A method of mapping atlas information to a histological section image of a histological section
MBF Bioscience was just awarded a patent by the USPTO for our new brain mapping technology! This novel technology is now
BrainMaker®
Automatically align sections to visualize brains in 3DProduct Overview
BrainMaker automatically creates full-resolution 3D reconstructions of the entire brain (or any organ) from serial sections or whole slide images. It allows you to easily view cells, structures, and lesions. Simply load high resolution images of serial sections acquired from a slide scanner or research microscope, then let the software do the work of automatically aligning and reconstructing them.
With just a glance and full anatomical context, you can identify neurons that are expressing a particular gene or visualize axonal projections of specific neurons. Use BrainMaker to assist you with cell mapping, cytoarchitectonics and other areas requiring the characterization of neuronal circuitry to create a comprehensive anatomical reference.
Key Benefits
- Create easy-to-visualize 3D volumes from series of sections
- Control the reconstruction process as much or as little as desired using an intuitive workflow
- Start with almost any whole slide image format; most are supported
- Dynamically visualize reconstructions as a 3D volume, sliced image, or multiple projections
- Save to an open and FAIR file format for easy collaboration
BrainMaker: Key Features
Quantify your data
Use the 3D anatomical reference created with BrainMaker to make measurements within the entire organ, something that was not possible using the serial sections directly. Analyze the size and shape of neuronal structures within the 3D reconstruction using Neurolucida 360. Or assess cell distribution within a lesion using stereology with Stereo Investigator.
Image caption: A rendering of a whole brain volume registered and compiled at full resolution by BrainMaker from coronal mouse brains sections imaged at 10x. Courtesy of Dr. Nuo Li and Dr. Alyse Thomas (Baylor College of Medicine) and Dr. Charles Gerfen (NIMH).
Who Is Using BrainMaker?
BrainMaker is used across the globe by the most prestigious laboratories.
News About BrainMaker
Huron Digital Pathology and MBF Bioscience Partner to Enable Large-scale, Repeatable Whole Slide Imaging Workflows for Life Science Research
MBF Bioscience now offers customized models of Huron Digital Pathology’s TissueScope™, a line of whole slide scanners, and supports TissueScope images
MBF Bioscience unveils whole mouse brain automatic region delineation and cell mapping with the Allen Mouse Brain Reference Atlas
Analyzing cellular populations within specific anatomies in brain images requires expertise in both neuroanatomy and cellular identification. This typically involves
Cited in Peer Reviewed Scientific Publications
BrainMaker’s utility is underscored by the number of references it receives in the worlds most important scientific publications.
Gergues, M. M., K. J. Han, et al.
“Circuit and molecular architecture of a ventral hippocampal network.”View Publication
Lindberg, P. T., J. W. Mitchell, et al.
“Pituitary Adenylate Cyclase-Activating Peptide (PACAP)-Glutamate Co-transmission Drives Circadian Phase-Advancing Responses to Intrinsically Photosensitive Retinal Ganglion Cell Projections by Suprachiasmatic Nucleus.”View Publication
Paletzki, R. and C. R. Gerfen
“Whole Mouse Brain Image Reconstruction from Serial Coronal Sections Using FIJI (ImageJ).”View Publication
Zepecki, J. P., K. M. Snyder, et al.
“Regulation of human glioma cell migration, tumor growth, and stemness gene expression using a Lck targeted inhibitor.”View Publication
Zhang, L., V. S. Hernandez, et al.
"Behavioral role of PACAP signaling reflects its selective distribution in glutamatergic and GABAergic neuronal subpopulations." eLife 10: e61718.View Publication
Weber-Adrian, D., R. H. Kofoed, et al.
“Systemic AAV6-synapsin-GFP administration results in lower liver biodistribution, compared to AAV1&2 and AAV9, with neuronal expression following ultrasound-mediated brain delivery.”View Publication
Frequently Asked Questions (FAQ)
Testimonials
"I rarely have encountered a company so committed to support and troubleshooting as MBF."
"MBF Bioscience is extremely responsive to the needs of scientists and is genuinely interested in helping all of us in science do the best job we can."
"I am so happy to be a customer of your company. I always get great help related with your product or not. With the experienced members, you are the best team I've ever met. All of your staff are very kind and helpful. Thank you for your great help and support all the time."
"We’ve been very happy for many years with MBF products and the course of upgrades and improvements. Your service department is outstanding. I have gotten great help from the staff with the software and hardware."
"Our experience with the MBF equipment and especially the MBF people has been outstanding. I cannot speak any higher about their professionalism and attention for our needs."
"MBF provides excellent technical support and helps you to find the best technical tools for your research challenges on morphometry."
Robust Professional Support
Our service sets us apart, with a team that includes Ph.D. neuroscientists, experts in microscopy, stereology, neuron reconstruction, and image processing. We’ve also developed a host of additional support services, including:
- Forums
We have over 25 active forums where open discussions take place.
>> Learn More - On-Site/Training
We’ve conducted over 750 remote software installations.
>> Learn More - Webinars
We’ve created over 55 webinars that demonstrate our products & their uses.
>> Learn More
Request an Expert Demonstration
We offer both a free demonstration and a free trial copy of BrainMaker. During your demonstration you’ll also have the opportunity to talk to us about your hardware, software, or experimental design questions with our team of Ph.D. neuroscientists and experts in microscopy, neuron tracing, and image processing.
