Contents
Contact
E-Mail: julie.coloigner@irisa.fr
Address: IRISA / INRIA Rennes
Campus Universitaire de Beaulieu
35042 Rennes cedex – France
Tel: +33 2 99 84 22 13
Research interests
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Neuroimagery (fMRI and diffusion)
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Graph Theory
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Optimization
- Sparsity
Research experiences
- Since Nov. 2018: CNRS Researcher within Empenn team, IRISA UMR 6074, Rennes, France.
- Connectome-based predictive modeling
- Keywords: Graph theory, functional and structural connectivity
- Apr. 2017- Oct 2018: Post-doctorat in“Diffusion analysis in depression”, Univ Rennes, Inria, CNRS, Inserm, IRISA UMR 6074, VISAGES ERL U-1228, F-35000 Rennes, France.
- Supervisors: Dr. Christian Barillot.
- Keywords: Graph theory, functional and structural connectivity
- Apr. 2014- Apr. 2017: Post-doctorat scientist, “Analysis of resting-state fMRI in sickle cell disease”, Children’s Hospital of Los Angeles, University of Southern California, National Heart Lung and Blood Institute U01HL117718.
- Supervisors: Dr. John WOOD and Dr. Natasha LEPORE.
- Keywords: functional connectivity, functional magnetic resonance imaging (resting state), Graph theory, and statistical analysis (sparse modeling, learning method).
- Jan. 2013-Oct. 2013: Post-doctorat scientist in “Methods of source localization for electroencephalography and magnetoencephalography”, INSERM (French National Institute for Health and Medical Research), LTSI (Signal and Image Processing Laboratory), University of Rennes 1, France, , French National Institute.
- Supervisors: Dr. Laurent ALBERA, Dr. Isabelle MERLET and Pr. Fabrice
WENDLING. - Keywords: source localization, inverse problem, sparcity and electroencephalography.
- Supervisors: Dr. Laurent ALBERA, Dr. Isabelle MERLET and Pr. Fabrice
- 2009-2012: PhD in Signal Processing, “Line search and trust region strategies for canonical decomposition of seminonnegative semi-symmetric tensors”, INSERM, Laboratoire Traitement du Signal et de l’Image (LTSI), Univ Rennes, Inria, CNRS, Inserm, IRISA UMR 6074, VISAGES ERL U-1228, F-35000 Rennes, France.
- Jury: Pr. Jean-Christophe Pesquet, Centrale Supelec, Paris, France, Pr. Eric Moreau, University of Toulon, CNRS, France, Pr. Christian Jutten, GIPSA-Lab, CNRS and Univ. Grenoble Alpes, France and Dr. Pierre Comon, GIPSA-Lab, CNRS and Univ. Grenoble Alpes, France.
- Supervisors: Dr. Laurent Albera and Pr. Lotfi Senhadji.
- Keywords: numerical analysis (tensor and matrix decompositions), signal processing (independent component analysis and blind source separation), statistical analysis and data mining (reduction of dimension, compression, machine learning, classification).
Education
- 2007-2008: Master’s degree in mathematics, in particular numerical analysis-oriented, Univ Rennes 1.
- 2008-2009: Postgraduate degree in Modelization and Scientific Calculus, University of Rennes 1, France, Fellowship: “Large deformation theory” , EDF CLAMART, France.
Teaching experiment
- 2014-2017: Co-supervising students in PhD and Master’s degree.
• Yaqiong Chai (2014-2017) : « An experimental investigation of labeling efficiency for pseudo-continuous arterial spin labeling.”
• Yeun Kim (2014-2015, 1 year) : « Contrasting resting-state fMRI abnormamities from sickle and non-sickle anemia.”
• Chau Vu (2015-2016, 1 year) : « Regional changes in cerebral perfusion in response to hypoxic challenge in anemic patients. »
• Shayan Farzad (2015-2017, 2 years) : « Quantification de la tortuosité vasculaire chez les patients anémiques »
• Jacob Antony (2016, 6 months) : « Analysis of fiber density in sickle cell disease.»
• Hanzhuo Tan (2016, 6 months) : «The effects of inattention and hyperactivity-impulsivity symptoms on functional connectivity in adolescents. »
• Daniela Sacchetto (2016, 3 months) : « Development of preprocessing pipeline for diffusion MRI.» - 2009-2013: Mathematics teacher (192 hours), Class : Mathematics and Signal processing.
Skills
- Mathematics: numerical analysis and optimization.
- Signal processing: independent component analysis, blind source separation, localisation de sources and functional connectivity.
- Biomedical applications: spectroscopy, radiation therapy, EEG, fMRI.
- Langages: C, C++, Python, Matlab, LateX and Mathematica.
- Softwares: FSL, AFNI, Paraview and Slicer.
Other activities
- Co-organisation of Brainhack Rennes 2018 (April 2018, Rennes, France), an open science hackathon part of Brainhack global.
- Reviewer for Signal processing (Elsevier), International Symposium on Medical Information
Processing and Analysis (SIPAIM, 2015, 2016 and 2018) and IEEE International Symposium on Biomedical Imaging (ISBI).
Publications
2024
Journal articles
- titre
- Structural Brain Connectivity and Treatment Improvement in Mood Disorder
- auteur
- Sébastien Dam, Jean-Marie Batail, Gabriel Robert, Dominique Drapier, Pierre Maurel, Julie Coloigner
- article
- Brain connectivity, In press, pp.1-31
- Accès au texte intégral et bibtex
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2023
Journal articles
- titre
- Connectivity patterns of the core resting-state networks associated with apathy in late-life depression
- auteur
- Jean-Charles Roy, Thomas Desmidt, Sébastien Dam, Iris Mirea-Grivel, Louise Weyl, Elise Bannier, Laurent Barantin, Dominique Drapier, Jean-Marie Batail, Renaud David, Julie Coloigner, Gabriel H Robert
- article
- Journal of Psychiatry and Neuroscience, 2023, 48 (6), pp.E404 – E413. ⟨10.1503/jpn.230008⟩
- Accès au texte intégral et bibtex
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- titre
- Brain BOLD and NIRS response to hyperoxic challenge in sickle cell disease and chronic anemias
- auteur
- Chau Vu, Adam Bush, Matthew Borzage, Soyoung Choi, Julie Coloigner, Shayan Farzad, Yaqiong Chai, Thomas Coates, John Wood
- article
- Magnetic Resonance Imaging, 2023, 100, pp.26-35. ⟨10.1016/j.mri.2023.03.002⟩
- Accès au texte intégral et bibtex
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Preprints, Working Papers, …
- titre
- A Riemannian framework for incorporating white matter bundle priors in ODF-based tractography algorithms.
- auteur
- Thomas Durantel, Gabriel Girard, Emmanuel Caruyer, Olivier Commowick, Julie Coloigner
- article
- 2023
- Accès au texte intégral et bibtex
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2022
Conference papers
- titre
- Shape-based features of white matter fiber-tracts associated with outcome in Major Depression Disorder
- auteur
- Claire Cury, Jean-Marie Batail, Julie Coloigner
- article
- MICCAI 2022 – International Conference on Medical Image Computing and Computer-Assisted Intervention, Sep 2022, Singapour, Singapore. pp.163-173, ⟨10.1007/978-3-031-16431-6_16⟩
- Accès au texte intégral et bibtex
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- titre
- Imaging biomarker discovery in major depressive disorder with diffusion MRI multi-compartment models
- auteur
- Renaud Hedouin, Olivier Commowick, Julie Coloigner
- article
- OHBM 2022 – 28th Annual Meeting of the Organization for Human Brain Mapping, Jun 2022, Glasgow, United Kingdom
- Accès au texte intégral et bibtex
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- titre
- A convolutional Wasserstein distance for tractography evaluation : complementary study to state-of-the-art measures
- auteur
- Thomas Durantel, Julie Coloigner, Olivier Commowick
- article
- ISBI 2022 – IEEE International Symposium on Biomedical Imaging, Mar 2022, Calcutta, India. ⟨10.1109/ISBI52829.2022.9761650⟩
- Accès au texte intégral et bibtex
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Poster communications
- titre
- Imaging biomarker discovery in major depressive disorder with diffusion MRI multi-compartment models
- auteur
- Renaud Hedouin, Olivier Commowick, Gabriel Robert, Julie Coloigner
- article
- OHBM 2022 – 28th Annual Meeting of the Organization of Human Brain Mapping, Jun 2022, Glasgow, United Kingdom. pp.1-1
- Accès au texte intégral et bibtex
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2021
Journal articles
- titre
- The impact of Neurofeedback on effective connectivity networks in chronic stroke patients: an exploratory study
- auteur
- Giulia Lioi, Adolfo Veliz, Julie Coloigner, Quentin Duché, Simon Butet, Mathis Fleury, Emilie Leveque-Le Bars, Elise Bannier, Anatole Lécuyer, Christian Barillot, Isabelle Bonan
- article
- Journal of Neural Engineering, 2021, 18 (5), pp.056052. ⟨10.1088/1741-2552/ac291e⟩
- Accès au texte intégral et bibtex
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- titre
- Tract‐specific analysis and neurocognitive functioning in sickle cell patients without history of overt stroke
- auteur
- Yaqiong Chai, Chaoran Ji, Julie Coloigner, Soyoung Choi, Melissa Balderrama, Chau Vu, Benita Tamrazi, Thomas Coates, John C Wood, Sharon H O’Neil, Natasha Lepore
- article
- Brain and Behavior, 2021, 11 (3), ⟨10.1002/brb3.1978⟩
- Accès au texte intégral et bibtex
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- titre
- Quantitative perfusion mapping with induced transient hypoxia using BOLD MRI
- auteur
- Chau Vu, Yaqiong Chai, Julie Coloigner, Aart J Nederveen, Matthew Borzage, Adam Bush, John C Wood
- article
- Magnetic Resonance in Medicine, 2021, 85 (1), pp.168-181. ⟨10.1002/mrm.28422⟩
- Accès au texte intégral et bibtex
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Conference papers
- titre
- Structural and functional interplay in anxiety related classification: a graph signal processing approach
- auteur
- Giovanna Orrù, Pierre Maurel, Julie Coloigner
- article
- ISBI 2021 – IEEE International Symposium on Biomedical Imaging, Apr 2021, Nice, France. pp.1-4
- Accès au texte intégral et bibtex
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2020
Journal articles
- titre
- Structural abnormalities associated with poor outcome of a major depressive episode: the role of thalamus.
- auteur
- Jean-Marie Batail, Julie Coloigner, Marine Soulas, Gabriel Robert, Christian Barillot, Dominique Drapier
- article
- Psychiatry Research: Neuroimaging, 2020, 305, pp.1-10. ⟨10.1016/j.pscychresns.2020.111158⟩
- Accès au texte intégral et bibtex
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- titre
- Transient Hypoxia Model Revealed Cerebrovascular Impairment in Anemia Using BOLD MRI and Near‐Infrared Spectroscopy
- auteur
- Julie Coloigner, Chau Vu, Matthew Borzage, Adam Bush, Soyoung Choi, Xin Miao, Yaqiong Chai, Cristina Galarza, Natasha Leporé, Benita Tamrazi, Thomas Coates, John C Wood
- article
- Journal of Magnetic Resonance Imaging, 2020, 52 (5), pp.1400-1412. ⟨10.1002/jmri.27210⟩
- Accès au texte intégral et bibtex
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Poster communications
- titre
- The effect of neurofeedback training on effective connectivity assessed with dynamic causal modeling in stroke patients – a pilot study
- auteur
- Giulia Lioi, Adolfo Veliz, Julie Coloigner, Quentin Duché, Simon Butet, Mathis Fleury, Emilie Leveque-Le Bars, Elise Bannier, Anatole Lecuyer, Christian Barillot, Isabelle Bonan
- article
- WFNR 2020 – World Federation For NeuroRehabilitation, Oct 2020, Lyon, France
- Accès au bibtex
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2019
Journal articles
- titre
- White matter has impaired resting oxygen delivery in sickle cell patients
- auteur
- Yaqiong Chai, Adam Bush, Julie Coloigner, Aart Nederveen, Benita Tamrazi, Chau Vu, Soyoung Choi, Thomas Coates, Natasha Leporé, John Wood
- article
- American Journal of Hematology, 2019, 94 (4), pp.467-474. ⟨10.1002/ajh.25423⟩
- Accès au texte intégral et bibtex
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- titre
- White matter abnormalities in depression: a categorical and phenotypic diffusion MRI study.
- auteur
- Julie Coloigner, Jean-Marie Batail, Olivier Commowick, Isabelle Corouge, Gabriel Robert, Christian Barillot, Dominique Drapier
- article
- Neuroimage-Clinical, 2019, 22, pp.101710. ⟨10.1016/j.nicl.2019.101710⟩
- Accès au texte intégral et bibtex
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- titre
- Patients with sickle-cell disease exhibit greater functional connectivity and centrality in the locus coeruleus compared to anemic controls
- auteur
- Ravi Bhatt, Lonnie Zeltzer, Julie Coloigner, John Wood, Tom Coates, Jennifer Labus
- article
- Neuroimage-Clinical, 2019, 21, pp.101686. ⟨10.1016/j.nicl.2019.101686⟩
- Accès au texte intégral et bibtex
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Conference papers
- titre
- Structural connectivity analysis in treatment-resistant depression
- auteur
- Julie Coloigner, Jean-Marie Batail, Dominique Drapier, Christian Barillot
- article
- OHBM 2019 – 25th Annual Meeting of the Organization for Human Brain Mapping, Jun 2019, Rome, Italy. pp.1-2
- Accès au bibtex
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- titre
- Hyperoxia Challenge in Healthy and Anemic Subjects using BOLD MRI
- auteur
- Chau Vu, Julie Coloigner, John Wood
- article
- ISMRM, May 2019, Montreal, France
- Accès au texte intégral et bibtex
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- titre
- Effect of prenatal organic solvent exposure on structural connectivity at childhood
- auteur
- Julie Coloigner, Anne-Claire Binter, Elise Bannier, Jean-Christophe Ferré, Cécile Chevrier, Christian Barillot, Fabienne Pelé
- article
- ISBI 2019 – 16th IEEE International Symposium on Biomedical Imaging, Apr 2019, Venise, Italy. pp.151-154, ⟨10.1109/ISBI.2019.8759473⟩
- Accès au texte intégral et bibtex
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2018
Conference papers
- titre
- Diffusion MRI as a descriptive imaging marker of the pathogenesis of treatment-resistant depression
- auteur
- Julie Coloigner, Jean-Marie Batail, Isabelle Corouge, Jean-Christophe Ferré, Dominique Drapier, Christian Barillot
- article
- ISMRM 2018 – International Society for Magnetic Resonance in Medicine, Jun 2018, Paris, France. pp.1-2
- Accès au texte intégral et bibtex
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- titre
- Diffusion MRI as an imaging marker of depression from a large and homogenous population study
- auteur
- Julie Coloigner, Jean-Marie Batail, Isabelle Corouge, Jean-Christophe Ferré, Dominique Drapier, Christian Barillot
- article
- ISMRM 2018 – International Society for Magnetic Resonance in Medicine, Jun 2018, Paris, France. pp.1-2
- Accès au texte intégral et bibtex
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Poster communications
- titre
- White matter connectivity analysis in patients suffering from depression.
- auteur
- Julie Coloigner, Jean-Marie Batail, Isabelle Corouge, Dominique Drapier, Christian Barillot
- article
- 2018 – 7ème Forum de l’Institut de Psychiatrie, Sep 2018, Amiens, France. pp.1
- Accès au texte intégral et bibtex
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2017
Journal articles
- titre
- Contrasting resting-state fMRI abnormalities from sickle and non-sickle anemia
- auteur
- Julie Coloigner, Yeun Kim, Adam Bush, Soyoung Choi, Melissa Balderrama, Thomas Coates, Sharon O’Neil, Natasha Leporé, John Wood
- article
- PLoS ONE, 2017, 12 (10), pp.e0184860. ⟨10.1371/journal.pone.0184860⟩
- Accès au texte intégral et bibtex
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- titre
- Graph Lasso-based test for evaluating functional brain connectivity in sickle cell disease
- auteur
- Julie Coloigner, Ronald Phlypo, Thomas D. Coates, Nastasha Lepore, John C Wood
- article
- Brain connectivity, 2017, 7 (7), ⟨10.1089/brain.2016.0474⟩
- Accès au bibtex
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Conference papers
- titre
- Fiber connection density based on in sickle cell disease
- auteur
- Julie Coloigner, Jacob Anthony, Rosa Vlosova, Adam Bush, Soyoung Choi, Maxime Descoteaux, Jean Christophe Houde, Thomas D. Coates, Natasha Lepore, John Wood
- article
- 25th annual meeting of the international society of magnetic resonance in medecine, 2017, Honolulu, Hawaii, United States
- Accès au texte intégral et bibtex
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- titre
- Parametric Mapping of Oxygen Activity in Human Placenta across Gestation using in utero BOLD imaging
- auteur
- Vidya Rajagopalan, Vince Schmithorst, Julie Coloigner, Jessica Winowski, Matthew Borzage, Hollie Lai, Skorn Ponrartana, Ashok Panigrahy, Stefan Bluml
- article
- 25th annual meeting of the international society of magnetic resonance in medecine, 2017, Honolulu, United States
- Accès au texte intégral et bibtex
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2016
Conference papers
- titre
- Functional connectivity analysis for thalassemia disease based on a graphical lasso model
- auteur
- Julie Coloigner, Ronald Phlypo, Adam Bush, Natasha Lepore, John Wood
- article
- ISBI 2016 – IEEE International Symposium on Biomedical Imaging, Apr 2016, Prague, Czech Republic. pp.1295 – 1298, ⟨10.1109/ISBI.2016.7493504⟩
- Accès au texte intégral et bibtex
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- titre
- An experimental investigation of labeling efficiency for pseudo-continuous arterial spin labeling
- auteur
- Yaqiong Chai, Adam Bush, Julie Coloigner, Xiaoping Qu, Jonathan Chia, Natasha Leporé, John Wood
- article
- 2016 IEEE 13th International Symposium on Biomedical Imaging (ISBI 2016), Apr 2016, Prague, France. ⟨10.1109/ISBI.2016.7493458⟩
- Accès au bibtex
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- titre
- The 3D EdgeRunner Pipeline: a novel shape-based analysis for neoplasms characterization
- auteur
- Fernando Yepes-C, Rebecca Johnson, Yi Lao, Darryl Hwang, Julie Coloigner, Felix Yap, Desai Bushan, Phillip Cheng, Inderbir Gill, Vinay Duddalwar, Natasha Leporé
- article
- SPIE Medical Imaging 2016, Feb 2016, San Diego, CA, United States. ⟨10.1117/12.2217238⟩
- Accès au texte intégral et bibtex
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- titre
- BOLD delay times using group delay in sickle cell disease
- auteur
- Julie Coloigner, Chau Vu, Adam Bush, Matt Borzage, Vidya Rajagopalan, Natasha Leporé, John Wood
- article
- SPIE Medical Imaging, Feb 2016, San Diego, United States. ⟨10.1117/12.2217263⟩
- Accès au texte intégral et bibtex
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- titre
- DTI analysis in patients with sickle cell disease
- auteur
- Julie Coloigner, Daniela Sacchetto, Jeff Tanedo, Maxime Descoteaux, Thomas D. Coates, Jean Christophe Houde, Natasha Lepore, John Wood
- article
- 46th Society For Neuroscience conference, 2016, San Diego, United States
- Accès au bibtex
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2015
Journal articles
- titre
- A novel classification method for prediction of rectal bleeding in prostate cancer radiotherapy based on a semi-nonnegative ICA of 3D planned dose distributions
- auteur
- Julie Coloigner, Aureline Fargeas, Amar Kachenoura, Lu Wang, Gael Dréan, Caroline Lafond, Lotfi Senhadji, Renaud de Crevoisier, Oscar Acosta, Laurent Albera
- article
- IEEE Journal of Biomedical and Health Informatics, 2015, 9 (3), pp.1168-1177. ⟨10.1109/JBHI.2014.2328315⟩
- Accès au texte intégral et bibtex
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- titre
- On feature extraction and classification in prostate cancer radiotherapy using tensor decompositions.
- auteur
- Auréline Fargeas, Laurent Albera, Amar Kachenoura, Gaël Dréan, Juan-David Ospina, Julie Coloigner, Caroline Lafond, Jean-Bernard Delobel, Renaud de Crevoisier, Oscar Acosta
- article
- Medical Engineering & Physics, 2015, 37 (1), pp.126-31. ⟨10.1016/j.medengphy.2014.08.009⟩
- Accès au bibtex
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Conference papers
- titre
- Tract specific analysis in patients with sickle cell disease
- auteur
- Yaqiong Chai, Julie Coloigner, Xiaoping Qu, Soyoung Choi, Adam Bush, Matt Borzage, Chau Vu, John Wood, Natasha Lepore
- article
- 11th International Symposium on Medical Information Processing and Analysis (SIPAIM 2015), Nov 2015, Cuenca, France. ⟨10.1117/12.2213617⟩
- Accès au bibtex
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- titre
- Low-frequency fluctuation amplitude analysis of resting-state fMRI for sickle cell disease patients
- auteur
- Julie Coloigner, Yeun Kim, Adam Bush, Matt Borzage, Vidya Rajagopalan, Natasha Lepore, John Wood
- article
- 11th International Symposium on Medical Information Processing and Analysis, 2015, Cuenca-Ecuador, Ecuador
- Accès au texte intégral et bibtex
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- titre
- Analysis of Hemodynamic Changes and Bold Signals of Sickle Cell Disease Patients during Desaturation
- auteur
- Julie Coloigner, Chau Vu, Matt Borzage, Adam Bush, Natasha Lepore, Thomas D. Coates, John Wood
- article
- 57th American Society of Hematology (ASH) conference, 2015, Orlando, United States
- Accès au texte intégral et bibtex
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Poster communications
- titre
- Diffuse T1-MRI White Matter Volume Decrease in Patients with Sickle Cell Disease
- auteur
- Soyoung Choi, Adam Bush, Matt Borzage, Anand Joshi, Vidya Rajagopalan, Julie Coloigner, Natasha Lepore, Thomas D. Coates, John Wood
- article
- 21sy Annual meeting of the Organization for Human Brain Mapping, Apr 2015, Honolulu, HI, United States.
- Accès au texte intégral et bibtex
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2014
Journal articles
- titre
- Line search and trust region strategies for canonical decomposition of semi-nonnegative semi-symmetric 3rd order tensors
- auteur
- Julie Coloigner, Ahmad Karfoul, Laurent Albera, Pierre Comon
- article
- Linear Algebra and its Applications, 2014, 450, pp.334-374. ⟨10.1016/j.laa.2014.02.001⟩
- Accès au texte intégral et bibtex
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- titre
- Semi-nonnegative joint diagonalization by congruence and semi-nonnegative ICA
- auteur
- Julie Coloigner, Laurent Albera, Amar Kachenoura, Fanny Noury, Lotfi Senhadji
- article
- Signal Processing, 2014, 105, pp.185-197. ⟨10.1016/j.sigpro.2014.05.017⟩
- Accès au texte intégral et bibtex
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2011
Conference papers
- titre
- Canonical decomposition of semi-symmetric semi-nonnegative three-way arrays .
- auteur
- Julie Coloigner, Laurent Albera, Amar Kachenoura, Lotfi Senhadji
- article
- Signals, Systems and Computers (ASILOMAR), Nov 2011, Pacific Grove, CA, United States. pp.444 – 448, ⟨10.1109/ACSSC.2011.6190038⟩
- Accès au bibtex
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- titre
- Décomposition de tableaux d’ordre trois semi-nonnégatifs et semi-symétriques
- auteur
- Julie Coloigner, Laurent Albera, Ahmad Karfoul, Pierre Comon
- article
- GRETSI 11, Vingt-troisième colloque sur le Traitement du Signal et des Images, Sep 2011, Bordeaux, France. pp.4
- Accès au texte intégral et bibtex
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2010
Conference papers
- titre
- Semi-nonnegative Independent Component Analysis: The (3,4)-SENICAexp Method.
- auteur
- Julie Coloigner, Laurent Albera, Ahmad Karfoul, Amar Kachenoura, Pierre Comon, Lotfi Senhadji
- article
- Proceedings of the 9th International Conference Latent Variable Analysis and Signal Separation LVA/ICA 2010, Sep 2010, St. Malo, France. pp.612-619, ⟨10.1007/978-3-642-15995-4_76⟩
- Accès au bibtex
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