1. Suloway C., Pulokas J., Fellmann D., Cheng A., Guerra F., Quispe J., Stagg S., Potter C.S., Carragher B.O.: Automated molecular microscopy: the new Leginon system. J. Struct. Biol.151, 41–60 (2005)

   Article  Google Scholar 

2. Zhang J., Nakamura N., Shimizu Y., Liang N., Liu X., Jakana J., Marsh M.P., Booth C.R., Shinkawa T., Nakata M., Chiu W.: JADAS: a customizable automated data acquisition system and its application to ice-embedded single particles. J. Struct. Biol.165, 1–9 (2009)

   Article  Google Scholar 

3. Nickell S., Förster F., Linaroudis A., Del Net W., Beck F., Hegerl R., Baumeister W., Plitzko J.M.: TOM software toolbox: acquisition and analysis for electron tomography. J. Struct. Biol.149, 227–234 (2005)

   Article  Google Scholar 

4. Potter C.S., Pulokas J., Smith P., Suloway C., Carragher B.: Robotic grid loading system for a transmission electron microscope. J. Struct. Biol.146, 431–440 (2004)

   Article  Google Scholar 

5. Lefman J., Morrison R., Subramaniam S.: Automated 100-position specimen loader and image acquisition system for transmission electron microscopy. J. Struct. Biol.158, 318–326 (2007)

   Article  Google Scholar 

6. Coudray N., Hermann G., Caujolle-Bert D., Karathanou A., Erne-Brand F., Buessler J.-L., Daum P., Plitzko J., Chami M., Mueller U., Kihl H., Urban J.-P., Engel A., Rémigy H.-W.: Automated screening of 2D crystallization trials using transmission electron microscopy: a high-throughput tool-chain for sample preparation and microscopic analysis. J. Struct. Biol.173(2), 365–374 (2011)

   Article  Google Scholar 

7. Koster A.J., Chen H., Sedat J.W., Agard D.A.: Automated microscopy for electron tomography. Ultramicroscopy46, 207–227 (1992)

   Article  Google Scholar 

8. Fan G.Y., Mercurio P.J., Young S.J., Ellisman M.H.: Telemicroscopy. Ultramicroscopy52, 499–503 (1993)

   Article  Google Scholar 

9. Kisseberth N., Whittaker M., Weber D., Potter C.S., Carragher B.O.: emScope: a tool kit for control and automation of a remote electron microscope. J. Struct. Biol.120, 309–319 (1997)

   Article  Google Scholar 

10. Fung J.C., Liu W., Ruijter W.J.d., Chen H., Abbey C.K., Sedat J.W., Agard D.A.: Toward fully automated high-resolution electron tomography. J. Struct. Biol.116, 181–189 (1996)

    Article  Google Scholar 

11. Dierksen K., Typke D., Hegerl R., Walz J., Sackmann E., Baumeister W.: 3-Dimensional structure of lipid vesicles embedded in vitreous ice and investigated by automated electron tomography. Biophys. J.68, 1416–1422 (1995)

    Article  Google Scholar 

12. Mastronarde D.N.: Automated electron microscope tomography using robust prediction of specimen movements. J. Struct. Biol.152, 36–51 (2005)

    Article  Google Scholar 

13. Oostergetel G.T., Keegstra W., Brisson A.: Automation of specimen selection and data acquisition for protein electron crystallography. Ultramicroscopy74, 47–59 (1998)

    Article  Google Scholar 

14. Anderson J.R., Jones B.W., Yang J.-H., Shaw M.V., Watt C.B., Koshevoy P., Spaltenstein J., Jurrus E., UV K., Whitaker R.T., Mastronarde D., Tasdizen T., Marc R.E.: A computational framework for ultrastructural mapping of neural circuitry. Plos Biol.7, 493–512 (2009)

    Article  Google Scholar 

15. Baker T.S., Cheng R.H.: A model-based approach for determining orientations of biological macromolecules imaged by cryoelectron microscopy. J. Struct. Biol.116, 120–130 (1996)

    Article  Google Scholar 

16. Nicholson W.V., Glaeser R.M.: Automatic particle detection in electron microscopy. J. Struct. Biol.133, 90–101 (2001)

    Article  Google Scholar 

17. Suloway C., Shi J., Cheng A., Pulokas J., Carragher B., Potter C.S., Zheng S.Q., Agard D.A., Jensen G.J.: Fully automated, sequential tilt-series acquisition with Leginon. J. Struct. Biol.167, 11–18 (2009)

    Article  Google Scholar 

18. Zheng S.Q., Keszthelyi B., Branlund E., Lyle J.M., Braunfeld M.B., Sedat J.W., Agard D.A.: UCSF tomography: an integrated software suite for real-time electron microscopic tomographic data collection, alignment, and reconstruction. J. Struct. Biol.157, 138–147 (2007)

    Article  Google Scholar 

19. Shi J., Williams D.R., Stewart P.L.: A script assisted microscopy (SAM) package to improve data acquisition rates on FEI tecnai electron microscopes equipped with Gatan CCD cameras. J. Struct. Biol.164, 166–169 (2008)

    Article  Google Scholar 

20. Lei J.L., Frank J.: Automated acquisition of cryo-electron micrographs for single particle reconstruction on an FEI Tecnai electron microscope. J. Struct. Biol.150, 69–80 (2005)

    Article  Google Scholar 

21. Stagg S.M., Lander G.C., Pulokas J., Fellmann D., Cheng A., Quispe J.D., Mallick S.P., Avila R.M., Carragher B.O., Potter C.S.: Automated cryoEM data acquisition and analysis of 284 742 particles of GroEL. J. Struct. Biol.155, 470–481 (2006)

    Article  Google Scholar 

22. Cheng A., Leung A., Fellmann D., Quispe J., Suloway C., Pulokas J., Carragher B., Potter C.S.: Towards automated screening of two-dimensional crystals. J. Struct. Biol.160, 324–331 (2007)

    Article  Google Scholar 

23. Hu M., Vink M., Kim C., Derr K., Koss J., D’Amico K., Cheng A., Pulokas J., Ubarretxena-Belandia I., Stokes D.: Automated electron microscopy for evaluating two-dimensional crystallization of membrane proteins. J. Struct. Biol.171, 102–110 (2010)

    Article  Google Scholar 

24. Kylberg, G., Sintorn, I.-M., and Borgefors, G.: Towards automated TEM for virus diagnostics: segmentation of grid squares and detection of regions of interest. Image Analysis, Lecture Notes in Computer Science, vol. 5575, pp. 169–178 (2009). doi:10.1007/978-3-642-02230-2_18

25. Karathanou, A., Coudray, N., Hermann, G., Buessler, J.L., Urban, J.P.: Automatic TEM image analysis of membranes for 2D crystal detection. In: Arabnia, H.R. (ed.) Advances in Computational Biology, vol. 680. Springer AEMB, Berlin (2010)

26. Coudray N., Buessler J.L., Urban J.P.: A robust thresholding algorithm for unimodal image histograms. Pattern Recogn. Lett.31, 1010–1019 (2010)

    Article  Google Scholar 

27. Coudray, N., Buessler, J.-L., Kihl, H., Urban, J.P.: Multi-scale and first derivative analysis for edge detection in TEM images. In: 4th International Conference on Image Analysis and Recognition (ICIAR 2007), Montréal, Canada, pp. 1005–1016 (2007)

28. Karathanou, A., Buessler, J.-L., Kihl, H., Urban, J.P.: Detection of low contrasted membranes in electron microscope images: statistical contour validation. In: Digital Imaging Sensors and Applications, Part of the Imaging Science and Technology/SPIE, 21th Annual Symposium on Electronic Imaging, San Jose, USA (2009)

29. Hermann, G., Coudray, N., Karathanou, A., Buessler, J.L., Urban, J.P.: Autoadaptive algorithm for the stacking-level estimation of membranes in TEM images. ISRN Signal Processing, vol. 2011, p. 10, Article ID 650546 (2011)

30. Meyer F.: Topographic distance and watershed lines. Signal Process.38, 113–125 (1994)

    Article MATH  Google Scholar 

31. Hermann, G., Kihl, H., Urban, J.P.: Detection and characterization of vesicles in EM images. In: The 2010 International Conference on Bioinformatics and Computational Biology (Biocomp), Las Vegas, USA (2010)

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