Taking on Precision Medicine with Industrialized Proteomics

Apr 18, 2016 | Blogs, Life Science Research, OneOmics, Proteomics | 0 comments

 

White House, EU, UK, and Australia Make Major Investments

What if we could deliver the right treatment at the right time, to the right person to better, more effectively treat complex diseases? This is the promise of precision medicine, to be able to approach complex disease treatment and prevention by taking into account individual variability in genes, environment, and lifestyle for each person.

Many of today’s medical treatments have been designed for the masses while the promise of precision medicine is to build treatments that are constructed around specific diseases and individual characteristics. For example, if the genetic profile of an individual’s tumor could be measured, physicians can better manage cancer treatment by using the right drug for that genetic profile, which should lead to better outcomes and reduced adverse effects.

New White House Initiative Announced – USA
During President Obama’s 2015 State of the Union address, he announced the launch of the Precision Medicine Initiative (PMI). This new research effort is slated to revolutionize how we improve health and treat disease. In December 2015, President Obama signed into law a budget agreement that earmarked $200 million specifically for the advancement of precision medicine.

Watch Jo Handelsman, Associate Director for Science in the Office of Science and Technology Policy, explains the Precision Medicine Initiative and its significance.

EU Personalized and Precision Medicine Initiatives
Numerous efforts in the EU are promoting advances in precision medicine. As an example, a European Parliament brief on personalized medicine highlights how the Luxembourg Council Presidency has made personalized medicine one of its health priorities. The Innovative Medicines Initiative (IMI), another public/private partnership, facilitates collaborations between key stakeholders and provides financial support to major research projects, to accelerate the development of new treatments. The initiative’s second phase, IMI 2, started in 2014. Its goal is to develop next-generation vaccines, medicines, and treatment, in particular, new and approved diagnostic markers for immunological, respiratory, neurological and neurodegenerative diseases. The total budget for IMI 2 is €3 276 billion.

UK Establishes The Precision Medicine Catapult
Established in April 2015, the Precision Medicine Catapult is the UK’s new national innovation center for precision medicine. Its aim is to make the UK the most attractive place in the world in which to develop precision medicine tests and therapies. It is funded by Innovate UK, the Government’s innovation agency, and has been funded with £50m in its first five years.  It will partner with precision medicine clusters across the UK to deliver a national strategy while also bringing impact to local healthcare.

Australia’s Children’s Medical Research Institute (CMRI) Works to Advance Precision Medicine
The high throughput ProCan facility will be established with $10 million in seed money from The Australian Cancer Research Foundation. Over the next five years, scientists at CMRI will analyze tens of thousands of examples of all types of cancer from all over the world to develop a library of information to advance scientific discovery and enhance clinical treatment worldwide. These studies will profile thousands of tumor samples per year, enable discoveries around the causes of cancer, provide guidance of cancer treatment options, and work to produce standard operating procedures for other facilities around the world.

The SCIEX Solution
As the promise of precision medicine continues to evolve, researchers will need powerful tools and application support to perform the Omics research that creates the scientific foundation of precision medicine. SCIEX industrialized proteomics solutions, using SWATH acquisition-based workflows and powered by the cloud with the OneOmics suite, will enable large-scale proteome studies to advance research. 

SCIEX partners with the University of Manchester to develop biomarker discovery centre and multi-omics center for Precision Medicine. Read more >

Learn How SCIEX and Children’s Medical Research Institute have joined forces to advance the promise of precision medicine. Read more > 

With SCIEX technologies, you can accelerate the pace of your research to identify key genes, proteins, lipids and metabolites in complex systems biology and then integrate your findings to gain a comprehensive insight to further understand health and disease.

Want to know more about available methods? Comment below!

ProteinPilot phosphopeptide library and DIA-NN

I have prepared a spectral library for a phosphopeptide enriched sample and I am generating my SWATH samples from similarly enriched samples. The problem is that when I use DIA-NN for the retention time alignment and quant, it doesn’t recognise the terminology of the spectral library annotated by ProteinPilot. DIA-NN recognises Unimod:21 for phosphorylation, but PP uses phospho(Tyr) etc. Other than changing the data dictionary to get around the mismatch, anyone have any suggestions for how I might resolve this? Thank you, Roz

Current proteomics software compatibility for ZenoTOF 7600 system

Below is a summary of various other software packages that are useful for processing proteomics data from the ZenoTOF 7600 system.  Note this list is not comprehensive and only covers the tools we have lightly tested to date. Acquisition Type Software Files needed...

Sequential processing of multiple data-files in ProteinPilot

I would like to use ProteinPilot 5.0.2 to process data-sets containing 16 wiff files acquired from fractionated peptides on a 6600 TripleTOF. A Precision T7910 workstation struggles to process four files in parallel and I would like to be able to queue sequential processing of individual files overnight. I currently use the ‘LC ‘ tab to load and process individual data-files but this leads to parallel processing. Is it possible to generate 16 .group files sequentially?

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Neil Walsh is the Senior Manager for Pharma global strategic marketing at SCIEX. In this role, he manages both the strategic market and marketing for the pharmaceutical industry. Neil has spent all his working life entrenched in the pharmaceutical industry from active research, sales and business development through to strategic marketing. Outside of work Neil enjoys rugby, cycling and spending time with his family

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