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Unsupervised Nosologic Imaging for Glioma Diagnosis

Yuqian Li, D. M. Sima, S. Van Cauter, U. Himmelreich, A. R. C. Sava, Yiming Pi, Yipeng Liu, S. Van Huffel
2013 IEEE Transactions on Biomedical Engineering  
 Abstract-A novel approach to create nosologic images of the brain using magnetic resonance spectroscopic imaging (MRSI) data in an unsupervised way is presented.  ...  Error-maps based on linear least squares estimation are computed for each nosologic image to provide additional reliability information, which may help clinicians in decision making.  ...  CONCLUSION Unsupervised nosologic imaging provides a novel way for MRSI data interpretation without the need of large training data sets.  ... 
doi:10.1109/tbme.2012.2228651 pmid:23192480 fatcat:w7cm7buk7jcyll5nyy4qvdnhri

Clinical decision support systems for brain tumor characterization using advanced magnetic resonance imaging techniques

Evangelia Tsolaki
2014 World Journal of Radiology  
In recent years, advanced magnetic resonance imaging (MRI) techniques, such as magnetic resonance spectroscopy, diffusion weighted imaging, diffusion tensor imaging and perfusion weighted imaging have  ...  and representation of MRI data in order for advanced MRI techniques to become a part of the clinical routine, since the amount of data from the aforementioned techniques has gradually in-creased.  ...  nosologic images.  ... 
doi:10.4329/wjr.v6.i4.72 pmid:24778769 pmcid:PMC4000611 fatcat:zbpqhixrhfaqlezqfgsngqd4tq

EWSR1-BEND2 fusion defines an epigenetically distinct subtype of astroblastoma

Calixto-Hope G. Lucas, Rohit Gupta, Jasper Wu, Kathan Shah, Ajay Ravindranathan, Jairo Barreto, Melissa Gener, Kevin F. Ginn, Owen W. J. Prall, Huiling Xu, Damien Kee, Hyun S. Ko (+9 others)
2021 Acta Neuropathologica  
for astroblastoma-like gliomas with EWSR1-BEND2 fusion. g Dot plot of tumor anatomic location for astroblastoma-like gliomas with EWSR1-BEND2 fusion. h Kaplan-Meier plot of overall survival and recurrence-free  ...  tumors spanning 11 CNS tumor entities. j Unsupervised hierarchical clustering of DNA methylation data from the 4 astroblastoma-like gliomas with EWSR1-BEND2 fusion and 3 astroblastomas with confirmed  ...  We thank the staff of the UCSF Clinical Cancer Genomics Laboratory for assistance with genetic profiling.  ... 
doi:10.1007/s00401-021-02388-y pmid:34825267 pmcid:PMC8732961 fatcat:6gqoysmyxvd4vb5nn5fwqomcq4

Movement disorders associated with neuronal antibodies: a data-driven approach

Andrea Sturchio, Alok K. Dwivedi, Matteo Gastaldi, Maria Barbara Grimberg, Pietro Businaro, Kevin R. Duque, Joaquin A. Vizcarra, Elhusseini Abdelghany, Bettina Balint, Luca Marsili, Alberto J. Espay
2022 Journal of Neurology  
The combination of data-driven and expert opinion approach to the diagnosis may assist early management efforts.  ...  We used random forests for variable selection and recursive partitioning and regression trees for the creation of a data-driven decision algorithm, integrated with expert's clinical feedback.  ...  Josep Dalmau for his review and feedback on this manuscript.  ... 
doi:10.1007/s00415-021-10934-7 pmid:35024921 pmcid:PMC8756747 fatcat:g6xhort44ffb3hybkywoqjzouu

Manifold Learning in MR spectroscopy using nonlinear dimensionality reduction and unsupervised clustering

Guang Yang, Felix Raschke, Thomas R. Barrick, Franklyn A. Howe
2014 Magnetic Resonance in Medicine  
RESULTS: An accuracy of 93% in classification of glioma Grade-II and Grade-IV, with 100% accuracy in distinguishing tumour and normal spectra, was obtained by LE with unsupervised clustering, but not with  ...  CONCLUSION: The LE method is promising for unsupervised clustering to separate brain and tumour tissue with automated colour-coding for visualisation of 1 H MRSI data after cluster analysis.  ...  PR of MRSI data has shown promise in objectively delineating tumour boundaries and defining infiltrative growth patterns in gliomas (10, 11) and nosologic images (3, 12) used to summarise the presence  ... 
doi:10.1002/mrm.25447 pmid:25199640 fatcat:32psdsfx7vbwzai32bjxqibdqy

Molecular Classification of Human Diffuse Gliomas by Multidimensional Scaling Analysis of Gene Expression Profiles Parallels Morphology-Based Classification, Correlates with Survival, and Reveals Clinically-Relevant Novel Glioma Subsets

Gregory N. Fuller, Kenneth R. Hess, Chang Hun Rhee, W. K. Alfred Yung, Raymond A. Sawaya, Janet M. Bruner, Wei Zhang
2006 Brain Pathology  
There are several currently employed classification systems for diffuse gliomas that sort tumors based on histological features.  ...  In particular, gene expression profiling has shown exceptional promise for providing an alternative and more objective molecular approach to glioma classification.  ...  The impressive separation of the 4 diffuse glioma histologic subtypes, based solely on the unsupervised analysis of gene expression profiles, reflects a molecular basis for the morphologic and immunophenotypic  ... 
doi:10.1111/j.1750-3639.2002.tb00427.x fatcat:mxzwtdslwfczxjjqcadjkjqxfi

DNA methylation profiling as a model for discovery and precision diagnostics in neuro-oncology

Drew Pratt, Felix Sahm, Kenneth Aldape
2021 Neuro-Oncology  
Recent years have witnessed a shift to more objective and biologically-driven methods for central nervous system (CNS) tumor classification.  ...  The adoption of methylation data into neuro-oncology nosology has been greatly aided by the availability of technology compatible with clinical diagnostics, along with the development of a freely accessible  ...  Morgan for her editorial assistance.  ... 
doi:10.1093/neuonc/noab143 pmid:34725697 fatcat:qk2oz3zhprcrfclbuhwswyz5ii

Diagnosis of Glioma Molecular Markers by Terahertz Technologies

Olga Cherkasova, Yan Peng, Maria Konnikova, Yuri Kistenev, Chenjun Shi, Denis Vrazhnov, Oleg Shevelev, Evgeny Zavjalov, Sergei Kuznetsov, Alexander Shkurinov
2021 Photonics  
The actual results on the application of THz techniques in the intraoperative diagnosis of brain gliomas are shown.  ...  New metamaterial-based technologies for molecular marker detection at THz frequencies are discussed.  ...  THz spectroscopy for a glioma diagnosis.  ... 
doi:10.3390/photonics8010022 fatcat:s45u5letrrfmdeyjzhnqlz4fk4

Data Analysis and Tissue Type Assignment for Glioblastoma Multiforme

Yuqian Li, Yiming Pi, Xin Liu, Yuhan Liu, Sofie Van Cauter
2014 BioMed Research International  
Unsupervised methods based on NMF by Li et al. (2013,NMR in Biomedicine) and Li et al. (2013,IEEE Transactions on Biomedical Engineering) have been proposed for glioma recognition, but the tissue types  ...  The interpretation of MRSI data, especially for GBMs, is still challenging.  ...  The obtained images, known as nosologic images, showed the spatial distribution of all tissue types.  ... 
doi:10.1155/2014/762126 pmid:24724098 pmcid:PMC3958772 fatcat:l5kc7dgqhrcvbienf2kjurwahu

Establishing Imaging Biomarkers of Host Immune System Efficacy during Glioblastoma Therapy Response: Challenges, Obstacles and Future Perspectives

Ana Paula Candiota, Carles Arús
2022 Metabolites  
A predictor based in nosological images, generated from magnetic resonance spectroscopic imaging analyses and their oscillatory patterns, should be translational to clinics.  ...  This hypothesis proposal addresses three major questions: (1) Why do we need imaging biomarkers for assessing the efficacy of immune system participation in glioblastoma therapy response?  ...  The color code in the nosological images was red for proliferating tumors, green for responding tumors, and blue for normal tissue.  ... 
doi:10.3390/metabo12030243 pmid:35323686 pmcid:PMC8950145 fatcat:dy7oehpmwjg33oi5pnw2ae6zz4

Unsupervised learning for vascular heterogeneity assessment of glioblastoma based on magnetic resonance imaging: The Hemodynamic Tissue Signature [article]

Javier Juan-Albarracín
2020 arXiv   pre-print
This thesis focuses on the research and development of the Hemodynamic Tissue Signature (HTS) method: an unsupervised machine learning approach to describe the vascular heterogeneity of glioblastomas by  ...  Finally, the methods, technologies and original ideas conceived in this thesis led to the foundation of ONCOANALYTICS CDX, a company framed into the business model of companion diagnostics for pharmaceutical  ...  The patent protects a method to produce nosological images from multiple medical image acquisitions, with the aim of facilitating the diagnosis and treatment of diseases.  ... 
arXiv:2009.06288v1 fatcat:dum2y7fuuve73lxbb2any6iak4

Integrated molecular analysis suggests a three-class model for low-grade gliomas: A proof-of-concept study

Nicholas F. Marko, Richard A. Prayson, Gene H. Barnett, Robert J. Weil
2010 Genomics  
Results: Molecular class discovery suggested a three-class model for low-grade gliomas.  ...  This classification is similar to current clinical paradigms for low-grade gliomas; our work suggests a molecular basis for such models.  ...  Our model highlights potential areas for enhancing pathological classification nosologies for low-grade gliomas.  ... 
doi:10.1016/j.ygeno.2009.09.007 pmid:19835948 fatcat:aohhudzyavdune2zfdzbol6r7e

Nonnegative Canonical Polyadic Decomposition for Tissue-Type Differentiation in Gliomas

H. N. Bharath, D. M. Sima, N. Sauwen, U. Himmelreich, L. De Lathauwer, S. Van Huffel
2017 IEEE journal of biomedical and health informatics  
Magnetic resonance spectroscopic imaging (MRSI) reveals chemical information that characterizes different tissue types in brain tumors.  ...  We focus on automatic detection of the tumor, necrotic and normal brain tissue types by constructing a 3-dimensional MRSI tensor from in vivo 2D-MRSI data of individual glioma patients.  ...  Sofie Van Cauter for data acquisition and labeling the MRSI voxels.  ... 
doi:10.1109/jbhi.2016.2583539 pmid:27429452 fatcat:d4qogata4vepbj5tj3mtbhsbgu

Classification of brain tumours from MR spectra: the INTERPRET collaboration and its outcomes

M. Julià-Sapé, J. R. Griffiths, R. A. Tate, F. A. Howe, D. Acosta, G. Postma, J. Underwood, C. Majós, C. Arús
2015 NMR in Biomedicine  
Marinette van der Graaf, Chantal Remy, Arend Heerschap and Des Watson for their comments which helped to improve this manuscript.  ...  nosologic image"(28,95,96), either for diagnosis or for prognosis prediction.  ...  It is feasible for the MRS(I) and relevant MRI data to be automatically redirected to a standalone system for analysis and automated generation of nosologic images, for example, that are then returned  ... 
doi:10.1002/nbm.3483 pmid:26915795 fatcat:aruzqjok7zb2ldkqp3mexanyye

Classification of brain tumours from MR spectra: the INTERPRET collaboration and its outcomes

Margarida Julià-Sapé, John R. Griffiths, Rosemary A. Tate, Franklyn A. Howe, Dionisio Acosta, Geert Postma, Joshua Underwood, Carles Majós, Carles Arús
2015 NMR in Biomedicine  
Marinette van de Graaf, Arend Heerschap and Des Watson for their comments which helped to improve this manuscript.  ...  a "nosologic image"(26,63,91), either for diagnosis or for prognosis prediction . 2.  ...  Unsupervised classifiers were constructed in order to segment an image and identify the possible tumorous area in an objective way.  ... 
doi:10.1002/nbm.3439 pmid:26768492 fatcat:mlunzuhhzfghzfyfhdht3wmav4
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