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• Mohammed S. Al-Rawi, João Paulo Cunha. On using permutation tests to estimate the classification significance of functional magnetic resonance imaging data. Neurocomputing, vol. 82, p. 224–233, April 2012 (IF 2010: 1.429)
• David Ribeiro, Lianshe Fu, Luis Carlos, João Paulo Cunha. A novel dry active biosignal electrode based on an hybrid organic-inorganic interface material. IEEE Sensors Journal, vol. 11, no. 10, p. 2241-2245, October 2011 (IF 2010: 1.473, 1.473)
• AS Peters, J Rémi, C Vollmar, J Gonzalez-Victores, João Paulo Cunha, S Noachtar. Dysprosody during epileptic seizures lateralizes to the non-dominant hemisphere. Neurology, vol. 77, p. 1482-1486, October 2011 (IF 2010: 8.017, 8.017)
• Jan Rémi, Philipp Wagner, Rebecca O'Dwyer, João Paulo Cunha, Christian Vollmar, Isabella Krotofil, Soheyl Noachtar. Ictal Head Turning in Frontal and Temporal Lobe Epilepsy. Epilepsia, vol. 52, no. 8, p. 1447-1451, August 2011 (IF 2010: 3.955)
• Mohammed S. Al-Rawi, João Paulo Cunha. Using multivariate pattern analysis to study how specific brain regions respond to different visual stimulation. Journal of Neurology, vol. 258, p. S167, May 2011 (IF 2010: 3.853)
• Jan Rémi, João Paulo Cunha, Christian Vollmar, Ozgur Topçuoglu, Alexander Meier, Steffen Ulowetz, Pedro Beleza, Soheyl Noachtar. Quantitative Movement Analysis Differentiates Focal Seizures Characterized by Automatisms. Epilepsy & Behavior, vol. 20, no. 4, p. 642-647, April 2011 (IF 2010: 1.994)
• Pedro Dias, Isabel Soares, John Klein, João Paulo Cunha, Glenn Roisman. Autonomic correlates of attachment insecurity in a sample of women with eating disorders. Attachment & Human Development, vol. 13, no. 2, p. 155-167, March 2011 (IF 2010: 1.426)
• Zulfiya Mirzadjanova, Astrid S. Peters, Jan Rémi, Candas Bilgin, João Paulo Cunha, Soheyl Noachtar. Significance of lateralization of upper limb automatisms in temporal lobe epilepsy: A quantitative movement analysis. Epilepsia, vol. 51, no. 10, p. 2140-2146, October 2010 (IF 2010: 3.955)
• João Paulo Cunha, José Maria Fernandes, Astrid Petters, Candas Bilgin, Jan Rémi, Zulfiya Mirzadjanova, José Gonzalez-Vitores, Soheyl Noachtar. Quantitative Analysis of Upper Limb Automatisms in Temporal and Frontal Lobe Epilepsy. Epilepsia, vol. 51, no. S4, p. 53-53, June 2010 (IF 2010: 3.955)
• João Paulo Cunha, José Maria Fernandes, Virgilio Bento, L. Paula, F. Oliveira, C. Bilgin, S. Noachtar. 3D movement quantification in epilepsy: new contribution for quantitative semiology analysis. Epilepsia, vol. 50, no. s10, p. 84, October 2009 (IF 2009: 4.052) (IF 2010: 3.955)
• José Maria Fernandes, João Paulo Cunha, Sérgio Tafula, S. Brandao, A. Bastos Leite, I. Ramos. Video-EEG-FMRI: A proximal in-bore video-EEG system within a 3T MRI scanner. Epilepsia, vol. 50, no. s10, p. 130, October 2009 (IF 2009: 4.052) (IF 2010: 3.955)
• N. F. Lori, José Maria Fernandes, S. Brandão, A. Bastos Leite, João Paulo Cunha. Separating sensory and motor BOLD functional MRI activations using q-ball white matter fibre tracking in humans. European Journal of Neurology, vol. 15, no. s3, p. 295, August 2008 (IF 2008: 2.732) (IF 2010: 3.765)
• Luis A. Meireles, A. Catarina Guedes, Catarina R. Barbosa, José Luís Azevedo, João Paulo Cunha, F. Xavier Malcata. On-line control of light intensity in a microalgal bioreactor using a novel automatic system. Enzyme and Microbial Technology, vol. 42, no. 7, p. 554–559, June 2008 (IF 2008: 2.375) (IF 2010: 2.287)
• João Paulo Cunha, Miguel Coimbra, P. Campos, J. M. Soares. Automated Topographic Segmentation and Transit Time Estimation in Endoscopic Capsule Exams. IEEE Transactions on Medical Imaging, vol. 27, no. 1, p. 19-27, January 2008 (IF 2008: 4.004) (IF 2010: 3.639)
• José Maria Fernandes, F. Sales, João Paulo Cunha. Epigauss: Lateralization value of a new automated analysis software based on spike dipole densities and spatial clustering. Epilepsia, vol. 48, no. s6, p. 3–4, October 2007 (IF 2007: 3.569) (IF 2010: 3.955)
• Rebecca O'Dwyer, João Paulo Cunha, Christian Vollmar, Cordula Mauerer, Berend Feddersen, Richard C. Burgess, Alois Ebner, Soheyl Noachtar. Lateralizing significance of quantitative analysis of head movements before secondary generalization of seizures of patients with temporal lobe epilepsy. Epilepsia, vol. 48, no. 3, p. 524–530, March 2007 (IF 2007: 3.569) (IF 2010: 3.955)
• C. Fonseca, João Paulo Cunha, Rui Escadas Martins, V. M. Ferreira, J. P. Marques de Sa, M. A. Barbosa, A. Martins da Silva. A novel dry active electrode for EEG recording. IEEE Transactions on Biomedical Engineering, vol. 54, no. 1, p. 162–165, January 2007 (IF 2007: 1.622) (IF 2010: 1.782)
• José Maria Fernandes, A. Leal, João Paulo Cunha. EpiGauss: Analysing spatiotemporal patterns in occipital epilepsy. Epilepsia, vol. 47, no. s3, p. 152, 2006 (IF 2006: 3.526) (IF 2010: 3.955)
• Miguel T. Coimbra, João Paulo Cunha. MPEG-7 visual descriptors - Contributions for automated feature extraction in capsule endoscopy. IEEE Transactions on Circuits and Systems for Video Technology, vol. 16, no. 5, p. 628–637, May 2006
• R. O'Dwyer, João Paulo Cunha, C. Vollmar, C. Mauerer, R. Burgess, A. Ebner, S. Noachtar. Lateralizing significance of quantitative analysis of versive head movements during seizures of patients with temporal lobe epilepsy. Epilepsia, vol. 46, no. s6, p. 304, 2005 (IF 2005: 3.227) (IF 2010: 3.955)