News and Events

Stay tuned for our first beta release which is scheduled for June 2014!

Motion type classification and motion type prediction error analysis integrated in OMEGA


OMEGA motion type classification module

Thanks to the work led by Caterina and Ivo, financially supported by Eric and conducted by Vanni, Alex and Tiziano, a method to determine the motion type of trajectory segments and to automatically compute the prediction error associated with motion type classification, has been integrated into OMEGA. Using this functionality, after having identified viral particle trajectories and having manually subdivided each trajectory in segments displaying uniform motility, the user will be able to utilize the motion classification method described by Ewers et. al 2005 to assess the type of motion associated with each individual segment and estimate the expected error associated with the estimation, based on the image noise and the trajectory length.

OMERO up and running at UMMS

In September 2012, OMERO was installed at the Program in Molecular Medicine (PMM) of the University of Massachusetts Medical School (UMMS) by the OMEGA team and with the expert help and support provided by Karl Belve and the entire Biomedical Imaging Group team. This installation of OMERO serves to support the quantitative, real-time, sub-cellular tracking of HIV-1 viral particles project being conducted in Caterina's lab. The same server is also being used by a growing community of local users including: the labs of Jeremy Luban, Melissa Moore, Vivian Budnik and Manuel Garber.

OMEGA has a new home!


In September 2012, Caterina Strambio De Castillia has joined the Faculty of the Program iu Molecular Medicine (PMM) at the University of Massachusetts Medical School (UMMS). Here she has been joined by Alex Rigano, who has replaced Vanni Galli as the lead OMEGA developer and by Nicholas Vecchietti, who will carry out a research project aimed at visualizing HIV-1 viral cores at high spatial and temporal resolution as they move within living human cells. This work will be conducted in close collaboration with the laboratory of Jeremy Luban and with the PMM Biomedical Imaging Group, led by Kevin Fogarty.

OMEGA Public Alpha Release is OUT!


Screen shot of the main page of the OMEGA pilot GUI

In September 2011, the OMEGA team has released the first version of the OMEGA pilot, with support from Systemsx.ch as part of the SyBIT project. The software development work was carried out at the of the Department of Innovative Technologies (DTI) of the University of Applied Sciences of Southern Switzerland (SUPSI) with support from the Information Systems and Networking Institute (ISIN) and the OpenBIS development team. This OMEGA pilot version reads images and image metadata stored within the OMERO image data repository, automatically performs the main steps of real time particle tracking utilizing a predefined work-flow and writes the results within a customized version of the openBIS metadata repository. In addition OMEGA allows data exploration and results visualization and produces publication quality graphs for data dissemination.

OMEGA is available in alpha release.
If you are interested in obtaining a copy of the software please contact Caterina Strambio De Castillia

Follow our progress on the OMEGA OMEGA-syBIT collaboration project wiki.

OMERO up and running in Bellinzona and at the Emory Vaccine Center

In close collaboration with the OMEGA project, the OMERO platform has been operational at two academic institutions:

Bellinzona: understanding the the eco-physiology of sulfur bacteria inhabiting the chemocline of Lake Cadagno

Starting from July 2010, OMERO is being actively employed at the Istituto Cantonale di Microbiologia (ICM) in Bellinzona Switzerland, to manage image data and metadata produced as part of a project aimed at dissecting the three-dimensional organization and eco-physiology of bacterial aggregates from Lake Cadagno, a meromictic lake found in the Swiss Alps. This project is carried out by Nicholas Vecchietti, Mauro Tonolla and Caterina Strambio De Castillia in close collaboration with the Centro di Biologia Alpina in Piora, Switzterland.

Emory Vaccine Center: utilize real time viral particle tracking technology to understand retroviral assembly

OMERO has been installed and is being tested for use by the Hunter laboratory at the Emory Vaccine Center in connection with a project aimed at dissecting the molecular aspects of retroviral assembly and release from infected primate cells. In addition, this installation of OMERO is being used as the main image data repository for the OMEGA development project.

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