Publication Classification:

Segmentation Evaluation = Visual inspection

• "Celli JP, Rizvi I, Evans CL, Abu-Yousif AO, Hasan T: Quantitative imaging reveals heterogeneous growth dynamics and treatment-dependent residual tumor distributions in a three-dimensional ovarian cancer model. J Biomed Opt 2010, 15:051603."

• "Chalfoun J, Majurski M, Dima A, Stuelten C, Peskin A: FogBank?: A Single Cell Segmentation across Multiple Cell Lines and Image Modalities. BMC Bioinformatics 2014, 15:431."

• "Chalfoun J, Majurski M, Peskin A, Breen C, Bajcsy P: Empirical Gradient Threshold Technique for Automated Segmentation across Image Modalities and Cell Lines. J. Microsc. 2014:1–18."

• "Debeir O, Camby I, Kiss R, Van Ham P, Decaestecker C: A model-based approach for automated in vitro cell tracking and chemotaxis analyses. Cytometry A 2004, 60:29–40."

• "Delgado-Gonzalo R, Chenouard N, Unser M: Spline-based deforming ellipsoids for interactive 3D bioimage segmentation. IEEE Trans Image Process 2013, 22:3926–3940."

• "Du C-J, Hawkins PT, Stephens LR, Bretschneider T: 3D time series analysis of cell shape using Laplacian approaches. BMC Bioinformatics 2013, 14:296."

• "Dzyubachyk O, Niessen W, Meijering E: Advanced Level-Set Based Multiple-Cell Segmentation and Tracking In Time-Lapse Fluorescence Microscopy Images. In Proceedings of the 5th IEEE Int. Symp. IEEE In Biomed. Imaging From Nano to Macro. IEEE Computer Society; 2008:185–188."

• "Hadjidemetriou S, Gabrielli B, Mele K, Vallotton P: Detection and tracking of cell divisions in phase contrast video microscopy. In Proc. of the Third MICCAI Worshop on Microscopic Image Analysis with Applications in Biology. New York, NY, USA: MICCAI; 2008."

• "Herberich G, Windoffer R, Leube R, Aach T: 3D segmentation of keratin intermediate filaments in confocal laser scanning microscopy. In Annual International Conference of the IEEE Engineering in Medicine and Biology Society. Boston, MA: IEEE EMBS; 2011:7751–4."

• "Himeno-Ando A, Izumi Y, Yamaguchi A, Iimura T: Structural differences in the osteocyte network between the calvaria and long bone revealed by three-dimensional fluorescence morphometry, possibly reflecting distinct mechano-adaptations and sensitivities. Biochem Biophys Res Commun 2012, 417:765–70."

• "Indhumathi C, Cai YY, Guan YQ, Opas M: An automatic segmentation algorithm for 3D cell cluster splitting using volumetric confocal images. J Microsc 2011, 243:60–76."

• "Kojic N, Huang A, Chung E, Tschumperlin D, So PTC: Quantification of three-dimensional dynamics of intercellular geometry under mechanical loading using a weighted directional adaptive-threshold method. Opt Express 2008, 16:12403."

• "McCullough DP, Gudla PR, Harris BS, Collins J a, Meaburn KJ, Nakaya M a, Yamaguchi TP, Misteli T, Lockett SJ: Segmentation of whole cells and cell nuclei from 3-D optical microscope images using dynamic programming. IEEE Trans Med Imaging 2008, 27:723–34."

• "Padfield DR, Rittscher J, Sebastian T, Thomas N, Roysam B: Spatio-Temporal Cell Cycle Analysis Using 3D Level Set Segmentation of Unstained Nuclei in Line Scan Confocal Fluorescence Images. 3rd IEEE Int Symp Biomed Imaging Macro to Nano, 2006 :1036–1039."

• "Pop S, Dufour A, Garrec J Le, Ragni C V, Buckingham ME, Meilhac SM, Olivo-Marin J-C: A Fast and Automated Framework for Extraction of Nuclei From Cluttered 3D Images in Fluorescence Microscopy. In 2011 IEEE International Symposium on Biomedical Imaging: From Nano to Macro; 2011(Ptr 335):2113–2116."

• "Srinivasa G, Fickus MC, Guo Y, Linstedt AD, Kovacevi? J: Active mask segmentation of fluorescence microscope images. IEEE Trans. Image Process. 2009, 18:1817–29."

• "Wählby, C.; Sintorn, I.-M.; Erlandsson, F.; Borgefors, G.; Bengtsson, E.: Combining intensity , edge and shape information for 2D and 3D segmentation of cell nuclei in tissue sections. J Microsc 2004, 215(January):67–76."

• "Yang X, Padfield D: Wavelet-initialized 3D level-set cell segmentation with local background support. In Biomedical Imaging (ISBI), 2014 IEEE 11th International Symposium on; 2014:814–817."

• "Zhou X, Li F, Yan J, Wong STC: A novel cell segmentation method and cell phase identification using Markov model. IEEE Trans Inf Technol Biomed 2009, 13:152–7."

Survey publication disclaimer:

The National Institute of Standards and Technology (NIST) uses substantial efforts to select publications that meet the publication survey criteria. However, NIST makes no warranties that the survey is exhaustive. The survey and its contents are provided by NIST as a public service and are strictly provided "AS IS" with no warranties of any type. Furthermore, NIST does not make any statements about quality of publications by including them in the survey classification and does not imply any recommendation or endorsement.