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References
Yuming Liu edited this page May 25, 2020
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- Bredfeldt, J.S., Liu, Y., Conklin, M.W., Keely, P.J., Mackie, T.R., and Eliceiri, K.W. (2014). Automated quantification of aligned collagen for human breast carcinoma prognosis. J Pathol Inform 5. (Add individual fiber based feature generation in CurveAlign)
- Bredfeldt, J.S., Liu, Y., Pehlke, C.A., Conklin, M.W., Szulczewski, J.M., Inman, D.R., Keely, P.J., Nowak, R.D., Mackie, T.R., and Eliceiri, K.W. (2014). Computational segmentation of collagen fibers from second-harmonic generation images of breast cancer. Journal of Biomedical Optics 19, 016007–016007. (Method of individual fiber extraction using CT-FIRE)
- Candes, E., Demanet, L., Donoho, D. & Ying, L. Fast discrete curvelet transforms. Multiscale Model. Simul. 5, 861–899 (2006). (Fast Discrete Curvelet Transform applied to both CurveAlign and CT-FIRE)
- Liu, Y., Keikhosravi, A., Mehta, G.S., Drifka, C.R., and Eliceiri, K.W. (2017). Methods for quantifying fibrillar collagen alignment. In Fibrosis: Methods and Protocols, L. Rittié, ed. (New York: Springer) (Protocol of using CurveAlign for alignment analysis)
- Liu, Y., Keikhosravi, A., Pehlke, C., Bredfeldt, J.S., Duston, M., Liu, H., Mehta, G.S., Claus, R., Patel, A.J., and Conklin, M.W. (2020). Fibrillar Collagen Quantification with Curvelet Transform Based Computational Methods. Front. Bioeng. Biotechnol. 8, 198. (Methods for Curvelets implementation as well as faster fiber extraction, synthetic fiber generator and other new modules in CurveAlign 5.0)
- Schneider, C.A., Pehlke, C.A., Tilbury, K., Sullivan, R., Eliceiri, K.W., and Keely, P.J. (2013). Quantitative Approaches for Studying the Role of Collagen in Breast Cancer Invasion and Progression. In Second Harmonic Generation Imaging, F.S. Pavone, and P.J. Campagnola, eds. (New York: CRC Press), p. 373. ( Initial idea of CurveAlign)
- Stein, A. M., Vader, D. A., Jawerth, L. M., Weitz, D. A. & Sander, L. M. An algorithm for extracting the network geometry of three-dimensional collagen gels. J. Microsc. 232, 463–475 (2008). (Original fiber extraction(FIRE) algorithm adapted in CT-FIRE)