Signal Processing

The Signal Processing Laboratory was an interdisciplinary group focused on research in signal processing and biomedical imaging with special interest in microscopy. It was also dedicated to the training of life science researchers in image processing in order to establish a common language and a critical vision in these techniques.

The signal processing offered an objective approach that allows to automatize and systematize the analysis of data generated by the wide spectrum of techniques and equipment used in the IP Montevideo, from the quantification of microscopy images to genomic sequence data.

An interdisciplinary approach permitted developing methodologies and algorithms that incorporate knowledge of different disciplines in all stages of research.

This was a joint group with members of the Signal Processing Department of the Faculty of Engineering (Udelar) and the Institut Pasteur of Montevideo.

Members

Eng Federico Lecumberry, PhD

Eng Federico Lecumberry, PhD

Head

Faculty of Engineering, Udelar

Eng Martín Etchart

Eng Martín Etchart

Master's degree student

Mauricio Ramos

Mauricio Ramos

Degree student

Alfredo Solari

Alfredo Solari

Degree student

Daniel Soria

Daniel Soria

Degree student

Research lines

Processing of biomedical images.
We work on the development and integration of algorithms and tools for the quantification and analysis of images from various sources of imaging in biomedicine: optical microscopy, fluorescence, electronics, or in-vivo imaging system. Some of our lines of research and applications are: detection and long quantification and fluorescence of primary cilia, detection of parasites and calculation of infection index, monitoring of neutrophil trajectories, quantification of fluorescence dynamics in different cell and tissue treatments, reconstruction of structures three-dimensional, among others. At the Microscopy Unit of IP Montevideo, we collaborate with researchers from various groups within the institute and with researchers from the Faculty of Medicine of the Universidad de la República.

Signal processing applied to bioinformatics.
Analysis of genomic data and application of automatic learning methods to the analysis and visualization of the evolution of viruses or the identification of proteins with fusogenic capacity. We work in collaboration with the Bioinformatics Unit (IP Montevideo) and the Institute of Mathematics of the Faculty of Engineering (Udelar).

Courses

  • Postgraduate course “Processing of Images for Biology and Medicine” (PIMBIO). Faculty of Engineering; July 2016 and November 2017. Organizer: Signal Processing Department. Responsible: Federico Lecumberry.
  • Regional and postgraduate course “Processing and Analysis of Fluorescence Microscopy Images”. Institut Pasteur de Montevideo; March 2016. Organizer: Microscopy Unit (IP Montevideo).
  • Tutorial “Bases for the Processing and Analysis of Images”. Institut Pasteur de Montevideo; November 2017. Organizer: Signal Processing Laboratory.

Projects

2015–2018 – Design of biosensors for simultaneous monitoring of redox signaling and cAMP: From the computer to the cell and back to the computer.

Main publications

vacio
2018

Kinesin 1 regulates cilia length through an interaction with the Bardet-Biedl syndrome related protein CCDC28B Rossina Novas, Magdalena Cardenas-Rodriguez, Paola Lepanto, Matías Fabregat, Magela Rodao, Maria Ines Fariello, Mauricio Ramos, Camila Davison, Gabriela Casanova, Lucía Alfaya, Federico Lecumberry, Gualberto González-Sapienza, Florencia Irigoin, José L. Badano Scientific Reports, Volume 8, Number 3019, page 1–16 – Feb. 2018

2017

Quantification of structural changes in the rodent somatosensory cortex. Mauricio Ramos, Javier Nogueira, Diego Méndez, Federico Lecumberry. XIV Congreso CIASEM 2017, Varadero, Cuba, 25-29 sep – 2017

2016

Similarity measure for cell membrane fusion proteins identification. Daniela Megrian, Pablo S. Aguilar, Federico Lecumberry. Progress in Pattern Recognition, Image Analysis, Computer Vision, and Applications : 21st Iberoamerican Congress, CIARP 2016, Lima, Perú, November 8-11, 2016, Lecture Notes in Computer Science, Springer, , page 257–265 – 2016.

Medida del largo de cilias primarias : Un plugin para ImageJ. Mauricio Ramos, Paola Lepanto, Florencia Irigoin, Federico Lecumberry. Acta Microscópica, Volume 25 Supp A – 2016.

2013

A confocal microscopy image analysis method to measure adhesion and internalization of Pseudomonas aeruginosa multicellular structures into epithelial cells. Paola Lepanto, Federico Lecumberry, Jéssica Rossello, Arlinet Kierbel. Molecular and Cellular Probes, Volume 28, Number 1, page 1-5. Feb. 2013.