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NIH Image to ImageJ: 25 years of image analysis

TLDR
The origins, challenges and solutions of NIH Image and ImageJ software are discussed, and how their history can serve to advise and inform other software projects.
Abstract
For the past 25 years NIH Image and ImageJ software have been pioneers as open tools for the analysis of scientific images. We discuss the origins, challenges and solutions of these two programs, and how their history can serve to advise and inform other software projects.

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Extracellular Vesicles from Bovine Follicular Fluid Support Cumulus Expansion

TL;DR: It is demonstrated that follicular EVs can support both measurable cumulus expansion and increased gene expression, which are critical for ovulation of a fertilizable egg.
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Molecular Reorientation and Structural Changes in Cosolvent-Treated Highly Conductive PEDOT:PSS Electrodes for Flexible Indium Tin Oxide-Free Organic Electronics

TL;DR: In this paper, the authors investigated the effect of morphological changes and molecular reorientation within crystalline domains of poly(3,4-ethylenedioxythiophene):poly(styrene-sulfonate) (PEDOT:PSS) films.
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Osteogenic differentiation of human mesenchymal stem cells in the absence of osteogenic supplements: A surface-roughness gradient study

TL;DR: The systematic investigation of the linearly varying surface-roughness gradient showed that an average PCL roughness of 0.93 μm alone can serve as a compelling alternative to soluble osteogenic inducers in orthopedic applications featuring the clinically relevant biodegradable polymer polycaprolactone.
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Mapping RNA–RNA interactome and RNA structure in vivo by MARIO

TL;DR: The MARIO (Mapping RNA interactome in vivo) technology is presented to massively reveal RNA–RNA interactions from unperturbed cells, revealing thousands of intra-molecule interactions, providing in vivo data on high-order RNA structures.
References
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Journal ArticleDOI

Fiji: an open-source platform for biological-image analysis

TL;DR: Fiji is a distribution of the popular open-source software ImageJ focused on biological-image analysis that facilitates the transformation of new algorithms into ImageJ plugins that can be shared with end users through an integrated update system.
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CellProfiler: image analysis software for identifying and quantifying cell phenotypes

TL;DR: The first free, open-source system designed for flexible, high-throughput cell image analysis, CellProfiler is described, which can address a variety of biological questions quantitatively.
Journal ArticleDOI

ImageJ for microscopy

TL;DR: The near-comprehensive range of import filters that allow easy access to image and meta-data, a broad suite processing and analysis routine, and enthusiastic support from a friendly mailing list are invaluable for all microscopy labs and facilities-not just those on a budget.
Journal ArticleDOI

Computer control of microscopes using µManager.

TL;DR: This unit provides step‐by‐step protocols describing how to get started working with µManager, as well as some starting points for advanced use of the software.
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Icy: an open bioimage informatics platform for extended reproducible research

TL;DR: Icy is a collaborative bioimage informatics platform that combines a community website for contributing and sharing tools and material, and software with a high-end visual programming framework for seamless development of sophisticated imaging workflows.
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