Software tools for automated transmission electron microscopy
The demand for high-throughput data collection in electron microscopy is increasing for
applications in structural and cellular biology. Here we present a combination of software …
applications in structural and cellular biology. Here we present a combination of software …
Analysis of clonogenic growth in vitro
N Brix, D Samaga, C Belka, H Zitzelsberger… - Nature protocols, 2021 - nature.com
The clonogenic assay measures the capacity of single cells to form colonies in vitro. It is
widely used to identify and quantify self-renewing mammalian cells derived from in vitro …
widely used to identify and quantify self-renewing mammalian cells derived from in vitro …
OpenCell: Endogenous tagging for the cartography of human cellular organization
Elucidating the wiring diagram of the human cell is a central goal of the postgenomic era.
We combined genome engineering, confocal live-cell imaging, mass spectrometry, and data …
We combined genome engineering, confocal live-cell imaging, mass spectrometry, and data …
BigNeuron: a resource to benchmark and predict performance of algorithms for automated tracing of neurons in light microscopy datasets
BigNeuron is an open community bench-testing platform with the goal of setting open
standards for accurate and fast automatic neuron tracing. We gathered a diverse set of …
standards for accurate and fast automatic neuron tracing. We gathered a diverse set of …
[HTML][HTML] Characterizing microglia activation: a spatial statistics approach to maximize information extraction
Microglia play an important role in the pathology of CNS disorders, however, there remains
significant uncertainty about the neuroprotective/degenerative role of these cells due to a …
significant uncertainty about the neuroprotective/degenerative role of these cells due to a …
High-definition imaging using line-illumination modulation microscopy
Q Zhong, A Li, R **, D Zhang, X Li, X Jia, Z Ding… - Nature …, 2021 - nature.com
The microscopic visualization of large-scale three-dimensional (3D) samples by optical
microscopy requires overcoming challenges in imaging quality and speed and in big data …
microscopy requires overcoming challenges in imaging quality and speed and in big data …
Whole-neuron synaptic map** reveals spatially precise excitatory/inhibitory balance limiting dendritic and somatic spiking
The balance between excitatory and inhibitory (E and I) synapses is thought to be critical for
information processing in neural circuits. However, little is known about the spatial principles …
information processing in neural circuits. However, little is known about the spatial principles …
A robust unsupervised machine-learning method to quantify the morphological heterogeneity of cells and nuclei
Cell morphology encodes essential information on many underlying biological processes. It
is commonly used by clinicians and researchers in the study, diagnosis, prognosis, and …
is commonly used by clinicians and researchers in the study, diagnosis, prognosis, and …
Image-based cell phenoty** with deep learning
A cell's phenotype is the culmination of several cellular processes through a complex
network of molecular interactions that ultimately result in a unique morphological signature …
network of molecular interactions that ultimately result in a unique morphological signature …
[HTML][HTML] A bird's-eye view of deep learning in bioimage analysis
E Meijering - Computational and structural biotechnology journal, 2020 - Elsevier
Deep learning of artificial neural networks has become the de facto standard approach to
solving data analysis problems in virtually all fields of science and engineering. Also in …
solving data analysis problems in virtually all fields of science and engineering. Also in …