Nov 29

Precision Medicine Inspires HPC

By Eric Stahlberg, Ph.D., Director, High Performance Computing Initiative, Data Science and Information Technology Program, Frederick National Laboratory for Cancer Research (FNLCR) The recent weeks have been momentous as the high-performance computing (HPC) community embraced the challenge of precision medicine.  The theme of this year’s leading international supercomputing conference, SC16,  was “HPC Matters” and it …

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Permanent link to this article: https://ncip.nci.nih.gov/blog/precision-medicine-inspires-hpc/

Oct 31

The Real Value of an Atlas

By Trey Ideker, Ph.D., Director, San Diego Center for Systems Biology, University of California San Diego, Department of Medicine These days there seems to be a lot of talk about atlases for cancer. Most of us are familiar with The Cancer Genome Atlas (TCGA), the long-running effort which, over the past decade, sequenced genomes from …

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Permanent link to this article: https://ncip.nci.nih.gov/blog/real-value-atlas/

Sep 14

The Protein Data Bank and the Importance of Sustaining Primary Data Archives

                    By Helen M. Berman, Ph.D.*, Director Emerita, RCSB Protein Data Bank, and Stephen K. Burley, M.D., D.Phil.*+, Director, RCSB Protein Data Bank Scientific discovery involves collecting and analyzing data, and communicating new knowledge arising therefrom. What happens, though, when someone wants to repeat an experiment, or …

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Permanent link to this article: https://ncip.nci.nih.gov/blog/protein-data-bank-importance-sustaining-primary-data-archives/

Aug 29

Cancer Genomics Cloud Pilots DREAM Challenge — Leveraging the Wisdom of the Crowd

By Tony Kerlavage, Ph.D., NCI CBIIT, Cancer Informatics Branch In recent years, Challenges have become a popular way to engage and motivate the research and innovation communities to solve difficult problems. Challenges are open competitions where communities are presented with specific and often difficult problems to solve. Participants are given guidelines and test data, and …

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Permanent link to this article: https://ncip.nci.nih.gov/blog/cancer-genomics-cloud-pilots-dream-challenge-leveraging-wisdom-crowd/

Jul 20

Cancer Data and Computation in the Cloud: One Path to Affordable Genomics Research

By Gad Getz, Ph.D., Broad Institute / MGH The cost of DNA sequencing has dropped more than one million-fold over the last decade, making it increasingly possible to discover the genetic basis of cancer and response to treatment. Three challenges, however, impede this goal: 1) Analysts lack the resources to download, store and compute on …

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Permanent link to this article: https://ncip.nci.nih.gov/blog/cancer-data-computation-cloud-one-path-affordable-genomics-research/

Jun 14

Learn more about the Genomic Data Commons

NCI has launched the Genomic Data Commons (GDC), a system that will promote sharing of genomic and clinical data between researchers and facilitate precision medicine in oncology. The GDC was created to centralize, standardize, and broaden access to data from NCI programs such as The Cancer Genome Atlas (TCGA) and its pediatric equivalent, Therapeutically Applicable …

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Permanent link to this article: https://ncip.nci.nih.gov/blog/genomic-data-commons-launched/

May 11

Collaborating Against Cancer: Inter-Agency Pilots

“We are on the cusp of breakthroughs that will save lives, benefit all of humanity. But we have to work together.” Vice President Joe Biden’s words at the American Association for Cancer Research conference resonate as a clear call to action. When we collaborate and share our expertise, the cancer informatics community can bring a …

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Permanent link to this article: https://ncip.nci.nih.gov/blog/collaborating-cancer-inter-agency-pilots/

May 06

Usable, Collaborative, Reproducible, and Extensible: Four Key Tenets of Cloud Computing

The Seven Bridges Cancer Genomics Cloud (CGC) is one of three pilot systems funded by the National Cancer Institute with the aim of co-localizing massive genomics datasets, like The Cancer Genomics Atlas (TCGA), alongside secure and scalable computational resources for analysis. TCGA comprises multidimensional matched tumor-normal data from over 11,000 patients and 33 cancer types. …

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Permanent link to this article: https://ncip.nci.nih.gov/blog/usable-collaborative-reproducible-extensible-four-key-tenets-cloud-computing/

Apr 25

CI4CC Workshop Addresses Academic Technology Development

To kick off the recent Cancer Informatics for Cancer Centers (CI4CC) Spring Symposium, we had the pleasure of organizing a workshop about “The Role of Academic Technology Development in Cancer Research.” The goal of the workshop was to discuss the role of academic informatics technology in cancer research, with an emphasis on technology developed through …

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Permanent link to this article: https://ncip.nci.nih.gov/blog/ci4cc-workshop-addresses-academic-technology-development/

Apr 05

Missing pieces for a cancer-focused learning healthcare system

We are in a time of transformation in cancer informatics. Many years of work to make The Cancer Genome Atlas (TCGA) data more widely available through Cloud Pilot implementations will come to fruition in the next few months. At the same time new programs, such as the National Cancer Moonshot and the Personalized Medicine Initiative, …

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Permanent link to this article: https://ncip.nci.nih.gov/blog/critical-missing-pieces-for-a-cancer-focused-learning-healthcare-system/

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