File Dataset1.tif. 3D EM stack series of an intact Microglia cell in mouse Hippocampus-part1. Single stack file containing the first part of a SBEM (3view-GeminiSEM) generated dataset aligned using ImageJ software (Rasband and Bright 1995, https://imagej.nih.gov/ij/) with the plugin Linear Stack alignment with SIFT (Lowe 2004, https://imagej.net/Linear_Stack_Alignment_with_SIFT). To reduce dataset size and therefore further computation and memory usage, the stack has been binned 2X in xy axis to obtain a final xy resolution of 10x10 nm. Images thickness in z is 25nm. The stack series should be opened together with its model using 3dmod on iMOD software, previously downloaded at http://bio3d.colorado.edu/imod/. Both a Zap and an Information window will be opened. The Information window has the main controls for black and white contrast, and allows for opening the Model View window by clicking on the Image button. The ZaP (Zoom and Pan) window contains the stack with the different color-coded segmented objects, and allows, by using the toolbar, several controls such as zooming in/out and sliding through the sections. In the Model View window objects can be switched on and off using the Edit button and the model can be rotated or edited. Additional features can be found at http://bio3d.colorado.edu/imod/doc/3dmodguide.html.
Files:
Available download options:
Archives and downloads the selected files into an uncompressed zip file.
Depending on the number and size of files to be downloaded, this can take an enormous amount of time.
Also, this feature is unstable and may not work properly, and checksums of downloaded files are not verified.
We recommend using rsync, aspera, globus, etc.
Download a list of selected files.
It is possible to download files by specifying the file list with rsync command, etc.
File Dataset1Model. 3D segmented model of an intact Microglia cell in mouse Hippocampus-part1. The model should be opened together with its stack series using 3dmod on iMOD software, previously downloaded at http://bio3d.colorado.edu/imod/. Both a Zap and an Information window will be opened. In the Model View window objects can be switched on and off using the Edit button and the model can be rotated or edited. Additional features can be found at http://bio3d.colorado.edu/imod/doc/3dmodguide.html.
Files:
Available download options:
Archives and downloads the selected files into an uncompressed zip file.
Depending on the number and size of files to be downloaded, this can take an enormous amount of time.
Also, this feature is unstable and may not work properly, and checksums of downloaded files are not verified.
We recommend using rsync, aspera, globus, etc.
Download a list of selected files.
It is possible to download files by specifying the file list with rsync command, etc.
File Dataset2.tif. 3D EM stack series of an intact Microglia cell in mouse Hippocampus-part2. Single stack file containing the first part of a SBEM (3view-GeminiSEM) generated dataset aligned using ImageJ software (Rasband and Bright 1995, https://imagej.nih.gov/ij/) with the plugin Linear Stack alignment with SIFT (Lowe 2004, https://imagej.net/Linear_Stack_Alignment_with_SIFT). To reduce dataset size and therefore further computation and memory usage, the stack has been binned 2X in xy axis to obtain a final xy resolution of 10x10 nm. Images thickness in z is 25nm. The stack series should be opened together with its model using 3dmod on iMOD software, previously downloaded at http://bio3d.colorado.edu/imod/. Both a Zap and an Information window will be opened. The Information window has the main controls for black and white contrast, and allows for opening the Model View window by clicking on the Image button. The ZaP (Zoom and Pan) window contains the stack with the different color-coded segmented objects, and allows, by using the toolbar, several controls such as zooming in/out and sliding through the sections. In the Model View window objects can be switched on and off using the Edit button and the model can be rotated or edited. Additional features can be found at http://bio3d.colorado.edu/imod/doc/3dmodguide.html.
Files:
Available download options:
Archives and downloads the selected files into an uncompressed zip file.
Depending on the number and size of files to be downloaded, this can take an enormous amount of time.
Also, this feature is unstable and may not work properly, and checksums of downloaded files are not verified.
We recommend using rsync, aspera, globus, etc.
Download a list of selected files.
It is possible to download files by specifying the file list with rsync command, etc.
File Dataset2Model. 3D segmented model of an intact Microglia cell in mouse Hippocampus-part2. The model should be opened together with its stack series using 3dmod on iMOD software, previously downloaded at http://bio3d.colorado.edu/imod/. Both a Zap and an Information window will be opened. In the Model View window objects can be switched on and off using the Edit button and the model can be rotated or edited. Additional features can be found at http://bio3d.colorado.edu/imod/doc/3dmodguide.html.
Files:
Available download options:
Archives and downloads the selected files into an uncompressed zip file.
Depending on the number and size of files to be downloaded, this can take an enormous amount of time.
Also, this feature is unstable and may not work properly, and checksums of downloaded files are not verified.
We recommend using rsync, aspera, globus, etc.
Download a list of selected files.
It is possible to download files by specifying the file list with rsync command, etc.
Archives and downloads the selected files into an uncompressed zip file.
Depending on the number and size of files to be downloaded, this can take an enormous amount of time.
Also, this feature is unstable and may not work properly, and checksums of downloaded files are not verified.
We recommend using rsync, aspera, globus, etc.
Download a list of selected files.
It is possible to download files by specifying the file list with rsync command, etc.
