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HP & Life Sciences - Overview
Lionel Binns, Worldwide Life and Material Sciences Manager,
Hewlett-Packard
Duration: 15 mins
SynaBASE – A Structured Database for Genetic Sequence
Data
Robert Hercus, Managing Director, Synamatix
SynaBASE, a structured database for genetic sequence data developed
by Synamatix as part of an integrated suite of applications for analyzing
genetic data. A product demonstration will highlight the salient features
of SynaBASE and provide the audience with an understanding of how our
approach to storing, analyzing and retrieving genetic information in
SynaBASE can offer valuable improvements over other analysis techniques
employed today. Duration: 30 mins
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HP & Life Sciences - Overview
Lionel Binns, Worldwide Life & Material Sciences Manager, Hewlett-Packard
Duration: 15 mins
Infrastructure & Grid computing for Life Sciences
Lindsay Hood, Life & Materials Sciences Group, Hewlett-Packard
"Life sciences" is a simple name for a very broad and complex
business. Life sciences incorporates everything from fundamental research
in genetics and biology through the discovery of drug and treatment modalities
and their development and finally to the use of these treatments in the
clinical setting and the ongoing monitoring of patients. And many other
things!
This talk will cover a brief outline of the IT infrastructure required
primarily for the discovery phase of the disease and drug development
process, and will touch on issues like data storage, sequence comparison,
data integration (including clinical information). Grid computing technologies
are an important aspect of this infrastructure. HP aims to be the partner
of choice for the provision of solutions to the life sciences community,
and this talk will outline solutions where HP has provided institutions
such as the Sanger Institute this infrastructure. Duration: 30-40 mins
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HP & Life Sciences - Overview
Lionel Binns, Worldwide Life and Material Sciences Manager,
Hewlett-Packard
Duration: 15 mins
Intelligent Querying
Lorrainne Noffke, Vice President Asia Pacific, GeneticXchange
Life science data tends to be complex, i.e. for any given record, there
may be many levels of nesting, each with many levels of logical structure,
such as bags, sets, lists and so on. This is no accident, this is how
biologists understand their data, as seen for example in a Genbank record.
The data integration platform of choice for the worldwide I.T. community
is the SQL RDBMS, which of course holds data only in 2-dimensional tables,
i.e. rows and columns. A typical Affymetrix chip however will generate
complex data records which may need to be broken into some 60-80 pieces
to fit sensibly into pre-created tables of this form. This requires quite
a bit of work, and then of course more work has to be done to write the
SQL to join these tables back together again to answer the questions
researchers want asked. So a great deal of unnecessary work has to be
done – typically in thro-away perl scripts - to flatten complex
life science data and get it in and out of RDBMS that were not built
for the task.
Of course, if the work only had to be done once, then it would be costly,
but then productivity could resume. However, all bioinformaticans know
that new data sources appear all the time so that new RDBMS schemata
and load routines need to be written. Then again, old data sources are
constantly changing structurally, so the load programs fall over and
the biologists queries fail to carry on working. There is seldom a solid
framework of metadata published to cushion such changes and as the remote
sources are under someone else’s control, there is no incentive
to facilitate elegant version control management.
This presentation will demonstrate how discoveryHub from geneticXchange
can solve this complex problem.
Duration: 30-40 mins
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HP & Life Sciences - Overview
Lionel Binns, Worldwide Life and Material Sciences Manager,
Hewlett-Packard
Duration: 15 mins
Beyond LIMS - Extending Solutions for the Life Sciences
Anwar Chan, Vice President Business Development, KOOprime
Pte Ltd
Pharmaceutical, biotechnology and life science organizations are knowledge
generation machines and any organization that does not manage that knowledge
will be at a competitive disadvantage. The mounting demand to improve
efficiency and effectiveness of existing processes and an imperative
need to develop new niches are creating pressure for life science organizations
to streamline their operations and seek out knowledge management tools
to handle the growing mountains of data that exists today.
These challenges are formidable. Essentially, it is a crucial need for
you to be able to integrate disparate technologies regardless of the
operating systems in use and to do so in a distributed environment. From
the point at which the scientist receives the samples to the wet laboratory
work that he has to carry out leading to the analysis that takes place
which may lead him to greater discoveries. This diligence will enable
data to be effectively organized and allow for analysis. Ultimately,
the nature of the life sciences requires that IT systems are not monolithic
but able to evolve with changing organizational needs.
The recent advances in technology in areas such as High Throughput Screening
and DNA Microarrays, has led to an exponential growth in the amount of
data generated. There is an abundance of valuable knowledge waiting to
be mined in these vast repositories of data. However, it is almost impossible
to analyze this data without using techniques and tools such as data
warehousing and data mining. Furthermore, the data obtained from disparate
vendor instruments and operating systems is largely incompatible with
one another. It is a tedious and challenging task to regularly preprocess/scrub
this data before storing it into a data warehouse. Fortunately, automated
workflows can be developed to model these repetitive processes in the
enterprise and to automatically perform the tasks of data collection,
data integration and automation.
We understand that speed to market is critical to success. Technology
has proven an invaluable tool in reducing the cost and length of the
research and development cycle. Our life science solutions deliver the
technological horsepower needed to help organizations achieve their goals
for speed, flexibility, and efficiency. KOOPrime’s diverse portfolio
of systems, combined with software and services from established partners
such as HP, can deliver the solutions to accelerate and streamline R&D.
These automated solutions enable cutting-edge initiatives, from knowledge
management to online collaboration.
Duration: 30-40 mins
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