[3dem] A Request for Micrograph with multiple 3d particle or particle conformations

[rupesh]

Thanks a lot for pointing out to the resources.
But one of the major requirement of the technique our team is using is the 
requirement of picked particles.
I will look in details to the resources suggested but in the few I observed 
the picked particle is missing.
A set of picked and classified particles would help us use the techniques to 
extract the other particles from the micrograph and
classify them with the initial classified classed we will have.

So will it be possible to have small set of picked particle and their class 
assignments for maybe 100 of projections.

Thanks and Regards
Rupesh


On 2020-04-20 23:59, Dmitry Lyumkis wrote:
> If you’re looking for a particularly challenging case, you may want to look 
> at
> this dataset of assembling ribosomal subunits:
> 
> https://urldefense.com/v3/__https://www.ebi.ac.uk/pdbe/emdb/empiar/entry/10076/__;!!Mih3wA!V6DsOkbPkp5bM6XomxT1ySP3Ya2Vlzhi-14V_OVrfdNsjDvLhfscR78RG1nlJz4ECQ$
> 
> There are at least 14 distinct structures there, but I’m sure you can find 
> more.
> 
> Best,
> 
> Dmitry
> 
> Dmitry Lyumkis
> Assistant Professor
> The Salk Institute for Biological Studies
> 10010 North Torrey Pines Road, La Jolla, CA 92037
> T: 858-453-4100 x1155
> E: dlyumkis at salk.edu<mailto:dlyumkis at salk.edu>
> https://urldefense.com/v3/__https://lyumkis.salk.edu__;!!Mih3wA!V6DsOkbPkp5bM6XomxT1ySP3Ya2Vlzhi-14V_OVrfdNsjDvLhfscR78RG1kfPVa5rQ$
> 
> 
> 
> 
> 
> 
> On Apr 20, 2020, at 11:10 AM, Takanori Nakane
> <tnakane at mrc-lmb.cam.ac.uk<mailto:tnakane at mrc-lmb.cam.ac.uk>> wrote:
> 
> Hi,
> 
> How different should it be?
> 
> Different species:
> EMPIAR-10251: mixture of 20S proteasome and TMV
> EMPIAR 10289-10291: innexin hemichannel but contains dimeric full channels 
> as well
> 
> Conformational difference:
> EMPIAR-10180: spliceosome with flexibility
> EMPIAR-10160: spliceosome, even more flexibility
> 
> And there are several ribosome datasets as well.
> 
> Best regards,
> 
> Takanori Nakane
> 
> On 2020/04/20 19:03, rupesh wrote:
> Dear all,
> I have been working on 3D reconstructions from 2d projections obtained by 
> Cryo
> Electron Microscopy, specially dealing with the case when there are multiple
> conformations of the particle in the projections obtained and hence multiple
> 3D structures to be generated.
> I have obtained good classifications results in case of projections obtained
> for different particles from different micrographs, but to test the 
> classifier
> in its full capacity, I need a micrograph which has 2 or more types of 
> picked
> particles, and hence 2 or more 3D structure lying in the set of projections
> that can be obtained.
> Any help or pointers to correct resources will be highly appreciated.
> Regards
> Rupesh
> 4th Year UnderGrad
> Computer Science
> IIT Bombay
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