相关论文: Annotating Synapses in Large EM Datasets
In the last years, automated segmentation has become a necessary tool for volume electron microscopy (EM) imaging. So far, the best performing techniques have been largely based on fully supervised encoder-decoder CNNs, requiring a…
We present a method for microtubule tracking in electron microscopy volumes. Our method first identifies a sparse set of voxels that likely belong to microtubules. Similar to prior work, we then enumerate potential edges between these…
Extracellular, large scale in vivo recording of neural activity is mandatory for elucidating the interaction of neurons within large neural networks at the level of their single unit activity. Technological achievements in MEMS-based…
Semantic image segmentation is one of the most important tasks in medical image analysis. Most state-of-the-art deep learning methods require a large number of accurately annotated examples for model training. However, accurate annotation…
Embedded devices are omnipresent in modern networks including the ones operating inside critical environments. However, due to their constrained nature, novel mechanisms are required to provide external, and non-intrusive anomaly detection.…
To build the connectomics map of the brain, we developed a new algorithm that can automatically refine the Membrane Detection Probability Maps (MDPM) generated to perform automatic segmentation of electron microscopy (EM) images. To achieve…
Diagnosis based on medical images, such as X-ray images, often involves manual annotation of anatomical keypoints. However, this process involves significant human efforts and can thus be a bottleneck in the diagnostic process. To fully…
The connectome, a map of the structural and/or functional connections in the brain, provides a complex representation of the neurobiological phenotypes on which it supervenes. This information-rich data modality has the potential to…
Data is the engine of modern computer vision, which necessitates collecting large-scale datasets. This is expensive, and guaranteeing the quality of the labels is a major challenge. In this paper, we investigate efficient annotation…
In this paper, we present a new pipeline which automatically identifies and annotates axoplasmic reticula, which are small subcellular structures present only in axons. We run our algorithm on the Kasthuri11 dataset, which was color…
Curating fully annotated datasets for medical image segmentation is labour-intensive and expertise-demanding. To alleviate this problem, prior studies have explored scribble annotations for weakly supervised segmentation. Existing solutions…
Deep-learning-based pipelines have shown the potential to revolutionalize microscopy image diagnostics by providing visual augmentations to a trained pathology expert. However, to match human performance, the methods rely on the…
The living body is composed of innumerable fine and complex structures and although these structures have been studied in the past, a vast amount of information pertaining to them still remains unknown. When attempting to observe these…
This paper aims to reduce the time to annotate images for panoptic segmentation, which requires annotating segmentation masks and class labels for all object instances and stuff regions. We formulate our approach as a collaborative process…
Automatic cell image segmentation methods in connectomics produce merge and split errors, which require correction through proofreading. Previous research has identified the visual search for these errors as the bottleneck in interactive…
The electron microscope (EM) remains the predominant technique for elucidating intricate details of the animal nervous system at the nanometer scale. However, accurately reconstructing the complex morphology of axons and myelin sheaths…
Single-cell RNA sequencing has transformed our ability to identify diverse cell types and their transcriptomic signatures. However, annotating these signatures-especially those involving poorly characterized genes-remains a major challenge.…
Training segmentation models from scratch has been the standard approach for new electron microscopy connectomics datasets. However, leveraging pretrained models from existing datasets could improve efficiency and performance in constrained…
Annotating biomedical images for supervised learning is a complex and labor-intensive task due to data diversity and its intricate nature. In this paper, we propose an innovative method, the efficient one-pass selective annotation (EPOSA),…
Morphology of mitochondria plays critical roles in mediating their physiological functions. Accurate segmentation of mitochondria from 3D electron microscopy (EM) images is essential to quantitative characterization of their morphology at…