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Jesus M. Cortes

Neuroscience, Brain connectivity and Machine Learning
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Jesus M. Cortes

Neuroscience, Brain connectivity and Machine Learning
  • Search
  • Home
  • Biosketch
  • Latest News
  • Talks
  • Publications
    • JCR Articles
    • non JCRs
    • Abstracts
  • Teaching

Lopez JI and Cortes JM. A multi-site cutting device implements efficiently the divide-and-conquer strategy in tumor sampling. F1000Research 5:1587, 2016 [pdf] We recently showed that in order to detect intra-tumor heterogeneity a Divide-and-Conquer (DAC) strategy of tumor sampling outperforms current routine protocols. This paper is a continuation of this work, but here we focus on DAC implementation in the Pathology Laboratory. In particular, we describe a new simple method that […]

JCR Articles Publications

A multi-site cutting device implements efficiently the divide-and-conquer strategy in tumor sampling

Published August 24, 2016

Guarch R, Cortes JM, Lawrie CH and Lopez JI. Multi-site tumor sampling (MSTS) improves the performance of histological detection of intratumor heterogeneity in clear cell renal cell carcinoma (CCRCC). F1000Research 5: 2020, 2016 [pdf] Current standard-of-care tumor sampling protocols for CCRCC (and other cancers) are not efficient at detecting intratumoural heterogeneity (ITH). We have demonstrated that an alternative protocol, multi-site tumor in silico sampling (MSTS) based upon the divide and […]

JCR Articles Publications

Multi-site tumor sampling (MSTS) improves the performance of histological detection of intratumor heterogeneity …

Published August 24, 2016

2016, A novel brain partition highlights the modular skeleton shared by structure and function. BIFI, Zaragoza, Spain

Talks

A novel brain partition highlights the modular skeleton shared by structure and function

Published May 12, 2016

Vitronectin and Dermcidin serum levels predict the metastatic progression of AJCC I-II early stage melanoma. Idoia Ortega-Martínez, Jesús Gardeazabal, Asier Erramuzpe, Ana Sanchez-Diez,Jesús M Cortés, María D. García-Vázquez, Gorka Pérez-Yarza, Rosa Izu, Jose Luís Díaz-Ramón, Ildefonso M. de la Fuente, Aintzane Asumendi and María D. Boyano. Int J Cancer 139:1598-607, 2016 [pdf] Like many cancers, an early diagnosis of melanoma is fundamental to ensure a good prognosis, although an important […]

JCR Articles Publications

Vitronectin and Dermcidin serum levels predict the metastatic progression of AJCC I-II early …

Published May 12, 2016

S. Stramaglia, L. Angelini, G. Wu, J.M. Cortes, L. Faes and D. Marinazzo. Synergetic and redundant information flow detected by unnormalized Granger causality: application to resting state fMRI. IEEE Trans Biomed Eng 63: 2518 – 2524, 2016 [pdf] Abstract—Objectives We develop a framework for the analysis of synergy and redundancy in the pattern of information flow between subsystems of a complex network. Methods The presence of redundancy and/or synergy in […]

JCR Articles Publications

Synergetic and redundant information flow detected by unnormalized Granger causality

Published April 17, 2016

A divide-and-conquer strategy in tumor sampling enhances detection of intratumor heterogeneity in routine pathology: A modeling approach in clear cell renal cell carcinoma. JI Lopez and JM Cortes. F1000Research 5:385, 2016 [pdf] Intratumor heterogeneity (ITH) is an inherent process in cancer development which follows for most of the cases a branched pattern of evolution, with different cell clones evolving independently in space and time across different areas of the same […]

JCR Articles Publications

A divide-and-conquer strategy in tumor sampling enhances detection of intratumor heterogeneity in routine …

Published March 23, 2016

Ibai Diez, David Drijkoningen, Sebastiano Stramaglia, Paolo Bonifazi, Daniele Marinazzo, Stephan P. Swinnen*, Jesus M. Cortes* (* Equal last-author contribution). Prefrontal brain connectivity re-organization after traumatic axonal injury. 22nd Annual Meeting of the Organization for Human Brain Mapping, OHBM 2016 [pdf] Background. Traumatic axonal injury damages brain structural connectivity which is later compensated by a re-organization in structural-functional circuits in a form which remains inadequately characterized. Methods. We enrolled N=14 […]

Abstracts Publications

Prefrontal brain connectivity re-organization after traumatic axonal injury

Published March 7, 2016

I Diez, P Bonifazi, I Escudero, B Mateos, MA Munoz, S Stramaglia, and JM Cortes. The Brain Hierarchical Atlas. 22nd Annual Meeting of the Organization for Human Brain Mapping , OHBM 2016 [pdf] Background. Most used brain atlases are purely anatomical or structural [1-4], and others are purely functional, like the well-known Brodmann atlas based on lesion studies or data-driven methods [5-6]. Although obtaining suitable brain partitions (or atlases) has […]

Abstracts Publications

The Brain Hierarchical Atlas: partitioning the brain into subnetworks embedding both structural and …

Published March 7, 2016

2016, Metodos de conectividad a gran escala para conectar funcion cerebral con su estructura. Foundation CITA-Alzheimer. San Sebastian, Spain

Talks

Metodos de conectividad a gran escala para conectar funcion cerebral con su estructura

Published March 7, 2016

2016, Aportes de la neuroimagen computacional en el diagnostico y seguimiento de los gliomas. As a part of the Neuro-oncology course in the MSc in Neurosciences. University of the Basque Country, Spain

Talks

Aportes de la neuroimagen computacional en el diagnostico y seguimiento de los gliomas

Published March 7, 2016

López JI, Errarte P, Erramuzpe A, Guarch R, Cortés JM, Angulo JC, Pulido R, Irazusta J, Llarena R, Larrinaga G. Fibroblast activation protein predicts prognosis in clear cell renal cell carcinoma. Hum Pathol. 54:100-105, 2016 [pdf] Clear cell renal cell carcinoma is a complex disease with only partial response to therapy and scarce reliable clinical parameters indicative of progression and survival. Fibroblast activation protein expression has been correlated with prognosis […]

JCR Articles Publications

Fibroblast activation protein predicts prognosis in clear cell renal cell carcinoma

Published March 7, 2016

L.Zaldumbide, A. Erramuzpe, R. Guarch, R.l Pulido, J.M. Cortes and J.I. Lopez. Snail heterogeneity in clear cell renal cell carcinoma. BMC Cancer 16:194, 2016 [pdf] Background: Intratumor heterogeneity may be responsible of the unpredictable aggressive clinical behavior that some clear cell renal cell carcinomas display. This clinical uncertainty may be caused by insufficient sampling, leaving out of histological analysis foci of high grade tumor areas. Although molecular approaches are providing […]

JCR Articles Publications

Snail heterogeneity in clear cell renal cell carcinoma

Published March 7, 2016

S. Rodrigues, M. Desroches, M. Krupa, J.M. Cortes, T.J. Sejnowski and A.B. Ali. Time-coded neurotransmitter release at excitatory and inhibitory synapses. Proc Natl Acad Sci USA  113:E1108-15, 2016   [pdf] Communication between neurons at chemical synapses is regulated by hundreds of different proteins that control the release of neurotransmitter that is packaged in vesicles, transported to an active zone, and released when an input spike occurs. Neurotransmitter can also be released […]

JCR Articles Publications

Time-coded neurotransmitter release at excitatory and inhibitory synapses

Published January 16, 2016

Julia M. Kroos, Ibai Diez, Jesus M. Cortes, Sebastiano Stramaglia and Luca Gerardo Giorda. Geometry shapes propagation: assessing the presence and absence of cortical symmetries through a computational model of cortical spreading depression. Frontiers in Computational Neuroscience  10:6, 2016  [pdf] Cortical spreading depression (CSD), a depolarization wave which originates in the visual cortex and travels towards the frontal lobe, has been suggested to be one neural correlate of aura migraine. […]

JCR Articles Publications

Geometry shapes propagation: assessing the presence and absence of cortical symmetries through a …

Published January 16, 2016

I was interviewed by the Mecanica del Caracol of Radio Euskadi about our new paper “A novel brain partition highlights the modular skeleton shared by structure and function”. To download the paper click here The atlas can be downloaded from NITRC at here. You can listen the interview at here

Latest News

Our new brain atlas, in the Mecanica del Caracol of Radio Euskadi

Published November 22, 2015

I was interviewed by the Boulevard of Radio Euskadi about our new paper “A novel brain partition highlights the modular skeleton shared by structure and function”. To download the paper click here The atlas can be downloaded from NITRC at here. You can listen the interview at here

Latest News

Our new brain atlas, in the Boulevard of Radio Euskadi

Published November 22, 2015

Our new paper “A novel brain partition highlights the modular skeleton shared by structure and function”. To download the paper click here The atlas can be downloaded from NITRC at here. Elmundo.es – Investigadores vascos publican en ‘Nature’ un inédito ‘atlas cerebral’ abc.es – Biocruces elabora un nuevo atlas del cerebro para estudiar sus patologías abc salud – Dibujan un nuevo atlas del cerebro clave para estudiar el alzhéimer o […]

Latest News

In the media, a new atlas to study disease

Published November 22, 2015

On Oct 27th, 2015 Ibai Diez defended his Thesis titled “New neuroimaging methods for clinical neuroscience and neurogical disorders”. He got ”Cum Laude por Unaminidad”. Zorionak!!

Latest News

PhD Thesis defense by Ibai Diez

Published November 15, 2015

2015, Aportacion del Tensor de Difusion (DTI) al campo del deterioro cognitivo. Seminario Norte de Demencias. Nutricia/Souvenaid. Bilbao, Spain

Talks

Aportacion del Tensor de Difusion (DTI) al campo del deterioro cognitivo

Published November 15, 2015

2015, A novel brain partition highlights the modular skeleton shared by structure and function. Department of Experimental Psychology. Ghent University, Belgium

Talks

A novel brain partition highlights the modular skeleton shared by structure and function

Published November 15, 2015

T. A. Amor, R. Russo, I. Diez, P. Mudnal, M. Zirovich, S. Stramaglia, J. M. Cortes, L. de Arcangelis and D. R. Chialvo. Higher order statistics of brain resting activity and its relation with structural connectivity. EPL 111: 68007, 2015. [pdf] The brain exhibits a wide variety of spatiotemporal patterns of neuronal activity recorded using functional magnetic resonance imaging as the so-called blood-oxygenated-level– dependent (BOLD) signal. An active area of […]

JCR Articles Publications

Extreme brain events: Higher order statistics of brain resting activity and its …

Published November 11, 2015

A. Erramuzpe, G.J. Ortega, J. Pastor, R. G. de Sola, D. Marinazzo, S. Stramaglia and J.M. Cortes. Identification of redundant and synergetic circuits in triplets of electrophysiological data. Journal of Neural Engineering 12: 066007 , 2015 [pdf] [arxiv] Objective. Neural systems are comprised of interacting units, and relevant information regarding their function or malfunction can be inferred by analyzing the statistical dependencies between the activity of each unit. Whilst correlations […]

JCR Articles Publications

Identification of redundant and synergetic circuits in triplets of electrophysiological data

Published November 11, 2015

Alonso-Montes, I. Diez, L. Remaki, I. Escudero, B. Mateos, Y. Rosseel, D. Marianazzo, S. Stramaglia, Jesus M Cortes. Lagged and instantaneous dynamical influences related to brain structural connectivity. Frontiers in Psychology 6: 1024, 2015 [pdf] Contemporary neuroimaging methods can shed light on the basis of human neural and cognitive specializations, with important implications for neuroscience and medicine. Indeed, different MRI acquisitions provide different brain networks at the macroscale; whilst diffusion-weighted […]

JCR Articles Publications

Lagged and instantaneous dynamical influences related to brain structural connectivity

Published November 11, 2015

I. Diez*, A. Erramuzpe*, I. Escudero, B. Mateos, D. Marinazzo, E. Sanz-Arigita, S. Stramaglia and J.M. Cortes (* Equal Contribution). Information flow between resting state networks. Brain Connectivity 5:554-564, 2015 [pdf] [arXiv:1505.03560] The resting brain dynamics self-organizes into a finite number of correlated patterns known as resting state networks (RSNs). It is well known that techniques like independent component analysis can separate the brain activity at rest to provide such […]

JCR Articles Publications

Information flow between resting state networks

Published November 11, 2015

I. Diez*, P. Bonifazi*, I. Escudero, B. Mateos, M.A. Muñoz, S. Stramaglia and J.M. Cortes (* Equal first-author Contribution). A novel brain partition highlights the modular skeleton shared by structure and function. Scientific Reports 5:10532 , 2015. [pdf] arXiv:1410.7959v2 Elucidating the intricate relationship between brain structure and function, both in healthy and pathological conditions, is a key challenge for modern neuroscience. Recent technical and methodological progress in neuroimaging has helped […]

JCR Articles Publications

A novel brain partition highlights the modular skeleton shared by structure and function

Published November 11, 2015

A. Erramuzpe, J. M. Encinas, A. Sierra, M. Maletic-Savatic, A.L. Brewster, Anne E. Anderson, S. Stramaglia, Jesus M. Cortes. F1000Research 4:144 , 2015 [pdf] Brain Functional Connectivity (FC) quantifies statistical dependencies between areas of the brain. FC has been widely used to address altered function of brain circuits in control conditions compared to different pathological states, including epilepsy, a major neurological disorder. However, FC also has the as yet unexplored […]

JCR Articles Publications

Longitudinal variations of brain functional connectivity: A case report study based on a …

Published November 11, 2015

J.M. Cortes, D. Marinazzo and Miguel Angel Muñoz. Editorial for the Research Topic: Information based methods for neuroimaging: analyzing structure, function and dynamic. Frontiers in Neuroinformatics 8 (86), 2014 [pdf]

JCR Articles Publications

Editorial for the Research Topic: Information-based methods for neuroimaging: analyzing structure, function and …

Published November 11, 2015

Sebastiano Stramaglia, Jesus M. Cortes, Daniele Marinazzo. Synergy and redundancy in the Granger causal analysis of dynamical networks. New Journal of Physics 16: 105003, 2014 [pdf] We analyze, by means of Granger causality (GC), the effect of synergy and redundancy in the inference (from time series data) of the information flow between subsystems of a complex network. While we show that fully conditioned GC (CGC) is not affected by synergy, […]

JCR Articles Publications

Synergy and redundancy in the Granger causal analysis of dynamical networks

Published November 11, 2015

IM De la Fuente, JM Cortes, E Valero, M Desroches, S Rodrigues, I Malaina and L Martinez. On the dynamics of the Adenylate Energy System: Homeorhesis vs Homeostasis. Plos One 9: e108676, 2014 [pdf] Biochemical energy is the fundamental element that maintains both the adequate turnover of the biomolecular structures and the functional metabolic viability of unicellular organisms. The levels of ATP, ADP and AMP reflect roughly the energetic status […]

JCR Articles Publications

On the dynamics of the Adenylate Energy System: Homeorhesis vs Homeostasis

Published November 11, 2015

L. Zaldumbide, A. Erramuzpe, R. Guarch, J.M. Cortes and J.I. Lopez. Large (>3.8 cm) Clear Cell Renal Cell Carcinomas are Morphologically and Immunohistochemically Heterogeneous. Virchows Archives 466:61-66, 2015 [pdf] Heterogeneity is an inherent event to tumor development that is lately receiving much attention in oncologic research. The topic is being addressed primarily at the molecular level and results are promising. However, translation to practical medicine is still pending. Our intention […]

JCR Articles Publications

Large (>3.8 cm) Clear Cell Renal Cell Carcinomas are Morphologically and Immunohistochemically Heterogeneous

Published November 11, 2015

[spanish]

Jesus M. Cortes, Physicist, Data Scientist:

  • More than 20 years experience - In research, working in data science, including modeling, analyses, and image processing, see my ORCID profile at https://orcid.org/0000-0002-9059-8194
  • High interdisciplinary experience - Combining physics, neuroscience, neuroimaging, data science, engineering, and medicine.
  • Getting funding - In competitive calls and working with the industry, achieving funding for more than 9,14 Millions Euros.
  • Science communication - Giving more than 119 talks at the international level, and publishing 129 articles indexed in Journal Citation Reports, 100 of them in the first quartile.
  • Training of qualified professionals - Supervising more than 40 students, including Bachelor, Master, and Thesis.
  • Research projects evaluation - Regularly for different funding agencies such as Spanish National Science and Health Ministry, and also at international programs, such as the Marie Sklodowska-Curie Actions, the Israel Science Foundation, the Research Foundation Flanders (FWO), the EPSRC in the UK, and the BBSRC in the UK.

Contact - If you are interested in knowing details or possibilities of collaboration:
Jesus M. Cortes, Ph.D.:
jesus.m.cortes@gmail.com
Computational Neuroimaging Lab
BioBizkaia Health Research Institute
Hospital Universitario Cruces
Plaza de Cruces, s/n E-48903. Barakaldo, Spain
Tel +34 94 600 6000 (ext. 5199)


 

Jesus M. Cortes, Físico, Científico de Datos:

  • Más de 20 años de experiencia - En investigación, trabajando con datos, en modelado, análisis e imágenes. Consulte mi perfil profesional ORCID en https://orcid.org/0000-0002-9059-8194
  • Altamente interdisciplinar - Combinando física, neurociencias, neuroimagen, ciencia de datos, ingeniería y medicina.
  • Consiguiendo financiación - En convocatorias competitivas y trabajando con la industria, habiendo conseguido más de 9,14 Millones de Euros.
  • Difusión internacional - Impartiendo más de 119 charlas a nivel internacional y publicando más 129 artículos indexados en el Journal Citation Reports, 100 de ellos en primer cuartil.
  • Formación de personal cualificado - Supervisando a más de 40 estudiantes, incluyendo Licenciatura, Maestría y Tesis.
  • Evaluación de proyectos - Lo hago de forma habitual en el Plan Nacional de Ciencia y Salud Español, y en programas internacionales, incluidas las acciones Marie Sklodowska-Curie, la Israel Science Foundation, la Research Foundation Flanders (FWO), EPSRC en Reino Unido y BBSRC en Reino Unido.
  • Contacta - Si estás interesado en conocer detalles o posibilidades de colaboración:

Jesus M. Cortes, Ph.D.:
jesus.m.cortes@gmail.com
Computational Neuroimaging Lab
BioBizkaia Health Research Institute
Hospital Universitario Cruces
Plaza de Cruces, s/n E-48903. Barakaldo, Spain
Tel +34 94 600 6000 (ext. 5199)

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