Extended By 'Anti-Atkins' Low Protein Diet (Medical News Today)
Flies fed an "anti-Atkins" low protein diet live longer because their mitochondria function better. The research, done at the Buck Institute for Age Research, shows that the molecular mechanisms responsible for the lifespan extension in the flies have important implications for human aging and diseases such as obesity, diabetes and cancer.

Cold Spring Harbor Protocols Features RNA Analysis Methods (redOrbit)
The study of RNA has long been the tool of choice for understanding where and when genes are expressed in a cell, tissue, or organism during development or under specific physiological or environmental conditions.

'Anti-Atkins' Low Protein Diet Extends Lifespan In Flies (Science Daily)
A new study provides details of a causal relationship between diet and mitochondrial function. It also provides the first genome-wide study of how proteins are translated under dietary restriction in any organism. Flied fed a low protein diet live longer because their mitochondria function better. The molecular mechanisms involved are conserved among many species -- making the research relevant ...

Longer-lived, Healthier Mice Offer Promise Of Drug Treatments For Age-related Diseases (Science Daily)
Scientists have managed to extend the lifespan of mice by up to a fifth and reduce the number of age-related diseases the animals suffer. The research, which involved blocking a key molecular pathway, mimics the health benefits of reducing calorie intake and suggests that drug treatments for aging and age-related diseases are feasible.

Funding Update (GenomeWeb News)
This project will investigate the technical and commercial feasibility of a bioinformatic computing appliance based on FPGA technology.

Jackson Lab Mulls Virtualization for Planned Bioinformatics Expansion, Will Hire New Staff (GenomeWeb News)
The Jackson Laboratory will use a $2.1 million grant from the National Center for Research Resources to expand the lab's computational facility and hire additional bioinformatics staff, the lab's CIO told BioInform this week.

At OSU Conference, Hood Touts Family Sequencing as Way Forward for Personal Genomics (GenomeWeb News)
COLUMBUS, Ohio — The future of personal genomics, according to Leroy Hood, is not in randomly sequencing individuals, but sequencing the genomes of entire families.

UW to explore genetic origins of common heart, lung, and blood diseases in federal project (UW News)
The National Heart Lung and Blood Institute has given the UW two of six Large Scale DNA Sequencing grants. The economic stimulus funding will establish the Northwest Genomics Center and support work on the genetics of common, complex disorders.

Grid-Funding Flows (GenomeWeb News)
With the National Science Foundation's recent $30.2 million award to keep the TeraGrid going, which also included $1 million to kick-start the Louisiana Optical Network Initiative and a $10.1 million grant to establish FutureGrid , researchers are going to be united via networks more than ever.

Congress Passes Budget Patch (GenomeWeb News)
NEW YORK (GenomeWeb News) - The federal government’s Fiscal Year 2009 ended this week without a budget for 2010 being passed, so Congress passed a continuing resolution to keep money moving through the government while it completes its appropriations chores for the coming year.

Dionex Closes ESA Biosciences' HPLC Assets Buy (GenomeWeb News)
NEW YORK (GenomeWeb News) - Dionex said today that it has closed its purchase of HPLC products, clinical assays, and lab services from ESA Biosciences' parent company, Magellan Biosciences, in a deal that was struck in mid-September.

Montreal's Pharmacogenomics Centre Creates 38 TB Storage Scratch Pad for Next-Gen Sequencing Data (GenomeWeb News)
As part of its setup for a new Illumina Genome Analyzer, the bioinformatics team at the Montreal-based Pharmacogenomics Centre is ramping up its storage to 38 terabytes to handle data from upcoming sequencing projects by its 25 staff researchers and outside customers.

EBI, Public Labs To Build Database Of DNA Microarray Expression Data (GenomeWeb News)
HINXTON, UK--At least nine public research institutions that generate gene expression information using DNA microarray technology have agreed to begin submitting their results to a new public archive.

It's an Honor Just to Be Nominated (GenomeWeb News)
The folks behind the Benjamin Franklin Award for Open Access in the Life Sciences are accepting nominations now.

Borrowing from the Movies (GenomeWeb News)
What does your spot on the list of authors for a paper mean? And how does that affect your standing in the scientific community? Blogger Coturnix points to a new proposal for author lists to be like a movie's credits . "Each person is listed, some people more than once, and each person's contribution is very well defined," he writes.

$7.2 million grant awarded to develop microbicide-releasing vaginal ring (News-Medical-Net)
The National Institutes of Health has awarded Albert Einstein College of Medicine of Yeshiva University a four-year, $7.2 million grant to develop a microbicide-releasing vaginal ring to prevent HIV transmission.

Advanced Liquid Logic awarded an NIAID contract to develop a rapid HIV diagnostic device (News-Medical-Net)
Advanced Liquid Logic announced today that it has received a large, four-year contract from the National Institute of Allergy and Infectious Diseases, part of the National Institutes of Health, for the development of a rapid, point-of-care, diagnostic device for the detection of HIV in low resource settings.

New Tools in Neuroscience (GenomeWeb News)
It's been just three years since the Allen Institute released its mouse brain atlas — a free, publicly available online tool that allows users to zoom in and out of a 3D brain, search by gene, and see expression data — but in that short time, this revolutionary look at the inner workings of a brain has dramatically changed the way neuroscientists do business.

PNNL scientist Dick Smith awarded Human Proteome Organization's Discovery Award (News-Medical-Net)
Laboratory and Battelle Fellow Dick Smith of the Department of Energy's Pacific Northwest National Laboratory has been recognized for his many accomplishments in pioneering the development of proteomics tools. Scientists use these instruments to study the array of proteins and related molecules that make up much of human blood and tissues.

Genetic Manipulation Mimics Calorie Restriction In Mice, Offering Promise Of Drug Treatments For Age-Related Diseases (Medical News Today)
Scientists have managed to extend the lifespan of mice by up to a fifth and reduce the number of age-related diseases the animals suffer. The research, which involved blocking a key molecular pathway, mimics the health benefits of reducing calorie intake and suggests that drug treatments for ageing and age-related diseases are feasible.


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