NFP: An R Package for Characterizing and Comparing of Annotated Biological Networks

Article English OPEN
Cao, Yang; Xu, Wenjian; Niu, Chao; Bo, Xiaochen; Li, Fei;
(2017)

Large amounts of various biological networks exist for representing different types of interaction data, such as genetic, metabolic, gene regulatory, and protein-protein relationships. Recent approaches on biological network study are based on different mathematical con... View more
  • References (26)
    26 references, page 1 of 3

    Gligorijević, V., Pržulj, N.. Methods for biological data integration: perspectives and challenges. Journal of the Royal Society Interface . 2015; 12 (112)

    Barabási, A.-L., Oltvai, Z. N.. Network biology: understanding the cell's functional organization. Nature Reviews Genetics . 2004; 5 (2): 101-113

    Yu, D., Kim, M., Xiao, G., Hwang, T. H.. Review of biological network data and its applications. Genomics & Informatics . 2013; 11 (4): 200-210

    Hayes, W., Sun, K., Pržulj, N.. Graphlet-based measures are suitable for biological network comparison. Bioinformatics . 2013; 29 (4): 483-491

    Kanehisa, M., Goto, S., Sato, Y., Furumichi, M., Tanabe, M.. KEGG for integration and interpretation of large-scale molecular data sets. Nucleic Acids Research . 2012; 40 (1): D109-D114

    Joshi-Tope, G., Gillespie, M., Vastrik, I., D'Eustachio, P., Schmidt, E., de Bono, B., Jassal, B., Gopinath, G. R., Wu, G. R., Matthews, L., Lewis, S., Birney, E., Stein, L.. Reactome: a knowledgebase of biological pathways. Nucleic Acids Research . 2005; 33: D428-D432

    Peri, S., Navarro, J. D., Kristiansen, T. Z., Amanchy, R., Surendranath, V., Muthusamy, B., Gandhi, T. K. B., Chandrika, K. N., Deshpande, N., Suresh, S., Rashmi, B. P., Shanker, K., Padma, N., Niranjan, V., Harsha, H. C., Talreja, N., Vrushabendra, B. M., Ramya, M. A., Yatish, A. J., Joy, M., Shivashankar, H. N., Kavitha, M. P., Menezes, M., Choudhury, D. R., Ghosh, N., Saravana, R., Chandran, S., Mohan, S., Jonnalagadda, C. K., Prasad, C. K., Kumar-Sinha, C., Deshpande, K. S., Pandey, A.. Human protein reference database as a discovery resource for proteomics. Nucleic Acids Research . 2004; 32: D497-D501

    Cui, X., He, H., He, F., Wang, S., Li, F., Bo, X.. Network fingerprint: a knowledge-based characterization of biomedical networks. Scientific Reports . 2015; 5, article 13286

    Le Novere, N.. Quantitative and logic modelling of molecular and gene networks. Nature Reviews Genetics . 2015; 16 (3): 146-158

    Frey, B. J., Dueck, D.. Clustering by passing messages between data points. Science . 2007; 315 (5814): 972-976

  • Related Research Results (3)
  • Metrics
Share - Bookmark