Usuario:Alexsavio

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Alexandre Manhães Savio

Studies

  • PhD Thesis: Experiments of Machine Learning for Neurodiagnosis. Director: Prof. Manuel Graña Romay. 08/Nov/2013
PhD thesis
Cover small.png
Dissertation slides
  • January/2010 - November/2013 - PhD Student in the Computational Intelligence Group of the Computer Science and Artificial Intelligence department - University of the Basque Country. Beca de Formación de Personal Investigador del Gobierno Vasco desde Enero del 2010, renovable los 3 años siguientes.
  • Information Engineer (October 2006) - University of the Basque Country


Work Experience

  • October/2015 - current - Post-doctoral research in the Nuclear Medicine Department of the Klinikum rechts der Isar - Technische Universität München, Ismaninger Str. 22, 81675 Munich, Germany,
multi-modal brain PET-MRI processing and classification for detection of dementiae, collaboration with the Wrocław University of Technology. Board member of the EuroPython Society and organizer of EuroPython 2016.
  • January/2015 - October/2015 - Post-doctoral researcher for the European ENGINE Project at the Wrocław University of Technology, Poland.
collaborations with the local research group, Spanish clinical staff for medical image processing projects, brain fMRI image processing, Python programmer and EuroPython 2015 organizer.
  • December/2013 - December/2014 - Post-doctoral researcher at the Computational Intelligence Group of the Computer Science and Artificial Intelligence department - University of the Basque Country
collaborations with clinical staff for medical image processing projects, brain fMRI image processing, Python programmer and EuroPython 2015 organizer.
  • January/2010 - November/2013 - PhD Student in the Computational Intelligence Group of the Computer Science and Artificial Intelligence department - University of the Basque Country. 4 years pre-doctoral grant from the Basque Government.
Brain MR image processing and application of classification algorithms for the detection of brain neuronal disorders. Testing of new multishell brain HARDI models.
  • February/2008 - December/2009 - Research assistant at the Computational Intelligence Group of the Computer Science and Artificial Intelligence department - University of the Basque Country
MR image processing and application of classification algorithms for the detection of brain neuronal disorders.
  • April/2007 - January/2008 - Software Engineer in InnovaeVision, San Sebastián, Guipúzcoa, Spain.
Java, Spring Framework, Hibernate, C/C++ in GNU/Linux, GTK 2, Cairo graphics, DirectFB
  • July/2004 - April/2007 - Software Engineer in JADE Systems S.L., Zizur Mayor, Navarra, Spain.
C/C++, C++ Borland Builder 6, GUI design, Programming language parser (ANTLR), GNU/Linux Systems administration


Courses

  • July 7th-11th, 2008 - AERFAI Summer School - PRMA'08 - Pattern Recognition for Motion Analysis in the Computer Vision Center of the Universidad Autónoma de Barcelona.
  • May 31st - June 4th, 2010 - FSL Course organised by FMRIB, Oxford, the Martinos Center, MGH and Heidelberg & Würzburg Universities in Heidelberg, Germany.


Internships

  • January 24th - July 31st, 2011 - FMRIB, University of Oxford, UK with Dr. Saad Jbabdi. On ball&stick diffusion models for multishell HARDI and model selection.


Software

  • Pypes: a Python module based on Nipype for multimodal neuro-image pre-processing.
  • Copies of some software in my GitHub account:

visualize_volume

OASIS_AAL

OASIS_feets

Publications

BibTex File

Post-processed datasets from the work done in the group.

2017

Alexandre Savio, Sarah Fünger, Masoud Tahmasian, Srinivas Rachakonda, Andrei Manoliu, Christian Sorg, Timo Grimmer, Vince Calhoun, Alexander Drzezga, Valentin Riedl and Igor Yakushev
Resting state networks as simultaneously measured with fMRI and PET
The Journal of Nuclear Medicine, First published March 2, 2017,
doi: 10.2967/jnumed.116.185835
http://jnm.snmjournals.org/content/early/2017/02/23/jnumed.116.185835.abstract


Alexandre M. Savio, Michael Schutte, Manuel Graña and Igor Yakushev
Pypes: Workflows for Processing Multimodal Neuroimaging Data
Front. Neuroinform., 11 April 2017
doi: 10.3389/fninf.2017.00025
https://doi.org/10.3389/fninf.2017.00025


2016

Thomas Stadhouders, Alexandre Savio, Janine Diehl-Schmid, Christian Sorg, Timo Grimmer and Igor Yakushev
Alterations in neurocognitive networks in dementing disorders as assessed with simultaneous PET/fMRI
The Journal of Nuclear Medicine, May 2016, vol. 57, supplement 2.
http://jnm.snmjournals.org/content/57/supplement_2/237.abstract

2015

Konrad JACKOWSKI, Alexandre MANHAES-SAVIO, Boguslaw CYGANEK
Automatic segmentation of brain tumors using tensor analysis and multimodal MRI
XX Medical Informatics & Technologies Conference - 21-23 October 2015. Szcyrk, Poland.
Ariadna Besga, Itxaso González-Ortega, Enrique Echeburúa, Alexandre Savio, Borja Ayerdi, Darya Chyzhyk, Jose LM Madrigal, Juan C. Leza, Manuel Graña, Ana González-Pinto
Discrimination between Alzheimer’s Disease and Late Onset Bipolar Disorder using multivariate analysis
Frontiers in Aging Neuroscience. JCR 2014 - 4.000
Ariadna Besga-Basterra, Darya Chyzhyk, Itxaso González-Ortega, Alexandre Savio, Borja Ayerdi, Jon Echeveste, Manuel Graña, Ana González-Pinto
Eigenanatomy on fractional anisotropy imaging provides white matter anatomical features discriminating between Alzheimer’s Disease and Late Onset Bipolar Disorder
Current Alzheimer Research, Volume 13, Number 5, 2016. PAges 557-565. JCR (2014) 3.889 (Q1 Clin Neurol, Q2 Neurosciences), ISSN: 1875-5828 (Online), ISSN: 1567-2050 (Print)
Maite Termenon, Manuel Graña, Alexandre Savio, Anton Akusok, Yoan Miche, Amaury Lendasse
Brain MRI Morphological Patterns Extraction Tool based on Extreme Learning Machine and Majority Vote Classification
Neurocomputing (aceptado 6 de marzo) [6]
Medrano M, Maiz E, Maldonado-Martín S, Arenaza L, Rodríguez-Vigil B, Ortega FB, Ruiz JR, Larrarte E, Díez I, Sarasúa A, Tobalina I, Barrenechea L, Pérez-Asenjo J, Kannengiesser S, Manhães-Savio A, Echaniz O, Labayen I
The effect of a multidisciplinary intervention program on hepatic adiposity in overweight-obese children: protocol of the EFIGRO study
Contemporary Clinical Trials, Article accepted for publication: 21 Sep 2015, DOI: 10.1016/j.cct.2015.09.017
Darya Chyzhyk, Alexandre Savio, Manuel Graña
Computer Aided Diagnosis of Schizophrenia on resting state fMRI data by Ensembles of ELM
Neural Networks (2015)68:23-33. DOI information: 10.1016/j.neunet.2015.04.002 JCR (2014) 2.708 ,(2013) 2.076 (Q1 CSAI, Q3 Neurosciences), ISSN: 0893-6080
Alexandre Savio, Manuel Graña
Local Activity Features for Computer Aided Diagnosis of Schizophrenia on resting-state fMRI
Neurocomputing (Q1 CSAI: 2.005) (accepted Jan 10th, 2015)
G.A. Papakostas, A. Savio, M. Graña, V.G. Kaburlasos
A Lattice Computing Approach to Alzheimer’s Disease Computer Assisted Diagnosis Based on MRI Data
Neurocomputing, Volume 150, Part A, 20 February 2015, Pages 37–42
http://dx.doi.org/10.1016/j.neucom.2014.02.076

2014

Ariadna Besga, Manuel Graña, Ana Gonzalez-Pinto, Itxaso Gonzalez-Ortega, Alexandre Savio
Observation of Genotype-Phenotype interaction effects on White Matter in Alzheimer Disease and Bipolar Disorder: a randomized controlled trial
Neurogune 14, San Sebastián, Spain.
Alexandre Savio & Manuel Graña
Brain Cloud Computing: Brain image pre-processing made easy and boring
Neurogune 14, San Sebastián, Spain.
Alexandre Savio, Darya Chyzhyk, Manuel Graña
Computer Aided Diagnosis of Schizophrenia based on local-activity measures of resting-state fMRI
9th International Conference, HAIS 2014, Salamanca, Spain, June 11-13, 2014.
Proceedings, pp 1-12. DOI: 10.1007/978-3-319-07617-1_1; Print ISBN: 978-3-319-07616-4 [1]
Darya Chyzhyk, Alexandre Savio, Manuel Graña,
Evolutionary ELM wrapper feature selection for Alzheimer's disease CAD on anatomical brain MRI pdf
Neurocomputing, Volume 128, 27 March 2014, Pages 73-80,
ISSN 0925-2312, http://dx.doi.org/10.1016/j.neucom.2013.01.065.
JCR (2012) 1.634 (T1, Q2 CSAI)
Rosalia Dacosta-Aguayo; Manuel Graña; Alexandre Savio; Marina Fernández-Andújar ; Tibor Auer ; Monica Millán ; Elena López-Cancio ; Cynthia Cáceres ; Nuria Bargalló ; Cesar Garrido ; Maite Barrios ; Inmaculada Clemente ; Monica Hernández ; Jose Munuera ; Antonio Dávalos ; Maria Mataró
Prognostic value of changes in resting-state functional connectivity patterns in cognitive recovery after stroke: a 3T fMRI pilot study
Human Brain Mapping (aceptado 15 nov 2013) online [2]
Impact Factor: 6.878, ISI Journal Citation Reports © Ranking: 2012: 1/14 (Neuroimaging); 1/120 (Radiology Nuclear Medicine & Medical Imaging); 23/252 (Neurosciences)

2013

PhD Thesis - Dissertation slides
Borja Ayerdi, Alexandre Savio, Manuel Graña
Meta-ensembles of classifiers for Alzheimer's disease detection using independent ROI features
IWINAC 2013, Part II, LNCS 7931, pp. 122-130. Springer, Heidelberg (2013)[3]
J.M. Ferrandez et al. (Eds.):
Alexandre Savio, Manuel Graña
An ensemble of classifiers guided by the AAL brain atlas for Alzheimer’s disease detection
IWANN 2013, Part II, LNCS 7903, pp. 107-114. Springer, Heidelberg (2013) draft[4]
I. Rojas, G. Joya, and J. Cabestany (Eds.)

2012

Alexandre Savio, Manuel Graña
Deformation based feature selection for Computer Aided Diagnosis of Alzheimer’s Disease
Expert Systems with Applications, Available online 20 September 2012, Volume 40, Issue 5, April 2013, Pages 1619–1628 [5] draft JCR (2011) 2.203 (Q1 in CSAI)
Darya Chyzhyk, Alexandre Savio and Manuel Grana
Evolutionary ELM wrapper feature selection for Alzheimer's disease CAD on anatomical brain MRI
ELM 2012
Alexandre Savio, Manuel Graña
Supervised classification using deformation-based features for Alzheimer's disease detection on the OASIS cross-sectional database
Advances in Knowledge-Based and Intelligent Information and Engineering Systems. Frontiers in Artificial Intelligence and Applications (FAIA) series, Vol. 243, pages 2191 - 2200, 2012.
Eds: Manuel Graña, Carlos Toro, Jorge Posada, Robert J. Howlett and Lakhmi C. Jain. draft[6]
S. Jbabdi, S.N. Sotiropoulos, A.M. Savio, M. Graña, T.E.J. Behrens
Model-based analysis of multi-shell diffusion MR data for tractography: How to get over fitting problems
Magnetic Resonance in Medicine, Volume 68, Issue 6, pages 1846–1855, December 2012, DOI: 10.1002/mrm.24204 - doi: 10.1002/mrm.24204
A. Bourisly, A. Savio, M. Graña
A Meta-Analysis of FMRI Biomarkers for Alzheimer's Disease
OHBM 2012. June 10-14, 2012 Beijing, China
Darya Chyzhyk, Manuel Graña, Alexandre Savio, Josu Maiora
Hybrid Dendritic Computing with Kernel-LICA applied to Alzheimer’s Disease detection in MRI
Neurocomputing, 2012, Volumen 75, issue 1, pp. 72-77; ISSN 0925-2312; ISI JCR (2006) 0.860, (2007) 0.865, (2008) 1.234 (2009) 1.440 (2010) 1.429

2011

A. Savio, A. Bourisly, M. Graña
On Current Biomarkers for Alzheimer's Disease detected by Machine Learning techniques
ISMRM SCIENTIFIC WORKSHOP: Neuroimaging Biomarkers of Psychiatric Disorders: What are They?. October 13-16, 2011. Montabaur, Germany
M. Graña, M. Termenon, A. Savio, A. Gonzalez-Pinto, J. Echeveste, J. M. Pérez, A. Besga
Computer Aided Diagnosis system for Alzheimer Disease using brain Diffusion Tensor Imaging features selected by Pearson's correlation.
Neuroscience letters, Volume 502, Issue 3, September 20, 2011, Pages 225-229 on line, Index of Impact JCR (2010) 2.055
Alexandre Savio, Manuel Graña, Jorge Villanúa
Deformation based features for Alzheimer's disease detection with linear SVM.
Hybrid Artificial Intelligence Systems, 6th International Conference (HAIS 2011) - HAIS 2011, Part II, LNAI 6679 proceedings, p.336-343. Springer, Heidelberg (2011)

2010

Alexandre Savio, Maite García-Sebastián, Darya Chyzhyk, Carmen Hernández, Manuel Graña, Andone Sistiaga, Adolfo Lopez de Munain, Jorge Villanúa
Neurocognitive disorder detection based on Feature Vectors extracted from VBM analysis of structural MRI
Computers in Biology and Medicine (accepted: CBM-D-10-00306R1), Impact index JCR (2009) 1.269
Data:
GIC-experimental-databases/OASIS_VBM_feature_vectors
List of 98 OASIS females
Alexandre Savio, Juliette Charpentier, Maite Termenón, Ann K. Shinn, Manuel Graña
Neural classifiers for schizophrenia diagnostic support on diffusion imaging data
Neural Network World 20(7):935-949 [8].. ISI JCR 2009: 0.475
Data:
Alexandre Savio, Maite García-Sebastián, Andone Sistiaga, Darya Chyzhyk, Esther Fernández, Fermín Moreno, Elsa Fernández, Manuel Graña, Jorge Villanúa, Adolfo López de Munain
Machine Learning Approach for Myotonic Dystrophy Diagnostic Support from MRI
Recent Advances in Biomedical Signal Processing, 93 - 101; 2010, Bentham Science Publishers
Juan M. Górriz, Elmar W. Lang and Javier Ramírez (Eds),
Manuel Graña, Alexandre M. Savio, Maite García-Sebastián, Elsa Fernández
A Lattice Computing approach for On-line fMRI analysis
Image and Vision Computing 28(7):1155-1161, July 2010,; http://dx.doi.org/10.1016/j.imavis.2009.10.004; ISI JCR (2008) 1.496 (2009) 1.474 (2010) 1.525
Darya Chyzhyk, Maite Termenón, Alexandre Savio
A Comparison of VBM Results by SPM, ICA and LICA
Hybrid Artificial Intelligence Systems, 5th International Conference / HAIS 2010, San Sebastián, Spain, June 23-25, 2010. Proceedings, Part II; Emilio Corchado and Manuel Graña Romay and Alexandre Manhaes Savio, LNCS 6077, Springer Verlag 2010, pp. 429-435; ISBN: 978-3-642-13802-7; DOI 10.1007/978-3-642-13803-4_53

2009

Maite García-Sebastián, Alexandre Savio, Manuel Graña, Jorge Villanúa
On the use of Morphometry based features for Alzheimer's Disease detection on MRI
Bio-Inspired Systems: Computational and Ambient Intelligence. / IWANN 2009 (Part I); Joan Cabestany, Francisco Sandoval, Alberto Prieto, Juan M. Corchado (Editors), LNCS 5517, Springer Verlag 2009, pp. 957-964; ISBN 978-3-642-02477-1; DOI 10.1007/978-3-642-02478-8_120
Data:
GIC-experimental-databases/OASIS_VBM_feature_vectors
List of 98 OASIS females
Alexandre Savio, Maite García-Sebastián, Manuel Graña, Jorge Villanúa
Results of an Adaboost approach on Alzheimer's Disease detection on MRI
Methods and Models in Artificial and Natural Computation. / IWINAC 2009 (Part II); José Mira, José Manuel Ferrández, José R. Álvarez, Félix de la Paz, F. Javier Toledo (Editors), LNCS 5602, Springer Verlag 2009, pp. 114-123; ISBN 978-3-642-02266-1; DOI 10.1007/978-3-642-02267-8_13
draft
Data:
GIC-experimental-databases/OASIS_VBM_feature_vectors
List of 98 OASIS females
Alexandre Savio, Maite García-Sebastián, Carmen Hernández, Manuel Graña, Jorge Villanúa
Classification Results of Artificial Neural Networks for Alzheimer's Disease Detection
Intelligent Data Engineering and Automated Learning - IDEAL 2009; LNCS 5788, Springer Verlag 2009, pp. 641-648; ISBN: 978-3-642-04393-2; DOI: 10.1007/978-3-642-04394-9_78
draft
Data:
GIC-experimental-databases/OASIS_VBM_feature_vectors
List of 98 OASIS females

2008

Maite García-Sebastián, A. M. Savio, M. Graña
Comments on an Evolutionary Intensity Inhomogeneity Correction Algorithm
| link; Proceedings CEC 2008, pp.4146-4150; ISBN 978-1-4244-1822-0
Alexandre Manhaes Savio
Capítulo de libro en las Actas de las II Jornadas de Inteligencia Computacional - JIC'08
Ramón Moreno Jiménez, Alexandre Manhaes Savio (Editors); Servicio editorial de la UPV/EHU; :ISBN 978-84-296-2316-1
slides_book


Projects

XXIV Premio Toribio Echeverria

* Alexandre Savio y Borja Ayerdi y Manuel Graña: XXIV Premio Toribio Echeverria, Brain Cloud Computing, Premio "Ideas/Proyectos Empresariales" 2014 "Empresa Asmoak" Saria noticias de gipuzkoa,
con el premio
, noticias SPRI


Segundo Premio Laborde Werlinden XIII

  • Alexandre Savio, Borja Ayerdi y Manuel Graña: XIII Premio Manuel Laborde Werlinden, 2013 [9] on the local news


MICINN Imagenes Medicas

  • Investigador Principal: Manuel Graña
  • Participantes:
    • UPV/EHU: Darya Chyzhyk, Blanca Rosa Cases Gutierrez, Alexandre Manhaes Savio, Josu Maiora Oria, Carmen Hernandez Gomez, Pablo Gonzalez Nalda, Borja Fernandez Gauna, Aitzol Ezeiza Ramos
    • Oastek: Esther Fernandez Pardavila, Jorge Alberto Villanua Bernues, Jon Echeveste Aizpurua,
    • Hospital Santiago: Ariadna Besga Basterra (baja en junio 2012)
    • Vicomtech: Ivan Macia Oliver, Iñigo Barandiaran Martirena, Andoni Beristain Iraola
    • Ikerbasque: Amaury Lendasse
    • Colaboradores Extranjeros: Dost Ongur, Ann K. Shinn, Vassilis G Kaburlasos, Ajith Abraham, Timothy E Behrens, Saad Jbabdi, Peter Sussner
  • duración: 2011-2013
  • Type of participation: member of the research group


SAIOTEK 2009

  • Investigador Principal: Manuel Graña
  • Acronimo SOFLIMRI
  • Titulo: Desarrollo basado en software libre de técnicas morfométricas de anatomía computacional para estudio de enfermedades neurodegenerativas
  • Importe de la subvención: 32000 euros
  • Duracion: 2009-2010
  • memoria adicional final
  • Type of participation: member of the research group


  • Otros proyectos del grupo [10]


Research Areas

  • Pattern recognition applied to medical images
  • Brain medical image processing
  • Gesture recognition systems


Research Questions

  • How does the multivariate tensor analysis work using all the deformation tensor information?
  • Is there any SOM-based framework for diffusion data modelling?
  • Any application of Lattice-Computing on Probabilistic Tractography?


Pending Tasks

  • ITK, ANTS...
  • OpenMP and MPI
  • Multivariate Analysis
  • Meditate
  • DTI modeling
  • Process Ann's DTI dataset
  • Add MRI and ML related info pages with literature reviews on this wiki.


articulos de revistas en proceso de redacción

  • rsfMRI scalar measures and CAD
  • rsfMRI connectivity matrices and CAD

conferencias en el horno

Conferences

"I love deadlines. I especially like the whooshing sound they make as they go flying by." - Douglas Adams


Coming...




Current readings

Books

  @book{mcconnell_applications_1960,
        title = {Applications of Tensor Analysis},
        isbn = {0486603733},
        publisher = {Dover Publications},
        author = {A. J. {McConnell}},
        month = jun,
        year = {1960}
       }

Working articles


Congresos y revistas objetivo

Revistas (ordenadas por factor de impacto)

1- Journal of Magnetic Resonance Imaging

2- Medical Image Analysis

3- IEEE Transactions on Medical Imaging

4- Magnetic Resonance in Medicine

Otras revistas

Congresos

  • More conferences: [12]


Internet Bookmarks

Courses

Databases

Research Groups


Utilities

Scientific Writing

Computer Settings

  • Install ITK and Kitware software from sources. [13] [14] (for more information ask me)

Image Processing

Pattern Recognition

Real World


Estado burocrático de la tesis

Director
Manuel Graña
Trabajo de investigación aprobado.
Contratos durante los años 2008 y 2009
Beca de Formación de Personal Investigador del Gobierno Vasco para los años 2010, 2011, 2012 y 2013 (todas las renovaciones ya han sido concedidas).


Working Diaries

Pedradas de Alex
Seguimientos