Useful links

Useful links
Microscopy and Imaging (commercial reference sites)
  • chroma
    Optical filters - check also their resources that contain useful information about filters in general (handbook and application notes), and fluorescent protein filters (GFP catalog and application notes)
  • hamamatsu
    CCD cameras, light sources, lasers, fibre optics etc.
  • ibid
    Special microscopy slides

  • leica microsystems
    Major microscope manufacturer
  • mattek
    Glass bottom culture dishes for live cell imaging
  • nikon instruments
Major microscope manufacturer
  • Nikon microscopyμ
    An outstanding web site that offers a wealth of information on confocal microscopy, as well as on wide-field microscopy. Learn about sample preparation, aberrations, and other important aspects of confocal imaging. Based on Molecular Expressions
  • nikon small world
    Nikon's Small World photomicrography competition is open for everyone
  • Olympus lifescience
    Major microscope manufacturer
  • Olympus
    Olympus mircoscopy resource center. Excellent web pages on confocal microscopy, full of useful information on fluorophores, spectral bleed-through, resolution and contrast, objectives etc. Highly recommended. Based on Molecular Expressions
  • Omegafilters
    Optical filter manufacturer
  • Omegafilters Database
    An excellect tool: An interactive database of fluorophore absorption and emission spectra, along with filter set recommendations and accompanying filter spectral curves
  • Perkinelmer
    In vivo imaging systems for whole mice and rats (bioluminescence or fluorescence)
  • Thermofisher content screening
    High-Content Screening (HCS) and Analysis (HCA)
Microscopy and Imaging (non-commercial reference sites)
  • ibiology
    An online course covering all aspects of light microscopy in a series of video lectures
  • Gensat
    NINDS GENSAT BAC Transgenics Project (The Rockefeller University): The Gensat database contains a gene expression atlas of the central nervous system of the mouse based on bacterial artificial chromosomes (BACs). In each of the BAC transgenic vectors, endogenous protein coding sequences have been replaced by sequences encoding the EGFP reporter gene.
Microscopy and imaging networks
  • Euro Bioimaging
    Euro-BioImaging is a pan-European infrastructure project whose mission is to build a distributed imaging infrastructure across Europe that will provide open access to innovative biological and medical imaging technologies for European researchers
  • ELMI
    ELMI is a communication network between European scientists working in the field of light microscopy and the manufacturers. BIU is a member of ELMI.
Fluorophores and other molecular/cell biology products
  • Antibodies online
    An antibodies marketplace
  • Takarabio
    Previous Clonetech. Novel Fluorescent Proteins etc.
  • Biosupplynet
    CSHL Press provided web site where you can search  for scientific supplies
  • Cellsignal
    Primary antibodies for signal transduction molecules
  • Evrogen
    Photoactivable fluorescent proteins etc.
  • fpvis
  • Mblintl
    Sells CoralHue fluorescent proteins, also photochromic ones that are turned on or off on demand by exposure to different wavelenghts of light
  • Sigmaaldrich
    Lentiviral-based shRNA vectors for transient or stable transfection, as well as viral particle generation. The complete libraries will target 15000 human and 15000 mouse genes
  • Vectorlabs
    Antibodies as well as other immunohistochemistry /immunofluorescence products, labeled secondary antibodies etc.
Free imaging software
  • Bioimagexd
    Free open source software for analysis, processing and 3D rendering of multi dimensional microscopy images
  • Cellprofiler
    CellProfiler is a free open source software designed to quantitatively measure phenotypes from thousands of images automatically
  • Bio imageanalysis
    Icy provides the software resources to visualize, annotate and quantify bioimaging data
  • Image J
    NIH program for image processing and analysis. (Windows, Mac OS 9, Mac OS X, Linux)
  • Image J forum
    Discussion list for ImageJ users and developers
  • Image J archives
    Also list archives
  • Micro manager
    An open source software for image acquisition. ImageJ compatible user interface. Matlab programs can be utilized in Micro-Manager. (Windows, Mac, Linux)
  • epfl plugin
    An ImageJ plugin for the automatic alignment of a source image or a stack to a target image
  • bij isi plugin
    ImageJ plugin for volume rendering by Michael D. Abramoff
  • Image magick
    ImageMagick is a software suite to create, edit, and compose bitmap images. It can read, convert and write images in a variety of formats
  • Stabilazer plugin
    ImageJ plugin that corrects x-y movement of images in time-lapse image stacks
  • KEGG
    KEGG is a 2-D visualization tool for metabolic pathways
  • Code enthought
    Scientific data visualizer
  • Mipav
    Medical Image Processing, Analysis, and Visualization; NIH Java application that enables quantitative analysis and visualization of PET, MRI, CT, and microscopy images
  • Open microscopy
    OME is an open source software project to develop a database-driven system for the quantitative analysis of biological images
  • Vcell
    Virtual Cell software from the National Resource for Cell Analysis and Modeling allows simulation of e.g. FRAP data and membrane diffusion
  • Indiana
    Voxel-based real-time 3D image processing and rendering of multi-channel 3D and 4D data. (Windows, Mac OS X, Linux)
Commercial imaging software
  • leica LAS X
    Leica LAS X software. Lite version available for Windows 7
  • nikon instruments NIS
    Nikon imaging software. NIS-Elements Viewer available for Windows and OS X
  • Huygens Decon
    Huygens deconvolution software, also FluVR volume rendering software