Tag Archive: Bioinformatics

Sep 09

The Future of the Pathway Interaction Database (PID) — A Conversation with Dr. Daoud Meerzaman

The Pathway Interaction Database (PID) is a collection of biomolecular interactions and events involving signaling and regulatory pathways that have been curated from the peer-reviewed literature. Users are able to browse through biomolecular interactions, run computational analyses, or synthesize and combine interactions to establish novel pathways. Begun as a collaborative project between the National Cancer …

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Permanent link to this article: http://ncip.nci.nih.gov/blog/future-pathway-interaction-database-pid-conversation-dr-daoud-meerzaman/

Aug 28

Reducing Friction: An Update on the NCIP Open Development Initiative

I was fortunate enough to attend the Bioinformatics Open Source Conference (BOSC) this summer and heard a wonderful talk by Cameron Neylon on “The Role of Open Source and Open Thinking.”  In his talk, he presented a clever equation for calculating the probability of helping someone through an open source project: P (of helping someone) …

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Permanent link to this article: http://ncip.nci.nih.gov/blog/reducing-friction-an-update-on-the-ncip-open-development-initiative/

Aug 01

Invitation for Public Comment on Analysis and Data Priorities for the NCI Cancer Genomics Cloud Pilots

Through this blog, we are pleased to provide you with regular updates on the NCI Cancer Genomics Cloud Pilots.  In a recent post, George Komatsoulis discussed the NCI Board of Scientific Advisors’ unanimous approval of the project concept.  He also announced the release of a Sources Sought notice, an opportunity for the technical community to …

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Permanent link to this article: http://ncip.nci.nih.gov/blog/invitation-for-public-comment-on-analysis-and-data-priorities-for-the-nci-cancer-genomic-cloud-pilots/

May 31

Input on Cancer Knowledge Clouds: Key Themes from the Community

    “We cannot solve our problems with the same thinking we used when we created them.” — Albert Einstein There is no shortage of reports describing the informatics challenges presented by the massive data volumes generated by today’s genomics technologies, particularly ultra high-throughput sequencing.  The facility with which these data can be generated has the …

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Permanent link to this article: http://ncip.nci.nih.gov/blog/input-on-cancer-knowledge-clouds-key-themes-from-the-community/

Apr 15

Computational Needs for Large-scale Data Analysis: Towards a Cancer Knowledge Cloud

Biology is increasingly joining the ranks of the data-intensive sciences through increased use of “-omics” technologies (next-generation sequencing, expression profiling, proteomics, methylation studies, etc.) and the large-scale use of a variety of imaging technologies in research. This is great for scientists and the patients who are going to benefit from the research, but it poses …

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Permanent link to this article: http://ncip.nci.nih.gov/blog/computational-needs-for-large-scale-data-analysis-towards-a-cancer-knowledge-cloud/

Feb 20

NCIP’s Open-Development Strategy Enables Community-Driven Cancer Informatics Software Development

The NCIP is committed to advancing cancer research through improving biomedical informatics, and we believe that active participation by the broad community is the most effective way to accomplish this. To that end, we have made significant advances in our plan to engage the biomedical-research, informatics, and developer communities by lowering the barrier to community-driven …

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Permanent link to this article: http://ncip.nci.nih.gov/blog/ncips-open-development-strategy-enables-community-driven-cancer-informatics-software-development/

Oct 15

Cultivating Collaborations on Imaging Research and Informatics

Within the National Cancer Institute (NCI), there is new potential for an increasingly beneficial collaboration between the Cancer Imaging Program (CIP) in the Division of Cancer Treatment and Diagnosis (DCTD) and the Center for Biomedical Informatics and Information Technology (CBIIT) in the Office of the Director.  The Institute’s recent launch of the National Cancer Informatics …

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Permanent link to this article: http://ncip.nci.nih.gov/blog/cultivating-intramural-collaborations-on-imaging-research-and-informatics/

Aug 15

Ephemeral Images, Indelible Data: The Promises and Challenges of Digital Imaging as Applied to Pathology

  Those of us working in biomedical informatics are well aware that one of our omnipresent challenges is overcoming the disparity between our capacity to use high-throughput research technologies to produce huge quantities of data, which is now very high, and our practical ability to store, aggregate, analyze, and integrate the resulting mountains of heterogeneous …

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Permanent link to this article: http://ncip.nci.nih.gov/blog/ephemeral-images-indelible-data-the-promises-and-challenges-of-digital-imaging-as-applied-to-pathology/

Aug 03

Radiation Therapy Oncology Group (RTOG) Bioinformatics

Word Cloud for Ying Xiao imaging presentation

The NCI-supported Cooperative Groups conduct national- and international-scale multicenter clinical trials.  They face escalating computational challenges as the amount of clinical trials data generated by a multiplicity of research technologies and clinical observations continues to expand. As part of our ongoing Speaker Series, we recently invited Dr. Ying Xiao to discuss informatics initiatives being undertaken …

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Permanent link to this article: http://ncip.nci.nih.gov/blog/radiation-therapy-oncology-group-rtog-bioinformatics/

Jul 17

G-DOC: Enabling Systems Medicine Through Innovations in Informatics

These are exciting times for cancer research.  The rapid evolution and decreasing cost of omics technologies provide unprecedented opportunities to improve individual patient diagnosis, prognosis, and treatment.  To fully realize this goal, however, requires integrating and analyzing data from the laboratory and the clinic in a way that is meaningful and useful to health-care providers.  …

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Permanent link to this article: http://ncip.nci.nih.gov/blog/g-doc-enabling-systems-medicine-through-innovations-in-informatics/

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