Computational diffusion MRI : MICCAI Workshop最新文献

{"title":"Towards Optimal Sampling in Diffusion MRI","authors":"H. Knutsson","doi":"10.1007/978-3-030-05831-9_1","DOIUrl":"https://doi.org/10.1007/978-3-030-05831-9_1","url":null,"abstract":"","PeriodicalId":72661,"journal":{"name":"Computational diffusion MRI : MICCAI Workshop","volume":"20 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2019-10-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"86506092","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Current Applications and Future Promises of Machine Learning in Diffusion MRI","authors":"D. Ravì, N. Ghavami, D. Alexander, A. Ianuş","doi":"10.1007/978-3-030-05831-9_9","DOIUrl":"https://doi.org/10.1007/978-3-030-05831-9_9","url":null,"abstract":"","PeriodicalId":72661,"journal":{"name":"Computational diffusion MRI : MICCAI Workshop","volume":"3 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2019-10-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"75554708","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Joint Image Reconstruction and Phase Corruption Maps Estimation in Multi-shot Echo Planar Imaging","authors":"Iñaki Rabanillo, Santiago Sanz-Estébanez, S. Aja‐Fernández, J. Hajnal, C. Alberola-López, Lucilio Cordero-Grande","doi":"10.1007/978-3-030-05831-9_2","DOIUrl":"https://doi.org/10.1007/978-3-030-05831-9_2","url":null,"abstract":"","PeriodicalId":72661,"journal":{"name":"Computational diffusion MRI : MICCAI Workshop","volume":"95 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2019-10-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"86233376","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Obtaining Representative Core Streamlines for White Matter Tractometry of the Human Brain","authors":"Maxime Chamberland, Samuel St-Jean, C. Tax, Derek K. Jones","doi":"10.1007/978-3-030-05831-9_28","DOIUrl":"https://doi.org/10.1007/978-3-030-05831-9_28","url":null,"abstract":"","PeriodicalId":72661,"journal":{"name":"Computational diffusion MRI : MICCAI Workshop","volume":"66 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2019-05-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"88793801","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Muti-shell Diffusion MRI Harmonisation and Enhancement Challenge (MUSHAC): Progress and Results","authors":"L. Ning, E. Bonet-Carne, Francesco Grussu, F. Sepehrband, Enrico Kaden, J. Veraart, Stefano B. Blumberg, Can Son Khoo, M. Palombo, Jaume Coll-Font, B. Scherrer, S. Warfield, Suheyla Cetin Karayumak, Y. Rathi, Simon Koppers, Leon Weninger, Julia Ebert, D. Merhof, Daniel Moyer, Maximilian Pietsch, Daan Christiaens, R. Teixeira, J. Tournier, A. Zhylka, J. Pluim, G. Parker, U. Rudrapatna, J. Evans, C. Charron, Derek K. Jones, C. Tax","doi":"10.1007/978-3-030-05831-9_18","DOIUrl":"https://doi.org/10.1007/978-3-030-05831-9_18","url":null,"abstract":"","PeriodicalId":72661,"journal":{"name":"Computational diffusion MRI : MICCAI Workshop","volume":"28 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2019-05-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"83469391","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Tissue Segmentation Using Sparse Non-negative Matrix Factorization of Spherical Mean Diffusion MRI Data.","authors":"Peng Sun,&nbsp;Ye Wu,&nbsp;Geng Chen,&nbsp;Jun Wu,&nbsp;Dinggang Shen,&nbsp;Pew-Thian Yap","doi":"10.1007/978-3-030-05831-9_6","DOIUrl":"https://doi.org/10.1007/978-3-030-05831-9_6","url":null,"abstract":"<p><p>In this paper, we present a method based on sparse non-negative matrix factorization (NMF) for brain tissue segmentation using diffusion MRI (DMRI) data. Unlike existing NMF-based approaches, in our method NMF is applied to the spherical mean data, computed on a per-shell basis, instead of the original diffusion-weighted images. This is motivated by the fact that the spherical mean is independent of the fiber orientation distribution and is only dependent on tissue microstructure. Applying NMF to the spherical mean data will hence allow tissue signal separation based solely on the microstructural properties, unconfounded by factors such as fiber dispersion and crossing. We show results explaining why applying NMF directly on the diffusion-weighted images fails and why our method is able to yield the expected outcome, producing tissue segmentation with greater accuracy.</p>","PeriodicalId":72661,"journal":{"name":"Computational diffusion MRI : MICCAI Workshop","volume":"2019 ","pages":"69-76"},"PeriodicalIF":0.0,"publicationDate":"2019-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1007/978-3-030-05831-9_6","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9883644","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Inter-Scanner Harmonization of High Angular Resolution DW-MRI using Null Space Deep Learning.","authors":"Vishwesh Nath, Prasanna Parvathaneni, Colin B Hansen, Allison E Hainline, Camilo Bermudez, Samuel Remedios, Justin A Blaber, Kurt G Schilling, Ilwoo Lyu, Vaibhav Janve, Yurui Gao, Iwona Stepniewska, Baxter P Rogers, Allen T Newton, L Taylor Davis, Jeff Luci, Adam W Anderson, Bennett A Landman","doi":"","DOIUrl":"","url":null,"abstract":"<p><p>Diffusion-weighted magnetic resonance imaging (DW-MRI) allows for non-invasive imaging of the local fiber architecture of the human brain at a millimetric scale. Multiple classical approaches have been proposed to detect both single (e.g., tensors) and multiple (e.g., constrained spherical deconvolution, CSD) fiber population orientations per voxel. However, existing techniques generally exhibit low reproducibility across MRI scanners. Herein, we propose a data-driven technique using a neural network design which exploits two categories of data. First, training data were acquired on three squirrel monkey brains using ex-vivo DW-MRI and histology of the brain. Second, repeated scans of human subjects were acquired on two different scanners to augment the learning of the network proposed. To use these data, we propose a new network architecture, the null space deep network (NSDN), to simultaneously learn on traditional observed/truth pairs (e.g., MRI-histology voxels) along with repeated observations without a known truth (e.g., scan-rescan MRI). The NSDN was tested on twenty percent of the histology voxels that were kept completely blind to the network. NSDN significantly improved absolute performance relative to histology by 3.87% over CSD and 1.42% over a recently proposed deep neural network approach. Moreover, it improved reproducibility on the paired data by 21.19% over CSD and 10.09% over a recently proposed deep approach. Finally, NSDN improved generalizability of the model to a third <i>in vivo</i> human scanner (which was not used in training) by 16.08% over CSD and 10.41% over a recently proposed deep learning approach. This work suggests that data-driven approaches for local fiber reconstruction are more reproducible, informative and precise and offers a novel, practical method for determining these models.</p>","PeriodicalId":72661,"journal":{"name":"Computational diffusion MRI : MICCAI Workshop","volume":"2019 ","pages":"193-201"},"PeriodicalIF":0.0,"publicationDate":"2019-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8388262/pdf/nihms-1565525.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10205156","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Graph-Based Deep Learning for Prediction of Longitudinal Infant Diffusion MRI Data.","authors":"Jaeil Kim,&nbsp;Yoonmi Hong,&nbsp;Geng Chen,&nbsp;Weili Lin,&nbsp;Pew-Thian Yap,&nbsp;Dinggang Shen","doi":"10.1007/978-3-030-05831-9_11","DOIUrl":"https://doi.org/10.1007/978-3-030-05831-9_11","url":null,"abstract":"<p><p>Diffusion MRI affords great value for studying brain development, owing to its capability in assessing brain microstructure in association with myelination. With longitudinally acquired pediatric diffusion MRI data, one can chart the temporal evolution of microstructure and white matter connectivity. However, due to subject dropouts and unsuccessful scans, longitudinal datasets are often incomplete. In this work, we introduce a graph-based deep learning approach to predict diffusion MRI data. The relationships between sampling points in spatial domain (x-space) and diffusion wave-vector domain (q-space) are harnessed jointly (x-q space) in the form of a graph. We then implement a residual learning architecture with graph convolution filtering to learn longitudinal changes of diffusion MRI data along time. We evaluate the effectiveness of the spatial and angular components in data prediction. We also investigate the longitudinal trajectories in terms of diffusion scalars computed based on the predicted datasets.</p>","PeriodicalId":72661,"journal":{"name":"Computational diffusion MRI : MICCAI Workshop","volume":"2019 ","pages":"133-141"},"PeriodicalIF":0.0,"publicationDate":"2019-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1007/978-3-030-05831-9_11","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10186921","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Edge and Properties in Multiple","authors":"Elizabeth Powell, F. Prados, D. Chard, A. Toosy, J. Clayden, C. Wheeler-Kingshott","doi":"10.1007/978-3-030-05831-9_22","DOIUrl":"https://doi.org/10.1007/978-3-030-05831-9_22","url":null,"abstract":"","PeriodicalId":72661,"journal":{"name":"Computational diffusion MRI : MICCAI Workshop","volume":"19 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2019-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"77233692","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Longitudinal Harmonization for Improving Tractography in Baby Diffusion MRI.","authors":"Khoi Minh Huynh, Jaeil Kim, Geng Chen, Ye Wu, Dinggang Shen, Pew-Thian Yap","doi":"10.1007/978-3-030-05831-9_15","DOIUrl":"10.1007/978-3-030-05831-9_15","url":null,"abstract":"<p><p>The human brain develops very rapidly in the first years of life, resulting in significant changes in water diffusion anisotropy. Developmental changes pose significant challenges to longitudinally consistent white matter tractography. In this paper, we will introduce a method to harmonize infant diffusion MRI data longitudinally across time. Specifically, we harmonize diffusion MRI data collected at an earlier time point to data collected at a later time point. This will promote longitudinal consistency and allow sharpening of fiber orientation distribution functions (ODFs) based on information available at the later time point. For this purpose, we will introduce an approach that is based on the method of moments, which allows harmonization to be performed directly on the diffusion-attenuated signal without the need to fit any diffusion models to the data. Given two diffusion MRI datasets, our method harmonizes them voxel-wise using well-behaving mapping functions (i.e., monotonic, diffeomorphic, etc.), parameters of which are determined by matching the spherical moments (i.e., mean, variance, skewness, etc.) of signal measurements on each shell. The mapping functions we use is isotropic and does not introduce new orientations that are not already in the original data. Our analysis indicates that longitudinal harmonization sharpens ODFs and improves tractography in infant diffusion MRI.</p>","PeriodicalId":72661,"journal":{"name":"Computational diffusion MRI : MICCAI Workshop","volume":"2019 ","pages":"183-191"},"PeriodicalIF":0.0,"publicationDate":"2019-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8283964/pdf/nihms-1717213.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10186923","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}