Reminder to register for an upcoming in-person #CryoSPARC workshop in Toronto, delivered by @sickkidsto.bsky.social and the #CryoSPARC team, in partnership with the Canadian #CryoEM Nexus!
Deadline fast approaching!
Very excited for this in-person #CryoSPARC workshop in partnership with @sickkidsto.bsky.social and the Canadian #CryoEM Nexus! Register today!
11/ And finally, v5 connects the #CryoSPARC app with all of the detailed documentation (guide.cryosparc.com) that our team produces, with embedded docs links throughout the interface!
🚀 CryoSPARC v5.0 BETA is here!
We’re excited to deploy another major #CryoSPARC release to help enable and accelerate #cryoEM data analysis. v5 has a redesigned underlying software system and many new features - highlights in thread!
Full changelog: cryosparc.com/updates/v5.0.0
🚀 Hiring: Cryo-EM Application Scientist, Marketing!
Develop and deliver high-impact scientific marketing content, illustrate the value of new #CryoSPARC features and #cryoEM advances, and help scientists understand how our tools can help solve their problems.
structura.bio/careers/appl...
On a gruelling hunt for rare associated molecules in your #cryoEM particle stack and not sure where to look?
Discover practical tips and tricks in our new case study using #CryoSPARC v4.7.1 where we find and refine a low-population interaction partner!
guide.cryosparc.com/processing-d...
The automated workflow generalizes easily to new target classes.
We provide downloadable #CryoSPARC Workflow JSON files so that users can replicate, adapt and extend it for their own targets. All required jobs and tools are already available in v4.7.1+.
🚀 Introducing fully automated data processing for repeat-target #cryoEM.
Using new tools in #CryoSPARC, it is now possible to obtain resolutions & map quality equal to or better than manual processing, with zero user intervention.
Preprint: www.biorxiv.org/content/10.1...
Below (by @landerlab.bsky.social) is the 2nd #cryosparc recipe on @biorxivpreprint.bsky.social in a month. I remain worried about closed-source software affecting progress in #cryoEM. We should develop new algorithms instead!
#OpenSoftwareAcceleratesScience
www.biorxiv.org/content/10.1...
Very poor reviewing by @science.org Advances. Also, I'm not sure how #cryosparc can think this is 3.3A, but perhaps the authors did something they shouldn't do when "structure analysis was followed by the CryoSPARC-based helical reconstruction approach we previously developed"
Advanced #cryoEM workflows are easy in #CryoSPARC: use the Low-Level Results Interface to combine upstream extracted particles with downstream pose and CTF information, use a volume result from an intermediate iteration of a refinement to create a mask, and more! guide.cryosparc.com/application-...
Flexibility can be frustrating when processing a #cryoEM dataset. If your target has a wobbly domain, check out our new case study on FaNaC1 for continuous heterogeneity tips in #CryoSPARC!
guide.cryosparc.com/processing-d...
Working with symmetric or pseudosymmetric particles in #cryoEM?
This TRPV5 and CaM case study includes practical considerations for using symmetry relaxation and 3D classification when analyzing a pseudosymmetric particle in #CryoSPARC!
Looking for a deep dive into 2D classification in #cryoEM?
These recent guide pages cover practical aspects & parameter choices when running these jobs in #CryoSPARC, along with the theory behind expectation maximization: guide.cryosparc.com/processing-d... and guide.cryosparc.com/expectation-...
Grappling with poorly-resolved ligand binding sites in #cryoEM maps?
Check out our new case study on a peptide ligand-bound GPCR showing how practical tips and features in #CryoSPARC v4.7 improve locally refined map quality and reveal clearer ligand density!
guide.cryosparc.com/processing-d...
Photo of workshop attendees standing on the Harvard Quad green in front of Gordon Hall, large stone columned building
11th NIH R25 Train the Trainer SBGrid Consortium workshop at @harvardmed.bsky.social-this one specifically for the #CryoEM Facility leaders. #RELION & #CryoSPARC in @amazonwebservices.bsky.social (AWS) cloud environment. Melissa Chambers & Daniel Stoddard will co-lead the new CryoACCESS initiative.
Are you new to #CryoEM, or looking for a review of the basics?
You might enjoy our TRPV1 case study! It covers preprocessing, particle curation, refinement, and more! You can also test your skills with the advanced exercises at the end of the study.
guide.cryosparc.com/processing-d...
#CryoSPARC
#CryoSPARC v4.7 is out! 🚀
Featuring a new automatic Micrograph Junk Detector that labels and rejects contaminants, new tools for curating subsets of particles, performance and stability fixes, and more!
Full changelog: cryosparc.com/updates
#cryoEM
7) This was an exciting study led by Sarah Narehood in collaboration with Suppachai Srisantitham, Vanessa Eng, Angela Shiau, Kelly McGuire, David Britt. #cryoEM #cryoSPARC #Nitrogenase #HerizkLab @nature.com @sptlabtech.bsky.social @structurabio.bsky.social #UCSDChemBioChem #anaerobicEM
1/ A new series of #CryoSPARC tutorial videos from this year’s S2C2 #cryoEM image processing workshop are now online! These videos will be interesting to all users and especially those newer to #cryoEM.
www.youtube.com/playlist?lis...
Looking for a primer on why the contrast transfer function matters in #cryoEM?
Have a look at our updated #CryoSPARC Guide pages on CTF estimation! We cover intuition, theory, job types and practical considerations: guide.cryosparc.com/processing-d...
The Structura logo. 7-fold symmetric shape on a purple background.
@structurabio.bsky.social is now on Bluesky!
Follow for the latest news on #cryoSPARC
#cryoEM
We are struggling with a #cryoSPARC problem: 2D classifications run fine at first (with 1-2 min/iteration) but slow down to 10-60 min/iteration after several dozen iterations. IIRC, this did not happen with older versions, but is now a serious issue with our workflow. Thoughts?
In #cryoSPARC live, I sometimes get entirely black images after motion correction, with ridiculous total shifts (as in sextillions of Å) that mess up the thresholding/selection tool. Is there a good solution to this (other than manually hunting down/deleting bad movies)? #cryoEM
After day 1 of #cryoSPARC demo by @a_punjani - very impressed. Looking forward to running jobs tomorrow. #cryoEM
