? Management, Dissemination and Training Core Pathway Commons (PC) is a convenient single point of access for all publicly accessible pathway information in the standard BioPAX format.
We aim to provide for the efficient exchange of pathway data; aggregation and integration into a shared public information store; distribution in a value-added, standardized form; and availability to the end-user in the context of domain-specific portals, such as genomics, model organism and bioinformatics web portals, via state-of-the-art internet web service technology. The basic software for pathway information exchange and storage as well as the BioPAX exchange language are now complete (work since 2002) and major pathway databases routinely make datasets available in BioPAX format. In this next crucial phase of collaboration and dissemination, we will significantly expand the resource utility by focusing on flexible evolution of services and the wide availability and usability from any biologist's computer. The Management, Dissemination, and Training Core aims to provide an efficient administrative structure and effective management procedures to support the Resource Project and Resource Informatics Core. We also aim to expand the user base and enhance the usability of the Pathway Commons resource, associated software libraries and data analysis tools to three main user groups: experimental biologists, computational biologists and software engineers. Specifically, our Management, Dissemination, and Training core aims are to: 1) provide effective management to support the further development and use of the Pathway Commons community resource; 2) ensure access to Pathway Commons for all users; and 3) train user communities on the access to and use of Pathway Commons

Agency
National Institute of Health (NIH)
Institute
National Human Genome Research Institute (NHGRI)
Type
Biotechnology Resource Cooperative Agreements (U41)
Project #
7U41HG006623-05
Application #
9302186
Study Section
Genome Research Review Committee (GNOM-G)
Project Start
Project End
Budget Start
2016-01-01
Budget End
2016-06-30
Support Year
5
Fiscal Year
2015
Total Cost
$77,928
Indirect Cost
$8,562
Name
Harvard Medical School
Department
Type
DUNS #
047006379
City
Boston
State
MA
Country
United States
Zip Code
02115
Ebhardt, H Alexander; Root, Alex; Liu, Yansheng et al. (2018) Systems pharmacology using mass spectrometry identifies critical response nodes in prostate cancer. NPJ Syst Biol Appl 4:26
Liyanage, Sanduni U; Hurren, Rose; Voisin, Veronique et al. (2017) Leveraging increased cytoplasmic nucleoside kinase activity to target mtDNA and oxidative phosphorylation in AML. Blood 129:2657-2666
Michailidou, Kyriaki (see original citation for additional authors) (2017) Association analysis identifies 65 new breast cancer risk loci. Nature 551:92-94
Milne, Roger L (see original citation for additional authors) (2017) Identification of ten variants associated with risk of estrogen-receptor-negative breast cancer. Nat Genet 49:1767-1778
Tong, Jiefei; Helmy, Mohamed; Cavalli, Florence M G et al. (2017) Integrated analysis of proteome, phosphotyrosine-proteome, tyrosine-kinome, and tyrosine-phosphatome in acute myeloid leukemia. Proteomics 17:
Helmy, Mohamed; Crits-Christoph, Alexander; Bader, Gary D (2016) Ten Simple Rules for Developing Public Biological Databases. PLoS Comput Biol 12:e1005128
Kusebauch, Ulrike; Campbell, David S; Deutsch, Eric W et al. (2016) Human SRMAtlas: A Resource of Targeted Assays to Quantify the Complete Human Proteome. Cell 166:766-778
Luna, Augustin; Babur, Özgün; Aksoy, Bülent Arman et al. (2016) PaxtoolsR: pathway analysis in R using Pathway Commons. Bioinformatics 32:1262-4
Jones, Robert A; Robinson, Tyler J; Liu, Jeff C et al. (2016) RB1 deficiency in triple-negative breast cancer induces mitochondrial protein translation. J Clin Invest 126:3739-3757
Kucera, Mike; Isserlin, Ruth; Arkhangorodsky, Arkady et al. (2016) AutoAnnotate: A Cytoscape app for summarizing networks with semantic annotations. F1000Res 5:1717

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