Students

Post-Doc

Compressed Sensing in Medical Imaging

The new paradigm of compressed sensing (CS) is being extensively used in several fields of signal and image processing in order to reduce the number of samples (below the Nyquist rate) and acquisition time by optimally designing sampling strategies of the data and reconstruction algorithms.

The aim of CS is to reduce the redundancy in the acquired samples representing the signal/image of interest, under the assumption that the signal has a sparse representation under some basis. There exist sufficient conditions that prove that if the samples are incoherent, it is possible to reconstruct the signal with a minimum reconstruction error.

This work aims to apply CS algorithms for acquisition and developing algorithms for the reconstruction of biological and medical structures from incomplete data corrupted by multiplicative noise. Two main applications will be considered: 3D free-hand Ultrasound (US), Laser Scanning Fluorescence Confocal Microscopy (LSFCM) and the very new modality of Spinning-Disk Fluorescence Confocal Microscopy (SDFCM).

PhD

1	Ricardo Ribeiro ricardo.ribeiro@estesl.ipl.pt	Diagnosis and Characterization of Liver Pathologies from Ultrasound images Biomedical Engineering Doctoral Program Instituto Superior Técnico(IST) / Tecnical University of Lisbon Faculdade de Medicina da Universidade de Lisboa(FMUL)
2	Alexandre Domingues adomingues@gmail.com	Statistical Signal Processing Algorithms for the Diagnosis of Sleep Disorders Biomedical Engineering Doctoral Program Instituto Superior Técnico(IST) / Tecnical University of Lisbon Faculdade de Medicina da Universidade de Lisboa(FMUL) Centro de Electroencefalografia e Neurofisiologia Clínica(CENC)
3	David Afonso david.afonso@gmail.com	Biomedical Engineering Doctoral Program Instituto Superior Técnico(IST) / Tecnical University of Lisbon Faculdade de Medicina da Universidade de Lisboa(FMUL)

MSc

Sofia Esmenio

2011/2012-EBM - MSc/Bol

Celular adhesion from fluorescence microscopy images
(Characterization of the E-cadherin spatial distribution at a cellular level)
Co-Adviser: Profª Raquel Seruca, IPATIMUP/UP

Biomedical Engineering Bolohna Master Course
Instituto Superior Técnico(IST) / Tecnical University of Lisbon
Faculdade de Medicina da Universidade de Lisboa(FMUL)

João Coelho

2012/2013EBM-MSc/Bol

WebCam based optical Tracker for free-hand US

Biomedical Engineering Bolohna Master Course
Instituto Superior Técnico(IST) / Tecnical University of Lisbon
Faculdade de Medicina da Universidade de Lisboa(FMUL)

Martina Fonseca
2012/2013EBM-MSc/Bol

E-cadherin 3D spatial distribution characterization for the pathogenicity discrimination of missense mutations from confocal imunofluorescence images

Biomedical Engineering Bolohna Master Course
Instituto Superior Técnico(IST) / Tecnical University of Lisbon
Faculdade de Medicina da Universidade de Lisboa(FMUL)

Collaborators and Interships
	Anastasiya Strembitska	Autonomic Nervous System and HRV Biofeedback applications Biomedical Engineering Bolohna Master Course Instituto Superior Técnico(IST) / Tecnical University of Lisbon Faculdade de Medicina da Universidade de Lisboa(FMUL)
	Miguel Rodrigues

Concluded

PhD

1	José Seabra jseabra@isr.ist.utl.pt	Biomedical Engineerin Doctoral Program Instituto Superior Técnico / Tecnical University of Lisbon Faculdade de Medicina da Universidade de Lisboa (Prof.Luís Mendes Pedro) Medical Ultrasound B-Mode Modeling, De-speckling and Tissue Characterization Assessing the Atherosclerotic Disease Concluded: 23/5/2011
2	Isabel Rodrigues irodrigues@isr.ist.utl.pt	Electrical and Computer Engineering Doctoral Program Instituto Superior Técnico / Tecnical University of Lisbon Cell nucleus reconstruction and analysis of laser scanning fluorescence confocal microscopy (LSFCM) images Concluded: 10/5/2011
3	Gonzalo Vegas gvegsan@lpi.tel.uva.es	Probabilistic Models for Tissue Characterization in Ultrsonic and Magnetic Resonance MedicalImages and Applications Laboratorio de Procesado de Imagen (LPI), Universidad de Valladolid, Spain Concluded: March, 15, 2013
4	Ricardo Maximiano rammpt@gmail.com	IST PhD Program in Biomedical Engineering 2011/2012 Title: Statistical Signal Processing Algorithms and Methods for the Diagnosis of the Hepatocellular Carcinoma from DCE-MRI Advisers: João Sanches (IST) and Rui Tato Marinho (HSM/FMUL) Not Concluded: 2013

MSc

26	João Leal jpl.leal@gmail.com 2010/2011-EBM - MSc/Bol	Adaptive ROC analysis in Carotid Atherosclerosis Diagnosis for Endarterectomy Co-Adviser: Profª Mónica Oliveira Biomedical Engineering Bolohna Master Course Instituto Superior Técnico(IST) / Tecnical University of Lisbon Faculdade de Medicina da Universidade de Lisboa(FMUL) Final Score: 17/20, 5/12/2012
25	Carlos Carreiras (58464) carlos.carreiras@ist.utl.pt 2010/2011-EBM - MSc/Bol	Interface Cérebro-Computador (BCI) no paradigma de Imagiologia Motora Co-Adviser: Prof. Borges de Almeida Biomedical Engineering (BME) Bolohna Master Course Instituto Superior Técnico(IST) / Tecnical University of Lisbon Faculdade de Medicina da Universidade de Lisboa(FMUL) Final Score: 18/20, 14/12/2011
24	Miguel Rodrigues (57270) miguel.lrodrigues@gmail.com 2009/2010-EBM - MSc/Bol	A Bayesian Perfusion estimation using spatio-temporal priors in ASL-MRI Co-Adviser: Profª Patrícia Figueiredo Biomedical Engineering (BME) Bolohna Master Course Instituto Superior Técnico(IST) / Tecnical University of Lisbon Faculdade de Medicina da Universidade de Lisboa(FMUL) Final Score: 17/20, 12/12/2011
23	Michel Cânovas michel_kzar@hotmail.com 2010/2011-EBM - MSc/Bol	HRV in Smartphone for Biofeedback Application Biomedical Engineering (BME) Bolohna Master Course Instituto Superior Técnico(IST) / Tecnical University of Lisbon Faculdade de Medicina da Universidade de Lisboa(FMUL) Final Score: 16/20, 30/11/2011
22	Guilherme Carvalho guilherme.carvalho@eu.nec.com 2010/2011-EEC - MSc/Bol	Sistema Holter de Aquisição e Processamento contínuo do Electrocardiograma através de telefone celular Electrical and Computer Engineering Bolonha Master Course Instituto Superior Técnico / Tecnical University of Lisbon Final Score:15/20, 11/11/2011
21	Guilherme Santos Havocsp@gmail.com 2009/2010 - EEC MSc-Bol	Chromosome identification and pairing in optical microscopy images Co-adviser: Prof. Rodrigo Ventura Electrical and Computer Engineering Bolonha Master Course Instituto Superior Técnico / Tecnical University of Lisbon Final Score: 17/20 (13/12/2010)
20	Ana Luísa Luís Coito anacoito20@gmail.com(57272) 2009/2010 - EBM MSc-Bol	Assessment of Sleep Apnea Syndrome by spectral analysis of physiological parameters Co-Adviser: Profª Teresa Paiva (FMUL) Final Score: 18/20 (19/11/2010)
19	Nuno Miguel da Silva Mendes Pedrosa de Barros (nuno86@hotmail.com) 2009/2010 - EBM MSc-Bol	Hepatocarcinoma detection from DCE-MRI Images Final Score: 16/20 (29/11/2010)
18	Marco Filipe Pinto Leite mfpleite@gmail.com (57283) 2009/2010 - EBM MSc-Bol	Estimation of the haemodynamic response to epileptic activity in EEG-fMRI data Final Score: 20/20 (14/12/2010) Adviser: Profa. Patrícia Figueiredo
17	Andreia Catarina Costa Duarte andreiaccduarte@gmail.com (57296) 2009/2010 - EBM MSc-Bol	Mobile Acquisition Platform for Sleep Assessment Final Score: 18/20 (18/11/2010)
16	Ana Rita Gafaniz ritagafaniz@gmail.com (55763) 2008/2009 - EBM MSc-Bol	Modeling of the Haemodynamic Response Function based on Physiological Principles Final Score: 17/20 (2/12/2010)
15	Ricardo Jorge de Almeida Marques Maximiano rammpt@gmail.com (54209) 2008/2009 - EBM MSc-Bol	Temporal correlation compensation (whitening) of the fMRI data Final Score: 16/20 (18/11/2010)
14	Diogo Loureiro diogo-f-loureiro@telecom.pt 2008/2009 - EEC MSc-Bol	Web based Robotic Microscopy Co-Advise: José Rino, IMM Institute for Systems and Robotics Instituto Superior Técnico / Technical University of Lisbon Instituto de Medicina Molecular (IMM) Faculdade de Medicina da Universidade de Lisboa (FMUL) Final Score: 13/20 (20/11/2009)
13	Indira Andrade indira@netcabo.pt 2008/2009 - EEC MSc-Bol	fMRI Sparse Design for Auditive paradigms: Toward a Signal and Stimulus Perception Improvements Co-Adviser: Martin Lauterbach (FMUL) Institute for Systems and Robotics Instituto Superior Técnico / Technical University of Lisbon Faculdade de Medicina da Universidade de Lisboa (FMUL) Final Score: 15/20 (2009/9/23)
12	Bruno Pereira brunomspereira@sapo.pt 2007/2008 - EE MSc-Bol	Sistema de aquisição de sinais biomédicos baseado num telefone celular - Aplicação na estimação da temperatura Central para determinação do ciclo circadiano do sono Co-Adviser: Rui Neves (DEEC/IST) Final Score: 17 ()
11	Hugo Pinto pinto.h@gmail.com 2007/2008 - EEC MSc-Bol 2007/2008 - EE MSc-Bol	Robotized microscope Co-adviser: José Rino, IMM Institute for Systems and Robotics Instituto Superior Técnico / Technical University of Lisbon Instituto de Medicina Molecular (IMM) Faculdade de Medicina da Universidade de Lisboa (FMUL) Final Score: 16/20 (20/11/2009)
10	João Raminhos joao.pedro.raminhos@gmail.com 2007/2008 - EEC MSc-Bol	Aquisição de Sinais Electrofisiológicos Aplicação ao Controlo de uma plataforma móvel a partir do EOG Final Score: 15/20
9	André Baptista andrefsmbaptista@gmail.com 2007/2008 - EEC MSc-Bol	Continuous monitorization and automatic detection of cardiac abnormalities with mobile phone Final Score: 15/20 (17/11/2009)
8	Isabela Montenegro Silva isabela.silva@gmail.com 2007/2008 - EBM MSc-Bol	Toward a fully automatic left ventricle segmentation using cine-MR images Final Score: 18/20
7	José Santos jlemasantos@gmail.com 2007/2008 - EBM MSc-Bol	A Baroreflex Control Model Using Head-Up Tilt Test Final Score: 17/20
6	Joana Coelho jrosadocoelho@gmail.com 2007/2008 - EBM MSc-Bol	Joint Detection-Estimation of Brain Activity in fMRI using Graph Cuts Final Core: 19/20
5	Pedro Pires Snuffit@Gmail.com 2007/2008 - EBM MSc-Bol	Activity Characterization from Actimetry Sensor Data for Sleep Disorders Diagnosis Final Score: 19/20
4	David Afonso david.afonso@gmail.com 2006/2007 - EBM MSc-Bol	Brain Functional Assessment With fMRI Joint Bayesian Activity Detection and Hemodynamic Response Estimation in Brain function Final Score: 20/20
3	Liliana Caldeira llcaldeira@gmail.com 2006/2007 - EBM MSc-Bol	Liver Tumor Assessment from DCE-MRI: Registration and Perfusion Quantification Final Score: 17/20
2	Artem Khmelinskii aihmel@gmail.com 2006/2007 - EBM MSc-Bol	Automatic Chromosome Pairing for Karyotyping Purposes Using Mutual Information in Bone Marrow Cells Final Score: 16/20
1	José Seabra ze_seabra@yahoo.com 2005/2006 - EBM MSc-Bol and TFC	Reconstrução e Diagnóstico 3D Ecográfico de Placas Ateroscleróticas Final Score: 18/20

Internship

3	Kestutis Bartnykas kestutis.bartnykas@el.vtu.lt	Hippocampus lateralization assessment with fMRI for surgical resection purposes
2	B. Ashish b.ashish@iitg.ernet.in	Mechanical 3D ultrasound scanner with an arm robot, 2007
1	Lars law@otelo-online.de	ELECTROOCULOGRAPHIC GUIDANCE OF A MOBILE ROBOT USING EYE MOVEMENTS, 2007

Final Course Work (TFC)

14	José Seabra (ze_seabra@yahoo.com) 2005/2006, LEBM	3D ultrasound Final Score: 20/20
13	Sofia d'Orey (sorey@math.ist.utl.pt) 2005/2006, LEBM	Investigating the Effects of Human Mutations Linked to Hypertrophic Cardiomyopathy on Putative Exonic Splicing Enhancers of the Human Cardiac Troponin T Gene Final Score: 19/20
12	Bruno Neves (Brun018@tugamail.com) 2005/2006, LEEC
11	Gonçalo Almeida (goingal@hotmail.com) 2005/2006, LEEC
10	Ricardo Ramires (Ricardo_Ramires@netcabo.pt) 2005/2006, LEEC	Final Score:16
9	Márcio Costa (marcio.vidal@sapo.pt) 2005/2006, LEEC
8	José Canelas (jdcanelas@clix.pt) 2005/2006, LEEC
7	Sofia Ribeiro (smribeiro@sapo.pt) 2005/2006, LEEC
6	Diogo Loureiro (dfsl.ist@netcabo.pt)
5	Mariana Avelar (minhocavelar@net.sapo.pt)	2005/2006, LEEC Final Score: 17
4	Sérgio Silva (sergi_f_s@hotmail.com)	2005/2006, LEEC Final Score: 17
3	Rodrigo Piedade (rmpie@hotmail.com)	2004/2005, LEEC, Final Score: 17
2	Alexandre Neves (alex_neves@netcabo.pt)	2004/2005, LEEC (Co-Adviser: Prof. Jorge Marques) Final Score: 19
1	Manuel Marques (man.marques@clix.pt)