[3dem] internal nanogold beads

[Beata Turonova]

Dear Michiel,


yes you can use eTomo for the alignment - the option to split fiducials 
in two surfaces is there for the case the fiducials are sticking to the 
surface which is suboptimal and needs extra care. To have the fiducials 
distributed in the sample is way better for the alignment and works 
nicely in eTomo.

During the finding and erasing of fiducials you get both the 3D 
coordinates within a tomogram as well as 2D coordinates corresponding to 
the aligned tilt series. They are automatically as mod files (with 
extension .fid I believe) in the project folder.


Best,


Beata



On 05/07/2024 10:36, Michiel de Hoon wrote:
> Dear all,
>
> We have generated samples for room-temperature EMT in which specific 
> molecules were labeled with nanogold beads. We have maybe a few 100 
> beads in each image, and it is easy to track them by eye between the 
> images.
>
> We don't have fiducials on the surface of the sample.
>
> Instead, can the embedded nanogold beads be used as fiducials?
>
> If so, can Etomo be used for the alignment? It seems to allow for 
> fiducials on the surface of the sample only.
>
> Also, I assume we should erase the gold from the images before 
> tomogram reconstruction. But is there a way to save the positions of 
> the detected gold beads before erasing them?
>
>
> Thank you,
>
> Michiel.
>
>
>