Bioimaging /BIU /

Links

Links to useful web sites

Fluor­es­cence Spec­tra View­ers
Link list for many fluorescence spectra viewers
Mi­cro­scopy and ima­ging net­works
Euro-BioImaging ELMI
Other ima­ging fa­cil­it­ies
Turku Centre for Biotechnology AMU - Electron, confocal and DIC microscopy. At Haartman institute (HFIC, BCIC) Helsinki Functional Imaging Center (HFIC) coordinates the imaging activities in the Helsinki area
Mi­cro­scopy and Ima­ging (non-com­mer­cial ref­er­ence sites)
iBiology - An online course covering all aspects of light microscopy in a series of video lectures iBiology - A short course covering the basics Excellent microscopy reference for beginners and experts by M. W. Davidson and the Florida State University NINDS GENSAT BAC Transgenics Project
Free ima­ging soft­ware
Anima - An image analysis workflow platfrom built on top of Anduril BioImage XD - Free open source software for analysis, processing and 3D rendering of multi dimensional microscopy images CellProfiler - A free open source software designed to quantitatively measure phenotypes from thousands of images automatically Icy - Provides the software resources to visualize, annotate and quantify bioimaging data ImageMagick - A software suite to create, edit, and compose bitmap images KEGG - A 2-D visualization tool for metabolic pathways Maya - Scientific data visualizer Micro-Manager - Open source software for image acquisition Medical Image Processing, Analysis, and Visualization (MIPAV) OME - An open source software project to develop a database-driven system for the quantitative analysis of biological images Virtual Cell - Software from the National Resource for Cell Analysis and Modeling Voxx - Voxel-based real-time 3D image processing and rendering of multi-channel 3D and 4D data
Im­ageJ
Im­agej - NIH program for image processing and analysis Discussion list for ImageJ users and developers Also list archives Fiji - An image processing package. It can be described as a "batteries-included" distribution of ImageJ (and ImageJ2) Image Stabilizer - ImageJ plugin that corrects x-y movement of images in time-lapse image stacks Turboreg - An ImageJ plugin for the automatic alignment of a source image or a stack to a target image VR - ImageJ plugin for volume rendering by Michael D. Abramoff
Fluoro­phores and other mo­lecu­lar/​cell bio­logy products
Antibodies Online Clontech - Novel Fluorescent Proteins etc. Part of Takara Bio Biosupply Net - CSHL Press provided web site where you can search for scientific supplies Cellsignal.com - Primary antibodies for signal transduction molecules Evrogen - Photoactivable fluorescent proteins etc. FPVis - A plotting tool for different protein properties Thermofisher JIR Europe - Labeled secondary antibodies etc. Sigma Aldrich - Lentiviral-based shRNA vectors for transient or stable transfection, as well as viral particle generation Vector Labs - Antibodies as well as other immunohistochemistry /immunofluorescence products
Mi­cro­scopy and Ima­ging (com­mer­cial ref­er­ence sites)
Chroma - Optical filters Hamamatsu - CCD cameras, light sources, lasers, fibre optics etc. Ibidi - Special microscopy slides Leica Mattek - Glass bottom culture dishes for live cell imaging MicroscopyU - An outstanding web site that offers a wealth of information on confocal microscopy Nikon Nikon - Nice visual presentations on microscopy techniques Nikon's Small World photomicrography competition is open for everyone Olympus Olympus microscopy resource center Omega - Optical filters PerkinElmer - In vivo imaging systems ThermoFisher - High-Content Screening (HCS) and Analysis (HCA) Zeiss
Com­mer­cial ima­ging soft­ware
Imaris - Multidimensional image data rendering, visualization, and analysis software Leica LAS X software NIS-Elements Viewer - Nikon imaging software Huygens - Deconvolution software, also FluVR volume rendering software Zeiss ZEN Lite - Imaging software for Windows