[HTML][HTML] Spatial and temporal organization of the genome: Current state and future aims of the 4D nucleome project

J Dekker, F Alber, S Aufmkolk, BJ Beliveau… - Molecular cell, 2023 - cell.com
The four-dimensional nucleome (4DN) consortium studies the architecture of the genome
and the nucleus in space and time. We summarize progress by the consortium and highlight …

Volume electron microscopy

CJ Peddie, C Genoud, A Kreshuk, K Meechan… - Nature Reviews …, 2022 - nature.com
Life exists in three dimensions, but until the turn of the century most electron microscopy
methods provided only 2D image data. Recently, electron microscopy techniques capable of …

Best practices and tools for reporting reproducible fluorescence microscopy methods

P Montero Llopis, RA Senft, TJ Ross-Elliott… - Nature …, 2021 - nature.com
Although fluorescence microscopy is ubiquitous in biomedical research, microscopy
methods reporting is inconsistent and perhaps undervalued. We emphasize the importance …

OME-Zarr: a cloud-optimized bioimaging file format with international community support

J Moore, D Basurto-Lozada, S Besson… - Histochemistry and Cell …, 2023 - Springer
A growing community is constructing a next-generation file format (NGFF) for bioimaging to
overcome problems of scalability and heterogeneity. Organized by the Open Microscopy …

MITI minimum information guidelines for highly multiplexed tissue images

D Schapiro, C Yapp, A Sokolov, SM Reynolds… - Nature …, 2022 - nature.com
The imminent release of tissue atlases combining multichannel microscopy with single-cell
sequencing and other omics data from normal and diseased specimens creates an urgent …

QUAREP-LiMi: a community endeavor to advance quality assessment and reproducibility in light microscopy

U Boehm, G Nelson, CM Brown, S Bagley, P Bajcsy… - Nature …, 2021 - nature.com
The community-driven initiative Quality Assessment and Reproducibility for Instruments &
Images in Light Microscopy (QUAREP-LiMi) wants to improve reproducibility for light …

Quality assessment in light microscopy for routine use through simple tools and robust metrics

O Faklaris, L Bancel-Vallée, A Dauphin… - Journal of Cell …, 2022 - rupress.org
Although there is a need to demonstrate reproducibility in light microscopy acquisitions, the
lack of standardized guidelines monitoring microscope health status over time has so far …

A biologist's guide to planning and performing quantitative bioimaging experiments

RA Senft, B Diaz-Rohrer, P Colarusso, L Swift… - PLoS …, 2023 - journals.plos.org
Technological advancements in biology and microscopy have empowered a transition from
bioimaging as an observational method to a quantitative one. However, as biologists are …

Open microscopy in the life sciences: quo vadis?

J Hohlbein, B Diederich, B Marsikova, EG Reynaud… - Nature …, 2022 - nature.com
Light microscopy enables researchers to observe cellular mechanisms with high spatial and
temporal resolution. However, the increasing complexity of current imaging technologies …

A global view of standards for open image data formats and repositories

JR Swedlow, P Kankaanpää, U Sarkans, W Goscinski… - Nature …, 2021 - nature.com
Imaging technologies are used throughout the life and biomedical sciences to understand
mechanisms in biology and diagnosis and therapy in animal and human medicine. We …