Imaging Artifact
@imagingartifact.bsky.social
Sharing the good and the bad of electron microscopy and related ❄️🔬Ice crystal hall of fame 🧊🏆 #ElectronMicroscopy #CryoEM #TeamTomo
Here we go again 🙃
Someone please stop the 3DEM auto-reply madness #cryoEM
April 22, 2025 at 5:44 PM
Here we go again 🙃
Reposted by Imaging Artifact
Introducing Extended PDB IDs at RCSB PDB
Search, view, and download all PDB structures using their extended PDB ID.
wwPDB anticipates that all four-character PDB IDs will be exhausted by 2028, after which only 12-character PDB IDs will be issued.
www.rcsb.org/news/fe...
Search, view, and download all PDB structures using their extended PDB ID.
wwPDB anticipates that all four-character PDB IDs will be exhausted by 2028, after which only 12-character PDB IDs will be issued.
www.rcsb.org/news/fe...
Introducing Extended PDB IDs at RCSB.org
Search, view, and download all PDB structures using their extended PDB ID. wwPDB anticipates that all four-character PDB IDs will be exhausted by 2028, after which only 12-character PDB IDs will be issued.
www.rcsb.org
April 21, 2025 at 4:12 PM
Introducing Extended PDB IDs at RCSB PDB
Search, view, and download all PDB structures using their extended PDB ID.
wwPDB anticipates that all four-character PDB IDs will be exhausted by 2028, after which only 12-character PDB IDs will be issued.
www.rcsb.org/news/fe...
Search, view, and download all PDB structures using their extended PDB ID.
wwPDB anticipates that all four-character PDB IDs will be exhausted by 2028, after which only 12-character PDB IDs will be issued.
www.rcsb.org/news/fe...
Reposted by Imaging Artifact
First post here- Hello Bluesky!
Quick science query: These 2D classes are from negative stain of
a FLAG pulldown (HEK cell eluate). Does this look like a real complex or a common contaminant? Would live to hear from anyone who’s worked on similar prep!
#negativestainEM #pulldown #HEKcells
Quick science query: These 2D classes are from negative stain of
a FLAG pulldown (HEK cell eluate). Does this look like a real complex or a common contaminant? Would live to hear from anyone who’s worked on similar prep!
#negativestainEM #pulldown #HEKcells
April 21, 2025 at 7:01 AM
First post here- Hello Bluesky!
Quick science query: These 2D classes are from negative stain of
a FLAG pulldown (HEK cell eluate). Does this look like a real complex or a common contaminant? Would live to hear from anyone who’s worked on similar prep!
#negativestainEM #pulldown #HEKcells
Quick science query: These 2D classes are from negative stain of
a FLAG pulldown (HEK cell eluate). Does this look like a real complex or a common contaminant? Would live to hear from anyone who’s worked on similar prep!
#negativestainEM #pulldown #HEKcells
Reposted by Imaging Artifact
Results from CZII's #cryoET object detection challenge on kaggle are in!
Participation exceeded our expectations with 931 Teams from 76 countries competing, generating over 27,000 submissions. For an overview check out our post-competition page: cryoetdataportal.czscience.com/competition
Participation exceeded our expectations with 931 Teams from 76 countries competing, generating over 27,000 submissions. For an overview check out our post-competition page: cryoetdataportal.czscience.com/competition
March 6, 2025 at 5:14 PM
Results from CZII's #cryoET object detection challenge on kaggle are in!
Participation exceeded our expectations with 931 Teams from 76 countries competing, generating over 27,000 submissions. For an overview check out our post-competition page: cryoetdataportal.czscience.com/competition
Participation exceeded our expectations with 931 Teams from 76 countries competing, generating over 27,000 submissions. For an overview check out our post-competition page: cryoetdataportal.czscience.com/competition
Reposted by Imaging Artifact
Check this out!!! The results from our CryoET particle picking competition are available, the full test data (public and private datasets) is available, and you can dive right into the data on the CZ CryoET Data Portal! Enjoy and please let us know what you think :)
Results from CZII's #cryoET object detection challenge on kaggle are in!
Participation exceeded our expectations with 931 Teams from 76 countries competing, generating over 27,000 submissions. For an overview check out our post-competition page: cryoetdataportal.czscience.com/competition
Participation exceeded our expectations with 931 Teams from 76 countries competing, generating over 27,000 submissions. For an overview check out our post-competition page: cryoetdataportal.czscience.com/competition
March 6, 2025 at 5:18 PM
Check this out!!! The results from our CryoET particle picking competition are available, the full test data (public and private datasets) is available, and you can dive right into the data on the CZ CryoET Data Portal! Enjoy and please let us know what you think :)
Reposted by Imaging Artifact
📢 Registration is now open for the @diamondlightsource.bsky.social Biological Cryo-imaging User Meeting 2025!
📍Join us in Nottingham on April 23, in-person & online. Plus, don’t miss the CCP-EM Spring Symposium (April 24-25)🦠#CryoEM #BCIUM2025
🔗Register here: www.diamond.ac.uk/Home/Events/...
📍Join us in Nottingham on April 23, in-person & online. Plus, don’t miss the CCP-EM Spring Symposium (April 24-25)🦠#CryoEM #BCIUM2025
🔗Register here: www.diamond.ac.uk/Home/Events/...
January 17, 2025 at 3:10 PM
📢 Registration is now open for the @diamondlightsource.bsky.social Biological Cryo-imaging User Meeting 2025!
📍Join us in Nottingham on April 23, in-person & online. Plus, don’t miss the CCP-EM Spring Symposium (April 24-25)🦠#CryoEM #BCIUM2025
🔗Register here: www.diamond.ac.uk/Home/Events/...
📍Join us in Nottingham on April 23, in-person & online. Plus, don’t miss the CCP-EM Spring Symposium (April 24-25)🦠#CryoEM #BCIUM2025
🔗Register here: www.diamond.ac.uk/Home/Events/...
Reposted by Imaging Artifact
The microscope comparison datasets (Glacios vs. Krios, EF vs. no EF) from our high-resolution/high-throughput #cryoEM SBDD workflow project (the one with more than a dozen ligand-bound 2 Å structures of an 85 kDa complex) have been released on EMPIAR:
www.ebi.ac.uk/empiar/EMPIA...
www.ebi.ac.uk/empiar/EMPIA...
EMPIAR-11821 Cryo-EM of human CAK: Microscope comparisons
EMPIAR, the Electron Microscopy Public Image Archive centered at EMBL-EBI, is a public resource for raw electron
microscopy images related to EMDB, contains micrographs, particle sets and tilt-ser...
www.ebi.ac.uk
December 12, 2024 at 10:07 AM
The microscope comparison datasets (Glacios vs. Krios, EF vs. no EF) from our high-resolution/high-throughput #cryoEM SBDD workflow project (the one with more than a dozen ligand-bound 2 Å structures of an 85 kDa complex) have been released on EMPIAR:
www.ebi.ac.uk/empiar/EMPIA...
www.ebi.ac.uk/empiar/EMPIA...
Reposted by Imaging Artifact
December 12, 2024 at 11:02 AM
Reposted by Imaging Artifact
Was thinking about RELION5's new coordinate system and came to a realization... Was the switch to a centered coordinate system done to make sure that the coordinates of a particle are applicable to reconstructed tomograms of any size? #teamtomo
December 10, 2024 at 6:49 PM
Was thinking about RELION5's new coordinate system and came to a realization... Was the switch to a centered coordinate system done to make sure that the coordinates of a particle are applicable to reconstructed tomograms of any size? #teamtomo
Reposted by Imaging Artifact
For the #ML and #CryoET folks out there:
Are folks on here submitting to the CZII CryoET Object Identification competition: www.kaggle.com/competitions... ?
The leaderboard is really interesting, and the forums are full of insights.
How many of the latest picking models have been submitted?
Are folks on here submitting to the CZII CryoET Object Identification competition: www.kaggle.com/competitions... ?
The leaderboard is really interesting, and the forums are full of insights.
How many of the latest picking models have been submitted?
CZII - CryoET Object Identification
Find small biological structures in large 3D volumes
www.kaggle.com
December 8, 2024 at 5:18 PM
For the #ML and #CryoET folks out there:
Are folks on here submitting to the CZII CryoET Object Identification competition: www.kaggle.com/competitions... ?
The leaderboard is really interesting, and the forums are full of insights.
How many of the latest picking models have been submitted?
Are folks on here submitting to the CZII CryoET Object Identification competition: www.kaggle.com/competitions... ?
The leaderboard is really interesting, and the forums are full of insights.
How many of the latest picking models have been submitted?
Reposted by Imaging Artifact
We received our TFS Arctis this past weekend. This #cryoEM instrument is part of our initiative to expand the #cryoET biomedical research capabilities at the center.
SEMC/NYSBC - Providing expertise and resources for understanding both molecular and cellular structures.
Find out more at: nysbc.org
SEMC/NYSBC - Providing expertise and resources for understanding both molecular and cellular structures.
Find out more at: nysbc.org
December 9, 2024 at 11:52 PM
Reposted by Imaging Artifact
The underlying theory (in Fourier space) isn't too far away from that of crystallography. Hopefully the #relion tutorial and the #cryoEM video lectures at @mrclmb.bsky.social's YouTube channel will help too. 🤗
3 hours for an experienced electron microscopist to teach experienced crystallographers how to use RELION... this should be a wild ride!
a man in a purple sweater says buckle up on snl
ALT: a man in a purple sweater says buckle up on snl
media.tenor.com
December 7, 2024 at 8:29 AM
The underlying theory (in Fourier space) isn't too far away from that of crystallography. Hopefully the #relion tutorial and the #cryoEM video lectures at @mrclmb.bsky.social's YouTube channel will help too. 🤗
Reposted by Imaging Artifact
I'm going to run an intensive "boot camp" called "Practical Cryo-EM" where we learn how to freeze grids, align microscopes, collect images, and do 3D reconstruction and stuff. January 13-17
December 5, 2024 at 2:31 AM
I'm going to run an intensive "boot camp" called "Practical Cryo-EM" where we learn how to freeze grids, align microscopes, collect images, and do 3D reconstruction and stuff. January 13-17
Reposted by Imaging Artifact
Greatly enjoying our ongoing #cryoET adventures. My new favourite way to procrastinate from administrative tasks is to play I spy with @bobcoelingh.bsky.social's recent data set! 👀
Here's an easy one! 👇
Here's an easy one! 👇
November 30, 2024 at 11:09 AM
Greatly enjoying our ongoing #cryoET adventures. My new favourite way to procrastinate from administrative tasks is to play I spy with @bobcoelingh.bsky.social's recent data set! 👀
Here's an easy one! 👇
Here's an easy one! 👇
December 5, 2024 at 2:57 PM
Reposted by Imaging Artifact
#TeamTomo What is the most user-friendly template matching software for cryo-ET with samples with rather low complexity? Can't do Warp now without Windows machine.
December 4, 2024 at 3:54 AM
#TeamTomo What is the most user-friendly template matching software for cryo-ET with samples with rather low complexity? Can't do Warp now without Windows machine.
Reposted by Imaging Artifact
My first contribution to #TeamTomo . Script to help visualize the subtomogram orientations from #Relion star file inside its tomogram using ChimeraX. Thanks to @AlisterBurt for eulerangles & starfile module.
github.com/builab/subtomo…
github.com/builab/subtomo…
December 4, 2024 at 3:54 AM
My first contribution to #TeamTomo . Script to help visualize the subtomogram orientations from #Relion star file inside its tomogram using ChimeraX. Thanks to @AlisterBurt for eulerangles & starfile module.
github.com/builab/subtomo…
github.com/builab/subtomo…
Reposted by Imaging Artifact
FYI: Thanks to @cellarchlab.com's awesome open science practices, this data is available on the CZ cryoET data portal (dataset 10008) and @ebi.embl.org's EMPIAR (11058)! You can check out the tomograms in your browser here: cryoetdataportal.czscience.com/datasets/10008
November 24, 2024 at 5:18 PM
FYI: Thanks to @cellarchlab.com's awesome open science practices, this data is available on the CZ cryoET data portal (dataset 10008) and @ebi.embl.org's EMPIAR (11058)! You can check out the tomograms in your browser here: cryoetdataportal.czscience.com/datasets/10008
Reposted by Imaging Artifact
Some #cryoEM people: The cup can only ever be 2/3 full!
Optimist: The cup is half full
Pessimist: The cup is half empty
Referee 1: Yeah, cups are fine, but can you do it with jars, mugs & glasses?
Referee 2: You need to cite these 12 papers showing how to fill things (all ref. 2’s papers)
Referee 3: You misspelled ‘container’ on page 6
Pessimist: The cup is half empty
Referee 1: Yeah, cups are fine, but can you do it with jars, mugs & glasses?
Referee 2: You need to cite these 12 papers showing how to fill things (all ref. 2’s papers)
Referee 3: You misspelled ‘container’ on page 6
Optimist: The cup is half full.
Pessimist: The cup is half empty.
Chemist: Why are we using Imperial measurements instead of metric?
Pessimist: The cup is half empty.
Chemist: Why are we using Imperial measurements instead of metric?
November 25, 2024 at 7:42 AM
Some #cryoEM people: The cup can only ever be 2/3 full!