Related papers: Essential Metadata for 3D BRAIN Microscopy

Brain Imaging Data Structure (BIDS) allows the user to organise brain imaging data into a clear and easy standard directory structure. BIDS is widely supported by the scientific community and is considered a powerful standard for…

Automatic segmentation of fine-grained brain structures remains a challenging task. Current segmentation methods mainly utilize 2D and 3D deep neural networks. The 2D networks take image slices as input to produce coarse segmentation in…

Deep learning-based segmentation techniques have shown remarkable performance in brain segmentation, yet their success hinges on the availability of extensive labeled training data. Acquiring such vast datasets, however, poses a significant…

Accurate segmentation and classification of brain tumors from Magnetic Resonance Imaging (MRI) remain key challenges in medical image analysis, primarily due to the lack of high-quality, balanced, and diverse datasets with expert…

The application of microscopy in biomedical research has come a long way since Antonie van Leeuwenhoek discovered unicellular organisms. Countless innovations have positioned light microscopy as a cornerstone of modern biology and a method…

Reaching a global view of brain organization requires assembling evidence on widely different mental processes and mechanisms. The variety of human neuroscience concepts and terminology poses a fundamental challenge to relating brain…

Decoding brain states from functional magnetic resonance imaging (fMRI) data is vital for advancing neuroscience and clinical applications. While traditional machine learning and deep learning approaches have made strides in leveraging the…

The promise of large-scale, high-resolution datasets from Electron Microscopy (EM) and X-ray Microtomography (XRM) lies in their ability to reveal neural structures and synaptic connectivity, which is critical for understanding the brain.…

Transfer learning has gained attention in medical image analysis due to limited annotated 3D medical datasets for training data-driven deep learning models in the real world. Existing 3D-based methods have transferred the pre-trained models…

Modern imaging techniques for probing brain function, including functional Magnetic Resonance Imaging, intrinsic and extrinsic contrast optical imaging, and magnetoencephalography, generate large data sets with complex content. In this…

Brain MR image segmentation is a key task in neuroimaging studies. It is commonly conducted using standard computational tools, such as FSL, SPM, multi-atlas segmentation etc, which are often registration-based and suffer from expensive…

The construction of brain graphs from functional Magnetic Resonance Imaging (fMRI) data plays a crucial role in enabling graph machine learning for neuroimaging. However, current practices often rely on rigid pipelines that overlook…

Segmentation is a critical step in analyzing the developing human fetal brain. There have been vast improvements in automatic segmentation methods in the past several years, and the Fetal Brain Tissue Annotation (FeTA) Challenge 2021 helped…

3D image segmentation plays an important role in biomedical image analysis. Many 2D and 3D deep learning models have achieved state-of-the-art segmentation performance on 3D biomedical image datasets. Yet, 2D and 3D models have their own…

Brain-mapping techniques have proven to be vital in understanding the molecular, cellular, and functional mechanisms of the brain. Normal anatomical imaging can provide structural information on certain abnormalities in the brain. However…

Automated sample preparation and electron microscopy enables acquisition of very large image data sets. These technical advances are of special importance to the field of neuroanatomy, as 3D reconstructions of neuronal processes at the nm…

Understanding our brain is one of the most daunting tasks, one we cannot expect to complete without the use of technology. MindBigData aims to provide a comprehensive and updated dataset of brain signals related to a diverse set of human…

Data sharing is a key factor for ensuring reproducibility and transparency of scientific experiments, and neuroimaging is no exception. The vast heterogeneity of data formats and imaging modalities utilised in the field makes it a very…

We present brat (brain report alignment transformer), a multi-view representation learning framework for brain magnetic resonance imaging (MRI) trained on MRIs paired with clinical reports. Brain MRIs present unique challenges due to the…

High resolution volumetric neuroimaging datasets from electron microscopy (EM) and x-ray micro and holographic-nano tomography (XRM/XHN) are being generated at an increasing rate and by a growing number of research teams. These datasets are…