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.read more
Citations
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Journal ArticleDOI
Quantitating the cell: turning images into numbers with ImageJ.
Ellen T. Arena,Ellen T. Arena,Curtis Rueden,Mark Hiner,Shulei Wang,Ming Yuan,Ming Yuan,Kevin W. Eliceiri,Kevin W. Eliceiri +8 more
TL;DR: An overview of prominent imaging processing approaches in ImageJ is given that are of particular interest for biological imaging and that illustrate the functionality of ImageJ and other open source image analysis software.
Journal ArticleDOI
Autism-like phenotype and risk gene mRNA deadenylation by CPEB4 mis-splicing
Alberto Parras,Alberto Parras,Héctor Anta,María Santos-Galindo,María Santos-Galindo,Vivek Swarup,Ainara Elorza,Ainara Elorza,Jose Luis Nieto-Gonzalez,Jose Luis Nieto-Gonzalez,Sara Picó,Sara Picó,Ivó H. Hernández,Ivó H. Hernández,Ivó H. Hernández,Juan Ignacio Díaz-Hernández,Juan Ignacio Díaz-Hernández,Eulàlia Belloc,Annie Rodolosse,Neelroop N. Parikshak,Olga Peñagarikano,Olga Peñagarikano,Rafael Fernández-Chacón,Rafael Fernández-Chacón,Manuel Irimia,Pilar Navarro,Daniel H. Geschwind,Raúl Méndez,José J. Lucas,José J. Lucas +29 more
TL;DR: CPEB4 binds the mRNA of genes known to be associated with autism and shows an isoform imbalance in individuals with autism, and an equivalent imbalance in mice induces an autism-like phenotype, which identifies CPEB4 as a regulator of ASD risk genes.
Journal ArticleDOI
Using operando techniques to understand and design high performance and stable alkaline membrane fuel cells.
Xiong Peng,Devashish Kulkarni,Ying Huang,Travis J. Omasta,Benjamin Ng,Yiwei Zheng,Lianqin Wang,Jacob M. LaManna,Daniel S. Hussey,John R. Varcoe,Iryna V. Zenyuk,William E. Mustain +11 more
TL;DR: This study reports alkaline membrane fuel cells that can be operated continuously for over 1000 h at 600 mA cm−2 with voltage decay rate of only 32-μV h−1 – the best-reported durability to date.
Journal ArticleDOI
Anisotropy of permeability in faulted porous sandstones
TL;DR: In this article, Wibberley, Claude Gout, and Stephane Vignau have contributed to the study of the Clashach Quarry in the UK, using their MSc pilot study at the University of Aberdeen.
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Real-time observation of nonclassical protein crystallization kinetics.
Andrea Sauter,Felix Roosen-Runge,Fajun Zhang,Gudrun Lotze,Robert M. J. Jacobs,Frank Schreiber +5 more
TL;DR: Real-time study of protein crystallization of bovine β-lactoglobulin in the presence of CdCl(2) provides evidence for a two-step nucleation process forprotein crystallization and elucidates the role and the structural signature of the metastable intermediate phase in this process.
References
More filters
Journal ArticleDOI
Fiji: an open-source platform for biological-image analysis
Johannes Schindelin,Ignacio Arganda-Carreras,Erwin Frise,Verena Kaynig,Mark Longair,Tobias Pietzsch,Stephan Preibisch,Curtis Rueden,Stephan Saalfeld,Benjamin Schmid,Jean-Yves Tinevez,Daniel J. White,Volker Hartenstein,Kevin W. Eliceiri,Pavel Tomancak,Albert Cardona +15 more
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.
Journal ArticleDOI
CellProfiler: image analysis software for identifying and quantifying cell phenotypes
Anne E. Carpenter,Thouis R. Jones,Michael R. Lamprecht,Colin Clarke,In Han Kang,Ola Friman,David A. Guertin,Joo Han Chang,Robert A. Lindquist,Jason Moffat,Polina Golland,David M. Sabatini +11 more
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.
Arthur D. Edelstein,Nenad Amodaj,Karl Hoover,Ronald D. Vale,Ronald D. Vale,Nico Stuurman,Nico Stuurman +6 more
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.
Journal ArticleDOI
Icy: an open bioimage informatics platform for extended reproducible research
Fabrice de Chaumont,Stephane Dallongeville,Nicolas Chenouard,Nicolas Hervé,Sorin Pop,Thomas Provoost,Vannary Meas-Yedid,Praveen Pankajakshan,Timothee Lecomte,Yoann Le Montagner,Thibault Lagache,Alexandre Dufour,Jean-Christophe Olivo-Marin +12 more
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.