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Notes:
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Curs 2015-2016
In this Final degree Project are explained all processes required to create the segmentation and
biological annotation parts of Segmentation File Format (SFF) project. The segmentation file
format is an Electron Microscope Data Base (EMDB) project, which is a combination of two
projects, the “OMERO volume slicer” and the “Segmentation annotation tool”. This project was
developed in order to build the segmentation and annotation sets for the “Segmentation
annotation tool” step.
The project was divided into two steps, Segmentation using Chimera, that permitted the
downloading of the EMDB and PDB structure and proceed to do the segmentation, then this
segmentation was saved as an Segger or HDF5 file. The segmentation of a structure is the
decomposition by the different components that forms it.
The second part consisted to create a biological annotation of the components previously
segmented and building a link with other databases in order to identify them.
The objective of this project was to create a SFF, this application would permit to the user to
visualize segmentations on a EM tomogram, in order to identify and distinguish all the
components that composed it. The annotation and segmentation that is explained in this project
was made as a data set to build this new EMDB application.
On the end of the project a collection of 100 segmentation and annotation sets were obtained,
three types of structures can be distinguished; Helicases, Chaperones and Ribosomes. |
