Bush Lab
@bushlab.bsky.social
100 followers 77 following 23 posts
The Bush Lab is a research group at the University of Washington in Seattle. We advance mass spectrometry for biophysics and structural biology. https://biophysicalms.org/
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bushlab.bsky.social
Concur! Parquet is great. We've been impressed using Parquet for other projects, including integrating results from many ion mobility experiments, where we need to track and index lots of metadata, and logging ion trajectory simulations, where we need compression, read speed, and durability.
willfondrie.com
I'm a huge fan of this proposal!

If we can get vendor buy-in to an open, common format, it could bring more computational folks into the field. How can these folks be excited about #proteomics when its hard to even read the already complicated data?

pubs.acs.org/doi/10.1021/...
mzPeak: Designing a Scalable, Interoperable, and Future-Ready Mass Spectrometry Data Format
Advances in mass spectrometry (MS) instrumentation, including higher resolution, faster scan speeds, and improved sensitivity, have dramatically increased the data volume and complexity. The adoption of imaging and ion mobility further amplifies these challenges in proteomics, metabolomics, and lipidomics. Current open formats such as mzML and imzML struggle to keep pace due to large file sizes, slow data access, and limited metadata support. Vendor-specific formats offer faster access but lack interoperability and long-term archival guarantees. We here lay the groundwork for mzPeak, a next-generation community data format designed to address these challenges and support high-throughput, multidimensional MS workflows. By adopting a hybrid model that combines efficient binary storage for numerical data and both human- and machine-readable metadata storage, mzPeak will reduce file sizes, accelerate data access, and offer a scalable, adaptable solution for evolving MS technologies. For researchers, mzPeak will support complex workflows and regulatory compliance through faster access, improved metadata, and interoperability. For vendors, it offers a streamlined, open alternative to proprietary formats. mzPeak aims to become a cornerstone of MS data management, enabling sustainable, high-performance solutions for future data types and fostering collaboration across the mass spectrometry community.
pubs.acs.org
bushlab.bsky.social
Calculating the COM collision energy under those conditions sounds like a great question for a problem set! Thanks for sharing.
bushlab.bsky.social
Congratulations to AnneClaire Wageman, Addison Roush, and Bruce Feng! SLIMPHONY is enabling exciting new research that we look forward to reporting in the months and years ahead.
bushlab.bsky.social
Excited to share a new paper! SLIMPHONY uses eight independently controlled traveling-wave regions that work in concert to select and activate ions in multiple regions, to vary the number of dimensions of ion mobility, and to control the length of ion mobility separations. doi.org/10.1021/jasm...
bushlab.bsky.social
A fuse or breaker on the instrument should pop before the breaker in the panel. None of these systems are infallible, so the breaker mitigates worst case scenarios (eg, electrical fire). I have run systems as you are proposing (15A system on 20A or 30A circuit), but I try to correct that situation.
bushlab.bsky.social
A mass spectrometer should be on its own circuit (i.e., a dedicated breaker). Swapping to a lower amp breaker on an existing circuit is easy (say 2-5 minutes), but usually requires powering off the entire panel. If you have the electrician save the original breaker, also easy to revert.
bushlab.bsky.social
I think it is worth having an electrician swap out the 30 A breaker for a 15 A breaker. Should be very low cost (<$100, even at university). If something goes really wrong (bearings sieze on pump, arcing on control board), the correct breaker will help manage the severity).
bushlab.bsky.social
In USA, another aspect is single phase versus three phase for 208 V.
bushlab.bsky.social
Sadly, the NSF MRI program is not accepting proposals this year. Hopefully this is only a one-year interruption to this program, which is critical to building the infrastructure to train scientist and engineers in the United States. www.nsf.gov/funding/oppo... | www.nsf.gov/funding/oppo...
www.nsf.gov
bushlab.bsky.social
Track records for using and sustaining instruments are evaluated carefully during proposal review. The program seeks to support long-term, stable, and sustainable instruments for research. A major concern is the possibility of instruments falling out of operation after initial service contract.
bushlab.bsky.social
Interested in acquiring mass spectrometers through the NSF MRI program? @jaygforsythe.bsky.social greatly strengthened his proposal by reporting heavy use of a functionally obsolete system (RIP Voyager) that he sustained by "replac[ing] a few parts (turbo pump, ion gauges, vacuum control box)."
bushlab.bsky.social
Great perspective on starting and sustaining a career at a primarily undergraduate institution (PUI) with research using instrumentation. Thanks for writing this, @jaygforsythe.bsky.social
jaygforsythe.bsky.social
I wrote a perspective article in JASMS about my experiences at a primarily undergraduate institution and how to develop a research and teaching program in mass spectrometry — I hope people find it useful!

(PS there are some great PUI job postings in chemistry for 2026)

pubs.acs.org/doi/10.1021/...
Developing a Mass Spectrometry-Based Research and Teaching Program at a Primarily Undergraduate Institution
Primarily undergraduate institutions (PUIs) play critical roles in the higher education framework of the United States. In this Perspective, considerations for establishing a mass spectrometry (MS)-ba...
pubs.acs.org
Reposted by Bush Lab
hansonmark.bsky.social
The "reproducibility crisis" in science constantly makes headlines. Repro efforts are often limited. What if you could assess reproducibility of an entire field?

That's what @brunolemaitre.bsky.social et al. have done. Fly immunity is highly replicable & offers lessons for #metascience

A 🧵 1/n
Reposted by Bush Lab
Reposted by Bush Lab
jaygforsythe.bsky.social
Breaks my heart. I have also benefited greatly from the NSF MRI program — it is, without question, the best way for PUI chemists like me to get new instruments. Our schools can’t afford big startup or retention packages.
fitzkeelab.bsky.social
As someone who has greatly benefited from the NSF MRI program, I'm sad to see that the 2025 submission window was canceled. www.nsf.gov/funding/oppo...
Major Research Instrumentation (MRI) Program:
www.nsf.gov
bushlab.bsky.social
Thanks to @lingjun2025.bsky.social, @joelooucla.bsky.social, and all the other speakers. Such a nice end to the conference!
joelooucla.bsky.social
Fun last day session at #ASMS2025 organized by @lingjun2025.bsky.social on Fundamentals of Native MS. Hopefully for #ASMS2026 we’ll start a tradition of a final toast after the last Thursday PM oral sessions.
bushlab.bsky.social
Thanks for reporting this tragic story.
bushlab.bsky.social
Congratulations!
bushlab.bsky.social
Congratulations!
bushlab.bsky.social
The times we live in. The National Institute of Justice has taken down their webpages describing radiocarbon dating, which describes the use of carbon dating in forensics. I planned to link to in my Instrumental Analysis class.
bushlab.bsky.social
Congratulations, Julia! A well-deserved honor!
Reposted by Bush Lab
jonlambert.bsky.social
NEW: NSF confirmed that they fired 168 employees today, out of their staff of ~1,500 feds.

This includes some people who'd finished their 1-year probationary periods, which were extended to 2-years last month without explanation. More to come.
bushlab.bsky.social
UW Chemistry just finished our open house for prospective PhD students, during which we hosted so many awesome people. A special thanks to current students, like AnneClaire Wageman and Addison Roush, for sharing their research and experiences.
AnneClaire Wageman describing the ion mobility mass spectrometry instrument that she developed to prospective PhD students.