Research Interests
My research interests include Image Processing, decision support systems and healthcare information systems.
Current Projects
- SINAIS - Sistema de apoio à navegação baseado em sinais AIS
- ARINCA - Armazém Seguro de Cartões de Identificação Personalizados
- BioPattern - Computational Intelligence for Biopattern analysis in Support of eHealthcare
- DRUSAS – Automatic detection of Drusen deposits on retina images
- COSIS - Coimbra Observatory: Solar Information System
Publications
Capítulos de livros publicados
- AMora, André D; Fonseca, José M; Vieira, Pedro
M. 2012. Variability and Repeatability Tests of ARMD Assessment
Using the AD3RI Tool. In Technological Innovation for Value Creation,
ed. Luis M. Camarinha-Matos, Ehsan Shahamatnia, Gonçalo
Nunes, 583 - 590. ISBN: 978-3-642-28254-6. Berlin, Heidelberg:
Springer Berlin Heidelberg.
doi: 10.1007/978-3-642-28255-3_65
- Almeida, Graça; Melicio, Fernando; Chastre, Carlos; Fonseca,
José. 2011. Displacement Measurements with ARPS in T-Beams
Load Tests. In Technological Innovation for Sustainability, ed.
Luis M. Camarinha-Matos, 286 - 293. ISBN: 978-3-642-19169-5. Berlin,
Heidelberg: Springer Berlin Heidelberg.
doi: 10.1007/978-3-642-19170-1_31
- Fernandes, Ana S; Bacciu, Davide; Jarman, Ian H; Etchells, Terence
A; Fonseca, José M; Lisboa, Paulo J. G. 2010. Different
Methodologies for Patient Stratification Using Survival Data.
In Computational Intelligence Methods for Bioinformatics and Biostatistics,
ed. Francesco MasulliLeif E. PetersonRoberto Tagliaferri, 276
- 290. ISBN: 978-3-642-14570-4. Berlin, Heidelberg: Springer Berlin
Heidelberg.
doi: 10.1007/978-3-642-14571-1_21
- Fernandes, Ana S; Alves, Pedro; Jarman, Ian H; Etchells, Terence
A; Fonseca, José M; Lisboa, Paulo J. G. 2010. A Clinical
Decision Support System for Breast Cancer Patients. In Emerging
Trends in Technological Innovation, ed. Luis M. Camarinha-MatosPedro
PereiraLuis Ribeiro, 122 - 129. ISBN: 978-3-642-11627-8. Berlin,
Heidelberg: Springer Berlin Heidelberg.
doi: 10.1007/978-3-642-11628-5_13
- Mora, André; Vieira, Pedro; Fonseca, José. 2010.
Advances in Image Processing Techniques for Drusens Detection
and Quantification in Fundus Images. In Emerging Trends in Technological
Innovation, ed. Luis M. Camarinha-MatosPedro PereiraLuis Ribeiro,
299 - 307. ISBN: 978-3-642-11627-8. Berlin, Heidelberg: Springer
Berlin Heidelberg.
doi: 10.1007/978-3-642-11628-5_32
- Mora, A.; Fonseca, J.; Veira, P.. 2009. Retina Image Gradings'
Comparison by Weighted Matching Analysis. In World Congress on
Medical Physics and Biomedical Engineering, September 7 - 12,
2009, Munich, Germany, ed. Olaf DösselWolfgang C. Schlegel,
296 - 299. ISBN: 978-3-642-03890-7. Berlin, Heidelberg: Springer
Berlin Heidelberg.
doi: 10.1007/978-3-642-03891-4_79
- Fernandes, Ana S; Jarman, Ian H; Etchells, Terence A; Fonseca,
José M; Biganzoli, Elia; Bajdik, Chris; Lisboa, Paulo J.
G. 2009. Stratification Methodologies for Neural Networks Models
of Survival. In Bio-Inspired Systems: Computational and Ambient
Intelligence, ed. Joan CabestanyFrancisco SandovalAlberto PrietoJuan
M. Corchado, 989 - 996. ISBN: 978-3-642-02477-1. Berlin, Heidelberg:
Springer Berlin Heidelberg.
doi: 10.1007/978-3-642-02478-8_124
- Etchells, Terence A; Fernandes, Ana S; Jarman, Ian H; Fonseca,
José M; Lisboa, Paulo J. G. 2008. Stratification of Severity
of Illness Indices: A Case Study for Breast Cancer Prognosis.
In Knowledge-Based Intelligent Information and Engineering Systems,
ed. Ignac LovrekRobert J. HowlettLakhmi C. Jain, 214 - 221. ISBN:
978-3-540-85564-4. Berlin, Heidelberg: Springer Berlin Heidelberg.
doi: 10.1007/978-3-540-85565-1_27
- Fonseca, José M; Mora, André D; Barroso, Pedro.
2006. The Web and the New Generation of Medical Information Systems.
In Outcome Prediction in Cancer, 391 - 414. . UK: Elsevier.
- Fonseca, Jose M; Oliveira, Eugénio; Steiger-Garção,
Adolfo. 1997. Multi-agent negotiation algorithms for resources
cost estimation: A case study. In Progress in Artificial Intelligence,
ed. Ernesto CoastaAmilcar Cardoso, 195 - 206. ISBN: 3-540-63586-6.
Berlin/Heidelberg: Springer-Verlag.
doi: 10.1007/BFb0023922
Artigos em revistas com arbitragem científica
- Shahamatnia, Ehsan; Dorotovic, Ivan; Ribeiro, Rita A; Fonseca,
José M. 2012. "Towards an automatic sunspot tracking:
Swarm intelligence and snake model hybrid", Acta Futura ,
5: 153 - 161.
doi: 10.2420/AF05.2012.153
- Martins, Leonardo; Mäkelä, Jarno; Häkkinen, Antti;
Kandhavelu, Meenakshisundaram; Yli-Harja, Olli; Fonseca, José
M; Ribeiro, Andre S. 2012. "Dynamics of transcription of
closely spaced promoters in Escherichia coli, one event at a time",
Journal of Theoretical Biology 301, 5: 83 - 94.
doi: 10.1016/j.jtbi.2012.02.015
- Brunner, Simon; Mora, André D; Fonseca, José M;
Weber, Tina; Falkner-Radler, Christiane I; Oeser, Reinhard; Binder,
Susanne. 2012. "Monitoring of Drusen and Geographic Atrophy
Area Size after Cataract Surgery using the MD3RI Tool for Computer-Aided
Contour Drawing", Ophtalmologica, 1: 1 - 10.
doi: 10.1159/000345492
- Correia, Raul C; Fonseca, J.M.; Donnellan, Andrew. 2012. "Ontology:
A Support Structure for a V-Labs Network: Euronet-Lab", International
Journal of Online Engineering (iJOE) 8, S3: 26 - 35.
doi: 10.3991/ijoe.v8iS3.2257
Mora, André D; Vieira, Pedro M; Manivannan, Ayyakkannu;
Fonseca, José M. 2011. "Automated drusen detection
in retinal images using analytical modelling algorithms",
BioMedical Engineering OnLine 10, 1: 1 - 15.
doi: 10.1186/1475-925X-10-59
- Fernandes, Ana S; Fonseca, Jose M; Jarman, Ian H; Etchells,
Terence A; Lisboa, Paulo J; Biganzoli, Elia; Bajdik, Chris. 2009.
"Evaluation of missing data imputation in longitudinal cohort
studies in breast cancer survival", International Journal
of Knowledge Engineering and Soft Data Paradigms 1, 3: 257 - 276.
doi: 10.1504/IJKESDP.2009.028818
- Farinha, Ricardo J. P. C; Ruotsalainen, Ulla; Hirvonen, Jussi;
Tuominen, Lauri; Hietala, Jarmo; Fonseca, José M; Tohka,
Jussi. 2009. "Segmentation of Striatal Brain Structures from
High Resolution PET Images", International Journal of Biomedical
Imaging 2009, 1: 1 - 12.
doi: 10.1155/2009/156234
- Almeida, P. L; Kundu, S.; Beja, D.; Fonseca, J.; Figueirinhas,
J. L; Godinho, M. H. 2009. "Deformation of isotropic and
anisotropic liquid droplets dispersed in a cellulose liquid crystalline
derivative", Cellulose 16, 3: 427 - 434.
doi: 10.1007/s10570-008-9273-x
- Bulajic, D; Cristoforetti, G; Corsi, M; Hidalgo, M; Legnaioli,
S; Palleschi, V; Salvetti, A; Tognoni, E; Green, Steve; Bates,
Derek; Steiger, Adolf; Fonseca, Josè; Martins, Josè;
McKay, John; Tozer, Bryan; Wells, David; Wells, Robert; Harith,
M.A. 2002. "Diagnostics of high-temperature steel pipes in
industrial environment by laser-induced breakdown spectroscopy
technique: the LIBSGRAIN project", Spectrochimica Acta Part
B: Atomic Spectroscopy 57, 7: 1181 - 1192.
doi: 10.1016/S0584-8547(02)00060-5
- De Oliveira, E; Fonseca, Jose M; Steiger-Garcao, Adolfo. 1997.
"Maciv a dai based resource management system", Applied
Artificial Intelligence 11, 6: 525 - 550.
doi: 10.1080/088395197118055
Trabalhos completos/resumidos em eventos com arbitragem científica
- Cordeiro, Raúl; Donnellan, Andrew; Fonseca, José
M. 2012. "Euronet Lab - A Cloud Based Laboratory Environment",
Trabalho apresentado em IEEE EDUCON2012 - Collaborative Learning
& New Pedagogic Approaches in Engineering Education, In Proceedings
of IEEE EDUCON 2012, Marraquexe, 17-20 Abril.
- Almeida, Graça; Melicio, Fernando; Fonseca, José
M. 2012. "Block Matching Algorithms for Load tests Evaluation:
ARPS versus PSO", Trabalho apresentado em The Eighth International
Conference on Engineering Computational Technology, In Proceedings
of The Eighth International Conference on Engineering Computational
Technology, Dubrovnik, Croatia.
- Silveira, Tiago; Kozakevicius, Alice; Fonseca, José M;
Mora, André D. 2012. "Uma proposta de segmentacão
de imagens de bactérias Eschirichia Coli obtidas por microscopia
de fluorescência", Trabalho apresentado em 34º
Congresso Nacional de Matemática Aplicada e Computacional,
In Actas do 34º Congresso Nacional de Matemática Aplicada
e Computacional, Águas de Lindôa.
- Martins, Leonardo; Ribeiro, Andre S; Mäkelä, Jarno;
Häkkinen, Antti; Fonseca, José M. 2012. "Stochastic
model of transcription initiation of closely spaced promoters
in Escherichia coli", Trabalho apresentado em Ninth International
Meeting on Computational Intelligence Methods for Bioinformatics
and Biostatistics, In Proceedings of the Ninth International Meeting
on Computational Intelligence Methods for Bioinformatics and Biostatistics,
Houston, Texas.
- Queimadelas, Cátia; Rodrigues, João; Muthukrishnan,
A-B.; Mora, André D; Ribeiro, Andre S; Fonseca, José
M. 2012. "Segmentation and tracking of Escherichia coli expressing
tsr-venus proteins from combined DIC/Fluorescence images",
Trabalho apresentado em MEDSIP 2012 - 5th International Conference
on Advances in Medical Signal and Information Processes , In Proceedings
of MEDSIP 2012, Liverpool.
- Fonseca, José M; Grieger, Björn; Mora, André
D; Almeida, Miguel; Costa, Marco; Antunes, Luís; Fernandes,
Vera. 2012. "SMARTIC - EXPLORING SMART-1 IMAGES", Trabalho
apresentado em The Global Space Exploration Conference, In Proceedings
of The Global Space Exploration Conference, Washington.
- Fonseca, José M; Cordeiro, Raúl; Donnellan, Andrew.
2012. "Ontology: a support structure for a v-labs network,
the Euronet-lab", Trabalho apresentado em REV2012 - Remote
Engineering & Virtual Instrumentation, In Proceedings of REV
2012, Bilbao.
- Rybanský, M.; Dorotovic, Ivan; Lorenc, M.; Shahamatnia,
Ehsan; Ribeiro, Rita A; Fonseca, José M. 2012. "Search
for jet stream", Trabalho apresentado em 21st National Solar
Physics Meeting, In Proceedings of the 21st National Solar Physics
Meeting, Stará Turá.
- Fonseca, José M; Grieger, Björn; Mora, André
D; Almeida, Miguel; Costa, Marco; Antunes, Luís; Fernandes,
Vera. 2012. "Calibration and Mosaicing of SMART-1 Images",
Trabalho apresentado em European Planetary Science Congress, In
Proceedings of the European Planetary Science Congress 2012, Madrid.
- Fonseca, Jose M; Rodrigues, Nuno M; Mora, Andre D; Ribeiro,
Rita A. 2011. "Optical character recognition using automatically
generated Fuzzy classifiers", Trabalho apresentado em 2011
Eighth International Conference on Fuzzy Systems and Knowledge
Discovery (FSKD), In 2011 Eighth International Conference on Fuzzy
Systems and Knowledge Discovery (FSKD), Shanghai, China.
doi: 10.1109/FSKD.2011.6019585
- Shahamatnia, Ehsan; Dorotovic, Ivan; Ribeiro, Rita A; Fonseca,
José M. 2011. "Swarm Intelligence and Snake Model
For Automatic Sunspot Tracking ", Trabalho apresentado em
AI in Space: Intelligence beyond planet Earth, In Proceedings
of the AI in Space: Intelligence beyond planet Earth Workshop,
Barcelona.
- Almeida, Graça; Fonseca, José M; Melicio, Fernando.
2011. "Displacement measurements with block motion algorithms",
Trabalho apresentado em VIPIMAGE - III ECCOMAS Thematic Conference
on Computational Vision and Medical Image Processing, In Proceedings
of the III ECCOMAS Thematic Conference on Computational Vision
and Medical Image Processing: VipIMAGE 2011, Olhão.
- Lisboa, Paulo J. G; Fernandes, Ana S; Fonseca, Jose M; Bajdik,
Chris; Biganzoli, Elia. 2010. "Assessment of benefit vs.
risk of drug therapy: The potential for outcome analysis with
flexible models", Trabalho apresentado em 2010 International
Joint Conference on Neural Networks (IJCNN), In The 2010 International
Joint Conference on Neural Networks (IJCNN), Barcelona, Spain.
doi: 10.1109/IJCNN.2010.5596689
- Fernandes, Ana S; Bacciu, Davide; Jarman, Ian H; Etchells, Terence
A; Fonseca, José M; Lisboa, Paulo J. G. 2009. "p-Health
in Breast Oncology: A Framework for Predictive and Participatory
e-Systems", Trabalho apresentado em 2009 Second International
Conference on Developments in eSystems Engineering (DESE), In
2009 Second International Conference on Developments in eSystems
Engineering, Abu Dhabi, UAE.
doi: 10.1109/DeSE.2009.68
- Alves, David S; Paulus, Jouni; Fonseca, José M. 2009.
"Drum Transcription from Multichannel Recordings with Non-Negative
Matrix Factorization", Trabalho apresentado em 17th European
Signal Processing Conference (EUSIPCO 2009), In Proceedings of
the 17th European Signal Processing Conference, Glasgow, Scotland.
- Fernandes, Ana S; Jarman, Ian H; Etchells, Terence A; Fonseca,
José M; Biganzoli, Elia; Bajdik, Chris; Lisboa, Paulo J.
G. 2008. "Missing Data Imputation in Longitudinal Cohort
Studies: Application of PLANN-ARD in Breast Cancer Survival",
Trabalho apresentado em 2008 Seventh International Conference
on Machine Learning and Applications, In 2008 Seventh International
Conference on Machine Learning and Applications, San Diego, CA,
USA.
doi: 10.1109/ICMLA.2008.106
- Fonseca, José M; Mora, André D; Vieira, Pedro.
2005. "Detecção de Drusas em Imagens de Retinografia",
Trabalho apresentado em Jornadas de Engenharia Electrónica
e Telecomunicações e de Computadores - JETC'05.
ISEL, Lisboa, Portugal - 17-18 November 2005, In Jornadas de Engenharia
Electrónica e Telecomunicações e de Computadores
- JETC'05, Lisboa.
- Fonseca, José M; Mora, André D; Marques, Ana C.
2005. "MAMIS - Um Sistema Multi-agente para Informação
Médica", Trabalho apresentado em Jornadas de Engenharia
Electrónica e Telecomunicações e de Computadores
- JETC'05. ISEL, Lisboa, Portugal - 17-18 November 2005, In Jornadas
de Engenharia Electrónica e Telecomunicações
e de Computadores - JETC'05, Lisboa.
- Iglesias, O.; Ribeiro, R.A.; Fonseca, J.R.. 2004. "A fuzzy
multi-agent bidding model", Trabalho apresentado em Proceedings.
IEEE/WIC/ACM International Conference on Intelligent Agent Technology,
2004. (IAT 2004)., In Proceedings. IEEE/WIC/ACM International
Conference on Intelligent Agent Technology, 2004. (IAT 2004).,
Beijing, China.
doi: 10.1109/IAT.2004.1343009
- Mora, A.; Fonseca, J.; Martins, J.; Steiger-Garcao, A.. 2003.
"LIBS chemical images analysis for fatigue estimation in
industrial materials", Trabalho apresentado em 3rd International
Symposium on Image and Signal Processing and Analysis, 2003. ISPA
2003., In 3rd International Symposium on Image and Signal Processing
and Analysis, 2003. ISPA 2003. Proceedings of the, Rome, Italy.
doi: 10.1109/ISPA.2003.1296920
- De Oliveira, E; Fonseca, José M; Jennings, Nick. 1999.
"Learning to be Competitive in the Market", Trabalho
apresentado em AAAI Workshop on Negotiation: Settling Conflicts
and Identifying Opportunities, In AAAI Technical Report WS-99-12.
Compilation, Orlando.
- De Oliveira, E; Fonseca, José M; Steiger-Garcao, Adolfo.
1999. "Multi-Criteria Negotiation on Multi-Agent Systems",
Trabalho apresentado em CEEMAS'99 - First International Workshop
of Central and Eastern Europe on Multi-Agent Systems, 30 May-3
June 1999, In Proceedings of CEEMAS'99 , S. Petersburgo, Rússia.
Ribeiro-Fonseca, J.; Correia, L.. 1994. "Identification of
underwater acoustic noise", Trabalho apresentado em OCEANS'94,
In Proceedings of OCEANS'94, Brest, France.
doi: 10.1109/OCEANS.1994.364112
- Fonseca, J.M.; Moura-Pires, F.. 1992. "Ship Noise Evaluation
Based On Segmented Decision Trees", Trabalho apresentado
em IEEE/RSJ International Conference on Intelligent Robots and
Systems, In Proceedings of the IEEE/RSJ International Conference
on Intelligent Robots and Systems, Raleigh, NC.
doi: 10.1109/IROS.1992.601419
- Fonseca, José M; Barata, Manuel M; Steiger-Garção,
Adolfo. 1990. "Predictive Monitoring Environment for CNC
Machining", Trabalho apresentado em IEEE International Workshop
on Intelligent Motion Control, Istambul, Turquia, Agosto 1990,
In Proccedings, Istambul.
Trabalhos completos/resumidos em eventos sem arbitragem científica
- Almeida, Miguel; Fonseca, José M. 2011. "Pattern
recognition for the creation of synthetic flat fields", Trabalho
apresentado em Inter-Departmental Science Workshop 2011 - IDSW
2011, In Proceedings of the Inter-Departmental Science Workshop
2011 , Toledo.
- Patentes Nacionais
- Fonseca, José M. ARINCA - Armazém Seguro de Cartões
de Identificação Personalizados,2008. Natureza do
produto: Equipamento. Patente: Modelo Industrial/Modelo.n. 104061,"Armazém
Seguro de Cartões de Identificação Personalizados".26
set. 2011(Depósito);10 jul. 2008(Concessão).
Apresentação oral de trabalho
- Fonseca, José M; Mora, André D. Biomedical Applications
of Digital Image Processing,JORTEC2013 - Biomedical Engineering,
A Glance at the Future,Lisboa,2013 (Conferência ou palestra).
- Brunner, Simon; Mora, André D; Fonseca, José M;
Weber, Tina; Falkner-Radler, Christiane I; Oeser, Reinhard; Binder,
Susanne. Drusen and geographic atrophy quantification with the
MD3RI Tool in non-exsudative AMD before and after cataract surgery:
a short-term prospective randomized trial,2nd Workshop on Data
Analysis and Modeling Retina in Health and Disease ,Costa da Caparica,2012
(Comunicação).
- Cordeiro, Hugo; Menezes, Carlos; Fonseca, José M. Voice
Pathology Detection and identification using speech processing
techniques,3rd Doctoral Conference on Computing, Electrical and
Industrial Systems (DoCEIS'12),Costa da Caparica,2012 (Poster).
- Dorotovic, Ivan; Shahamatnia, Ehsan; Lorenc, Marc; Rybanský,
Marc; Ribeiro, Rita A; Fonseca, José M. Differential Rotation
of Coronal Bright Points Determined using PSO/Snake Algorithms,European
Week of Astronomy and Space Science 2012,Roma,2012 (Poster).
- Fonseca, José M; Cordeiro, Raúl; Donnellan, Andrew.
Euronet Lab, a Cloud V-Lab Environment,DOCEIS 2011, 2nd Doctoral
Conference on Computing, Electrical and Industrial Systems,Costa
da Caparica,2011 (Poster).
- Fonseca, José M; Gomes, Carla; Costa, Ruy. Artificial
Intelligence for b-learning effectiveness evaluation,DOCEIS 2011,
2nd Doctoral Conference on Computing, Electrical and Industrial
Systems,2011 (Poster).
- Assadi, Amir; Ribeiro, Rita A; Fonseca, José M; Mora,
André D; Campanella, Gianluca. Model Reduction of Massive
High Dimensional Biological Image Data and Soft Computing,World
Conference on Soft Computing, San Francisco State University,
San
- Francisco, USA, May 23-26,San Francisco,2011 (Comunicação).
- Fonseca, José M. Photogrammetric and Civil Engineering,DOCEIS
2010, Doctoral Conference on Computing, Electrical and Industrial
Systems, 22-24 February 2010, Costa da Caparica, Portugal,Costa
da Caparica,2010 (Poster).
- Fonseca, José M; Meira, Manuel; Mora, André D;
Elias, Jorge. SINAIS - AIS based navigational-aid system,28th
Waterborne Transport Committee Meeting,Venice ,2009 (Comunicação).
- Dorotovic, Ivan; Fernandes, João; Fonseca, José
M; Moreira, Carlos; Ribeiro, Rita A. COSIS: Coimbra Observatory
Solar Information System,2006 (Poster).
- Fonseca, José M; De Oliveira, E; Steiger-Garção,
Adolfo. Negotiation and Resources Cost Calculation in a MAS for
Civil Construction Companies,MAMAAW'97; Ronneby, Sweden, June
1997,Ronneby, Sweden,1997 (Poster).
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Researcher at CRI/UNINOVA
Professor at DEE-FCT/UNL
jmf@uninova.pt
Edifício Researcher at CTS / UNINOVA, Gab. 2.15
+351 21 294 85 27/8/9 (ext. 13734)
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