Predictive Biomedicine -- Informatics tools and strategies driving decisions 

Mining Based Search to Navigate Biomedical Literature

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Contact the Editor 

We invite your comments and feedback for this edition of Predictive Biomedicine.
John Russell
Executive Editor

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Microsoft Launches Amalga Life Sciences 
The Dagdigian Doctrine 
Eric Schadt Leads Network News 
Bio-IT World Announces 2009 Best Practices Awards
DREAM Project Vision Expands
Short News & Analysis
Accelerate the pace of new discoveries

Microsoft Launches Amalga Life Sciences
By John Russell

Microsoft introduced Amalga Life Sciences this week at the annual Bio-IT World Conference & Exposition. Amalga LS is the next step in Microsoft’s ambitious plan to create a single information highway and data aggregation/modeling platform--Amalga--that spans basic research, clinical trials, health care delivery, and consumer health information needs.

"We think of this as an information supply chain where information can flow in the right way, at the right time, and in the right context. Think of five broad categories of activities: collect, validate, store, analyze, and share. Amalga LS can navigate through this data and connect even dissimilar forms of data, such as biochemical data, EMR, pathway data, gene ontologies, expression data and so on," says Jim Karkanias, senior director of applied research, Microsoft Health Solutions Group. More.

Patient Recruitment in Clinical Trials

2009 Bio-IT World Conference Highlights

The Dagdigian Doctrine
By Kevin Davies

In the opening keynote of the 2009 Bio-IT World Conference & Expo, Chris Dagdigian delivered a candid assessment of the best, the worthwhile, and the most overhyped information technologies (IT) for life sciences. More.

Eric Schadt Leads Network News 
By Kevin Davies

Eric Schadt, the Rosetta/Merck biomathematician who is in the process of setting up a new non-profit organization called Sage, gave a powerful testament in his keynote address to the need to focus on non-linear biological networks, rather than linear pathways, as the future of disease research and drug discovery. More.

2009 Best Practices Award Winners 

Bio-IT World announced the winners of its fifth annual Best Practices Awards program at a gala dinner last night at the World Trade Center in Boston, site of the 2009 Bio-IT World Conference & Expo. Among the winners of the peer-reviewed competition, across eight life sciences categories, were: Abbott Laboratories, Amgen, AstraZeneca, the Broad Institute, Children's Hospital of Philadelphia, Genedata, Genentech, GlaxoSmithKline, Merck, National Center for Genome Resources, Vanderbilt University, and Wyeth Research. More.

 World Pharmaceutical Congress - June 9-11, 2009

Top Story Last Issue
DREAM Project Vision Expands
By John Russell

Almost exactly three years ago, organizers of DREAM--Dialogue on Reverse Engineering Assessments and Methods--sketched an ambitious plan help improve network predictions (inferences) in life science. The plans was to conduct a yearly DREAM challenge with blinded data sets; invite predictions; hold a conference to discuss results; build a repository of better methods for network inferencing; and foster ongoing dialogue among computational biologists seeking to develop and use these tools. So how's it going? More.


Short News & Analysis

(Click Here for Full Briefs)

IOI Releases Latest Sentient Suite Knowledge Explorer
The latest version of Sentient Suite Knowledge Explorer 2.0 was shown at this week's Bio-IT World Conference..

Genedata Releases Screener 7.0 
Screener 7.0 combines an enterprise-wide assay data management platform with high-performance processing workflows..

NHGRI Releases Free Online Toolkit
This first version of a free online toolkit is aimed at standardizing measurements of research subjects' physical characteristics..

Inforsense Partners with Tessella
Tessella will become a systems integrator for InforSense and..

Former Wyeth President of R&D Joins GNS SAB
Gene Network Sciences named Robert Ruffolo to its Scientific Advisory Board. Ruffolo retired in 2008..

Amgen's Stunning New Angiogenesis Website
Amgen has released a new website meant to educate health care providers on the biology of angiogenesis..

Linguamatics Integrates ChemAxon Technology
Linguamatics will integrate ChemAxon's substructure and structure similarity search capabilities into the I2E..

Cardiff U Becomes a GeneGo Center of Excellence
Cardiff University researchers will have access to GeneGo's MetaCore, training and advanced support..

(Click Here for Full Briefs)



Manager, Advanced IT Core(AITC) -Indiana University School of Medicine
Reports to Senior Manager for Life Sciences in Research Technologies. Requires coordination of AITC services, supervision of select R&D projects, external funding initiatives, partnering with key academic researchers, conducting relevant independent research, advising on new strategic technologies and facility designs, and development of training programs.
Qualifications Include:
* Master's Degree in Biology, Bioinformatics, or Informatics with medical research background.
* Five to seven years of related work and leadership experience.
* Expert knowledge of computational biology, particularly genomics, proteomics, research pipelines, data management, and analytical algorithms required.
Complete description, requirements and application can be found at:
Indiana University is an Affirmative Action/Equal Employment institution.

Biotechnology Information Management TeamBiotechnology Information Management team
Seeks an individual to strategically lead and drive solutions for data management needs stemming from external scientific collaborations.  MS in Biology, Bioinformatics, Computer Science, etc. required.  Applications must be submitted at for consideration. Select req # mons-00010265.  We offer very competitive salaries and an extensive benefits package.   Monsanto values diversity and is an equal opportunity employer. M/F/D/V

Support Engineer
Titian leads the industry in the supply of software that empowers customers in the management of their scientific samples.  Located in Hopkinton, Massachusetts, this position is responsible for the resolution of customer support issues. Candidates should hold a 4 year degree, have a technical background in software or research informatics, have 4+years of experience supporting data management and software solutions, and be proficient in C#.NET, VB6, PL/SQL, ASP. For additional information on this position and our company, visit our website at To apply, email resume and salary history to

To have your job openings featured here, contact Lynn Cloonan for more information.



Make better IT decisions-free whitepaper

Secure Web Conferencing-Complimentary Webinar

Translational Research-Editorial Report

Cloud Computing is changing Pharmaceutical IT - Free white paper

Managing Next-Generation Sequencing Data-Podcast! 

LIMS for Enhanced Productivity 

Novoseek, the biomedical search engine based in text mining technology.

Free Electronic Notebook Webinar: Enhance workflow and collaboration. 

To have your product or service featured here, contact Lynn Cloonan for more information.


Insight Pharma Reports

Direct-To-Consumer Genetic Testing: Business Prospects in the United States 
Author: Kathie L. Wrick, Ph.D 

Direct-To-Consumer Genetic Testing: Business Prospects in the United StatesGenetic testing has come a long way since the development of the first genetic test in 1963. According to NIH, almost 1,500 genetic tests are now in use. This report focuses on health-related decision making applications of DTC genetic tests and examines various components of this emerging business environment. Read more.



Bio-IT World Conference & Expo -- April 27-29, 2009   

The 2009 BIO International Convention has you covered - May 18-21, 2009

DIA 45th Annual Meeting, June 21-25, 2009, San Diego, CA

Barnett Educational Services 

Cambridge Healthtech Events 

To have your event featured here, contact Lynn Cloonan for more information.

 Email to a Friend

Leveraging Text-Mining 
Based Search to Navigate Biomedical Literature 
Sponsored by: Bioalma

With the amount of research data available today estimated at 18 million documents across more than 20,000 medical journals, it is more important than ever that students, researchers, professionals, doctors, and librarians have easy access to the latest research information available.Download the paper

To have your white paper featured here, contact Lynn Cloonan for more information.


Translational Research Briefing ON Report
Sponsored by: GenoLogics

The varied collection of Bio-IT World articles and insights assembled in this Briefing ON examines:
The impact of integrating clinical data back into the research and development pipeline.
Using information gathered from physical samples, databases, and clinical trials to benefit the design and performance of future research. Download the complimentary report 

Coherent IT Strategy for
Fast-Moving R&D
Sponsored by: Tessella

Putting value on an IT strategy is easier with an end-to-end view, from target to market, of the cause and effect of good and bad information and decisions. This forges the essential link between science, information, IT and business funding of the IT investment. Download now 


NEW! Life Science Webcasts from Bio-IT World and Cambridge Healthtech Media Group

Life Science Webcasts
Boguski's Resounding Health
Mark Boguski is launching a new direct-to-consumer Internet search firm called Resounding Health and he tells Bio-IT World Editor, Kevin Davies, all about it. His goal is to create "value-adding process networks" to provide "the most cost-effective management of chronic diseases in the near future." When the Resounding Health "brain" achieves a critical mass of validated and important connections, "we will have in effect crowdsourced a revolutionary new, e-patient-friendly textbook of personalized medicine and customized care." View the webcast.

Open Source Models for Personalized Medicine
Through the company he founded, CollabRx, Jay "Marty" Tenenbaum aims to leverage the extraordinary untapped expertise and resources across the industry to empower individual patient health care through personalized research. View the webcast.

Modeling Caloric Restriction
Using their causal network modeling (CNM) platform, Renee Kenney and her team at Genstruct helped Sirtris Pharmaceuticals model how two of their SIRT1 compounds worked and show that one compound in particular is much more potent at mimicking caloric restriction than resveratrol, an active ingredient in red wine.
 View the webcast.

Paul Bleicher, Looking Back at Phase Forward
After founding Phase Forward more than a decade ago and serving as Chairman until late last year, Paul Bleicher has had a prime perch from which to observe and drive change in the e-clinical industry. In this exclusive Life Sciences TV Webcast to mark his decision to step down as Chairman last year, Bleicher looks back with Bio-IT World Editor Kevin Davies on a decade of achievement and hints at his next venture in the health care arena.
 View the webcast.


View the Predictive Biomedicine newsletter archives here.

Cambridge Healthtech InstitutePublished by Cambridge Healthtech Media Group, division of CHI, Copyright © 2009; All rights reserved. Predictive Biomedicine may not be reproduced, electronically or in print, by any means, mechanical or electronic, in whole or in part, without written permission of Cambridge Healthtech Media Group, 250 First Ave., Suite 300, Needham, MA, 02494. 
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