Neuroscience
If BrainMaps.org is like Google Maps for the Brain, StackVis is Google Earth for the Brain. Welcome to StackVis, a 3D viewer of neuroanatomical sections.
Figure Caption. The development of additional desktop application tools for interacting with brainmaps.org image and database data includes the one shown here, StackVis, which is a 3D viewer of neuroanatomical virtual slide image stacks that is integrated with high resolution viewing of and interaction with individual sections comprising the image stack. (A) horizontal image stack of nissls of the macaque brain viewed from below. (B) same image stack as in (A) but from a different perspective, with increased inter-section spacing, and with areal and nuclear labels. (C) coronal image stack of nissls of the mouse brain. (D) a section from (C) viewed at higher resolution. (E) coronal image stack of acetylcholinesterase reacted sections of the mouse brain. (F) sagittal image stack of the mouse brain reacted for biotinylated dextran amine (BDA) following an injection in frontal cortex. Note that labeled fibers can be followed within the image stack due to section transparency and that individually labeled subcortical structures can be discerned, allowing for an assessment of labeled fiber pathways and areas within a 3D framework. In addition, StackVis features automated section registration and edge detection capabilities.
Figure Caption. Viewing the Visible Male using StackVis. The sections are axial, and are arranged in this figure so that the brain is located at the top and the legs are located at the bottom of the image stack.
- The Brain Maps Api
BrainMaps.org has recently implemented a new AJAX-enabled multiresolution image viewer. Though a bit skimpy on functionality compared to the heavy-weight Flash viewers, it is snappy fast, uses very little memory, and in principle, allows for better...
- Synapse Resolution Whole-brain Atlases
It is well-known that the highest resolution whole brain atlases are currently at BrainMaps.org, which has been compared to a Google Maps for the brain. However, these atlases are 0.46 microns per pixel, and are not sufficient to discern individual synapses,...
- Collaborative Digital Brain Mapping Comes Of Age
Google Maps and related geomapping services provide high-resolution satellite maps to anyone with an internet connection and have set the standard for online digital mapping. We are now beginning to witness similar digital mapping technologies spilling...
- Beyond Brainmaps.org
As the principal architect of BrainMaps.org, starting with its public launch on May 17, 2005, and ending with my (literally) moving onto new vistas in June, 2009, I can say that it has been an exciting and worthwhile journey. The community of active data...
- Brainmaps.org Featured On The Cover Of Neuroimage
- Shawn Mikula BrainMaps.org was featured on the March 15, 2007, cover of NeuroImage for the article entitled, "Internet-Enabled High-Resolution Brain Mapping and Virtual Microscopy". This is only the beginning. BrainMaps.org is far more than a cool...
Neuroscience
Google Earth for the Brain
If BrainMaps.org is like Google Maps for the Brain, StackVis is Google Earth for the Brain. Welcome to StackVis, a 3D viewer of neuroanatomical sections.
Figure Caption. The development of additional desktop application tools for interacting with brainmaps.org image and database data includes the one shown here, StackVis, which is a 3D viewer of neuroanatomical virtual slide image stacks that is integrated with high resolution viewing of and interaction with individual sections comprising the image stack. (A) horizontal image stack of nissls of the macaque brain viewed from below. (B) same image stack as in (A) but from a different perspective, with increased inter-section spacing, and with areal and nuclear labels. (C) coronal image stack of nissls of the mouse brain. (D) a section from (C) viewed at higher resolution. (E) coronal image stack of acetylcholinesterase reacted sections of the mouse brain. (F) sagittal image stack of the mouse brain reacted for biotinylated dextran amine (BDA) following an injection in frontal cortex. Note that labeled fibers can be followed within the image stack due to section transparency and that individually labeled subcortical structures can be discerned, allowing for an assessment of labeled fiber pathways and areas within a 3D framework. In addition, StackVis features automated section registration and edge detection capabilities.Figure Caption. Viewing the Visible Male using StackVis. The sections are axial, and are arranged in this figure so that the brain is located at the top and the legs are located at the bottom of the image stack.
- The Brain Maps Api
BrainMaps.org has recently implemented a new AJAX-enabled multiresolution image viewer. Though a bit skimpy on functionality compared to the heavy-weight Flash viewers, it is snappy fast, uses very little memory, and in principle, allows for better...
- Synapse Resolution Whole-brain Atlases
It is well-known that the highest resolution whole brain atlases are currently at BrainMaps.org, which has been compared to a Google Maps for the brain. However, these atlases are 0.46 microns per pixel, and are not sufficient to discern individual synapses,...
- Collaborative Digital Brain Mapping Comes Of Age
Google Maps and related geomapping services provide high-resolution satellite maps to anyone with an internet connection and have set the standard for online digital mapping. We are now beginning to witness similar digital mapping technologies spilling...
- Beyond Brainmaps.org
As the principal architect of BrainMaps.org, starting with its public launch on May 17, 2005, and ending with my (literally) moving onto new vistas in June, 2009, I can say that it has been an exciting and worthwhile journey. The community of active data...
- Brainmaps.org Featured On The Cover Of Neuroimage
- Shawn Mikula BrainMaps.org was featured on the March 15, 2007, cover of NeuroImage for the article entitled, "Internet-Enabled High-Resolution Brain Mapping and Virtual Microscopy". This is only the beginning. BrainMaps.org is far more than a cool...