Publication Classification:

Segmentation Method = Thresholding

• "Al-Kofahi O, Radke RJ, Goderie SK, Shen Q, Temple S, Roysam B: Automated cell lineage construction: a rapid method to analyze clonal development established with murine neural progenitor cells. Cell Cycle 2006, 5:327–35."

• "Bai W, Zhou X, Zhu J, Ji L, Wong STC: Tracking of migrating Glioma cells in feature space. In 4th IEEE International Symposium on Biomedical Imaging: From Nano to Macro. IEEE; 2007:272–275."

• "Bajcsy P, Lee S-C, Lin a, Folberg R: Three-dimensional volume reconstruction of extracellular matrix proteins in uveal melanoma from fluorescent confocal laser scanning microscope images. J Microsc 2006, 221(Pt 1):30–45."

• "Bise R, Li K, Eom S: Reliably tracking partially overlapping neural stem cells in dic microscopy image sequences. In MICCAI Workshop on Optical Tissue Image analysis in Microscopy, Histopathology and Endoscopy. Imperial College London; 2009:67–77."

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

• "Fusco L, Benmansour F, Fua P, Pertz O, Smith K: Automated Quantification of Morphodynamics for High-Throughput Live Cell Time-Lapse Datasets. In IEEE 10th International Symposium on Biomedical Imaging (ISBI). San Francisco, CA: IEEE; 2013:664–667."

• "Held M, Schmitz MH a, Fischer B, Walter T, Neumann B, Olma MH, Peter M, Ellenberg J, Gerlich DW: CellCognition: time-resolved phenotype annotation in high-throughput live cell imaging. Nat. Methods 2010, 7:747–54."

• "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."

• "Hu Y, Osuna-Highley E, Hua J, Nowicki TS, Stolz R, McKayle C, Murphy RF: Automated analysis of protein subcellular location in time series images. Bioinformatics 2010, 26:1630–6."

• "Hua J, Sima C, Cypert M, Gooden GC, Shack S, Alla L, Smith E a, Trent JM, Dougherty ER, Bittner ML: Tracking transcriptional activities with high-content epifluorescent imaging. J Biomed Opt 2012, 17:046008."

• "Huh S, Eom S, Bise R, Yin Z, Kanade T: Mitosis detection for stem cell tracking in phase-contrast microscopy images. In Biomedical Imaging: From Nano to Macro, 2011 IEEE International Symposium on. IEEE; 2011:2121–2127."

• "Huth J, Buchholz M, Kraus JM, Schmucker M, von Wichert G, Krndija D, Seufferlein T, Gress TM, Kestler H a: Significantly improved precision of cell migration analysis in time-lapse video microscopy through use of a fully automated tracking system. BMC Cell Biol 2010, 11:24."

• "Juba D, Cardone A, Ip CY, Simon Jr. CG, Tison CK, Kumar G, Brady M, Varshney A: Parallel Geometric Classification of Stem Cells by Their 3D Morphology. Comput Sci Discov 2013, 6."

• "Kachouie NN, Fieguth P, Ramunas J, Jervis E: A Statistical Thresholding Method for Cell Tracking. 2006 IEEE Int Inf Technol 2006:222–227."

• "Kerschnitzki M, Kollmannsberger P, Burghammer M, Duda GN, Weinkamer R, Wagermaier W, Fratzl P: Architecture of the osteocyte network correlates with bone material quality. J Bone Miner Res 2013, 28:1837–45."

• "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."

• "Krausz E, de Hoogt R, Gustin E, Cornelissen F, Grand-Perret T, Janssen L, Vloemans N, Wuyts D, Frans S, Axel A, Peeters PJ, Hall B, Cik M: Translation of a Tumor Microenvironment Mimicking 3D Tumor Growth Co-culture Assay Platform to High-Content Screening. J Biomol Screen 2012."

• "Li K, Miller ED, Weiss LE: Online tracking of migrating and proliferating cells imaged with phase-contrast microscopy. In Proceedings of the 2006 Conference on Computer Vision and Pattern Recognition Workshop. IEEE Computer Society; 2006:8."

• "Oh JH, Gertych A, Tajbakhsh J: Nuclear DNA Methylation and Chromatin Condensation Phenotypes Are Distinct Between Normally Proliferating / Aging , Rapidly Growing / Immortal , and Senescent Cells ABSTRACT :. Oncotarget 2013, 4:474–493."

• "Padfield D, Rittscher J, Roysam B: Spatio-temporal cell segmentation and tracking for automated screening. In Processings on the 5th IEEE International Symposium on Biomedical Imaging: From Nano to Macro; 2008:376–379."

• "Peng T, Murphy RF: Image-derived, three-dimensional generative models of cellular organization. Cytometry. A 2011, 79:383–91."

• "Russell RA, Adams NM, Stephens DA, Batty E, Jensen K, Freemont PS: Segmentation of fluorescence microscopy images for quantitative analysis of cell nuclear architecture. Biophys J 2009, 96:3379–89."

• "Sbalzarini IF, Koumoutsakos P: Feature point tracking and trajectory analysis for video imaging in cell biology. J Struct Biol 2005, 151:182–95."

• "Sigal A, Milo R, Cohen A, Geva-Zatorsky N, Klein Y, Alaluf I, Swerdlin N, Perzov N, Danon T, Liron Y, others: Dynamic proteomics in individual human cells uncovers widespread cell-cycle dependence of nuclear proteins. Nat Methods 2006, 3:525."

• "Sigal A, Milo R, Cohen A, Geva-Zatorsky N, Klein Y, Liron Y, Rosenfeld N, Danon T, Perzov N, Alon U: Variability and memory of protein levels in human cells. Nature 2006, 444:643–6."

• "Singh S, Raman S, Rittscher J, Machiraju R: Segmentation Evaluation for Fluorescence Microscopy Images of Biological Objects. In MIAAB 2009 International Workshop Proceedings; 2009:1–5."

• "Winter M, Wait E, Roysam B, Goderie SK, Ali RAN, Kokovay E, Temple S, Cohen AR: Vertebrate neural stem cell segmentation, tracking and lineaging with validation and editing. Nat Protoc 2011, 6:1942–52."

• "Yin Z, Kanade T, Chen M: Understanding the phase contrast optics to restore artifact-free microscopy images for segmentation. Med Image Anal 2012, 16:1047–62."

• "Yin Z, Li K, Kanade T, Chen M: Understanding the Optics to Aid Microscopy Image Segmentation. In Medical Image Computing and Computer-Assisted Intervention--MICCAI 2010. Volume 13. Heidelberg: Springer; 2010:209–217."

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.