Computational biophysicist specializing in statistical mechanics methods applied to a wide range of molecular and cellular systems.
Joined June 2021
- Tweets 83
- Following 59
- Followers 911
- Likes 112
1 Photos and videos
Daniel Zuckerman retweeted
16 Jul 2024
Having trouble visualizing your data from WESTPA?
Try WEDAP! A user-friendly plotting package from @darianyang and @ltchong (1/4)
pubs.acs.org/doi/10.1021/acs…
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Daniel Zuckerman retweeted
11 Jul 2024
The Theory and Comp subgroup from Biophysical Society has an early and a mid-career award, apply before August 1! please RT
biophysics.org/awards-fundin…
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13 May 2024
Bayesian inference is vital to interpreting experimental data. Learn the relationship of BI to statistical mechanics including important nuances, and get a ‘sampling’ of modern Monte Carlo methods for BI.
pubs.acs.org/doi/10.1021/acs…
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Daniel Zuckerman retweeted
2 May 2024
1 May 2024
Revisiting Textbook Azide-Clock Reactions: A “Propeller-Crawling” Mechanism Explains Differences in Rates | Journal of the American Chemical Society @ltchong @PittChem @PittTweet #Azide #Clock #PropellerCrawling #Mechanism #Rates pubs.acs.org/doi/10.1021/jac…
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Daniel Zuckerman retweeted
A recent news article in Nature described increasing numbers of editors mass resigning from for-profit journals, a symptom of misalignment of incentives between publishers’ demand for growth and profits, and the academics’ priority of quality, depth: nature.com/articles/d41586-0… 1/n
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Daniel Zuckerman retweeted
26 Mar 2024
Awesome postdoc position alert!! Despite, or because of, being Twitter-less, Ed Lyman is a great mentor, scientist, and human being.
Interested in membrane proteins, simulations, machine learning, physics, evolution, bioinformatics?? Apply!
Check out below 👇👇👇
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Daniel Zuckerman retweeted
New blog post up, on why @livecomsj matters! livecomsjournal.org/index.ph… We're seeing some conventional journals adopting some of our ideas, so it's worth taking a moment to reflect. #compchem
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27 Feb 2024
Nonequilibrium physics rules the world. Here are eight chapters introducing key aspects of nonequilibrium biophysics illustrated with simple examples.
osf.io/9yq2n/
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Daniel Zuckerman retweeted
7 Feb 2024
Register now for the free WESTPA Workshop @Pitt_Chemistry, June 20-21. Explore rare event simulations like protein folding, ligand binding, & chemical reactions with our open-source software. Perfect for those using AMBER, NAMD, GROMACS, etc. Reg info:
forms.gle/6gJF6jJ72iexbDTq8
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Daniel Zuckerman retweeted
And we also have a new suite of tutorials for getting started with the BioSimSpace framework for interoperable biomolecular simulations; this comes with a big set of example notebooks. livecomsjournal.org/index.ph… #compchem
ALT An example network of relative free energy calculations set up with BioSimSpace
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Daniel Zuckerman retweeted
We have a new tutorial out, on absolute binding free energy calculation via a NAMD-based approach, SAFEP. livecomsjournal.org/index.ph…
ALT A thermodynamic cycle for binding free energy calculation
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Daniel Zuckerman retweeted
14 Dec 2023
Possibly of interest to folks in the chemistry publishing/open access area. Does anyone know how download numbers for more traditional journals compare? Personally I haven't seen these types of stats except for preprints, where these seem to compare favorably, but I'm curious.
LiveCoMS article views & downloads are trending up! Here are some stats we just noticed, including total downloads per article. To us, these look like encouraging numbers! #compchem
ALT File downloads over the last year for LiveCoMS
ALT Cumulative abstract and download statistics for some LiveCoMS articles
ALT Cumulative downloads and abstract views for other LiveCoMS articles
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7 Jun 2023
Nominate an outstanding early or mid-career scientist for an award from the Theory & Computation subgroup of the @BiophysicalSoc .
biophysics.org/awards-fundin…
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4 Jun 2023
Great opportunity to expand your skillset and impact!
3 Jun 2023
Looking to do an exciting postdoctoral fellowship in the beautiful Pacific NorthWest? Accepting applications now. Research Training Program: T32 in Integrated Training in Quantitative and Experimental Cancer Systems Biology (ICSB) | OHSU ohsu.edu/school-of-medicine/…
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Daniel Zuckerman retweeted
We have a new issue out! This includes our first "version 2" article, an updated and expanded article dealing with a new version of the WESTPA enhanced sampling package: livecomsjournal.org/index.ph…
Issue: livecomsjournal.org/index.ph…
#compchem
ALT A stylized graphic of some atoms and molecules in a molecular system, along with some water.
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4 May 2023
Statistical mechanics - equil and noneq - can enhance sampling and data analysis. Microscopic mechanisms can be inferred from simple experimental data. Learn how, in one of the most beautiful parts of the world. Postdoc/student, email your suitable background, project ideas.
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23 Mar 2023
Important effort here. How can trainees avoid common (and less common) mistakes?
22 Mar 2023
Have you ever been through a long and meticulous scientific effort to generate a piece of data and been disappointed about its fate of being under-appreciated/otherwise unpublishable? @SJFan48552412, @tugbaoztrk, and I came together to launch the Learning Curve Initiative (LCI)!
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Daniel Zuckerman retweeted
15 Mar 2023
Our editorial on MD simulations presents a checklist for reporting and assessing simulation data and data #reproducibility as a guideline for publishing high quality computational work in the journal: nature.com/articles/s42003-0…
by @lyna_yunluo @jungjin
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Daniel Zuckerman retweeted
12 Dec 2022
The Cell, Developmental & Cancer Biology Summer Research Internship at @OHSUKnight is an opportunity for undergraduates to immerse themselves in research with @OHSUKnight faculty.
Learn more and apply to join us today: spr.ly/6012MLdae
ALT A group photo from CDCB-KCI interns inside the Knight Cancer Research Building in 2022.
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OHSU has a great post-bac program for PEERs - "Persons Excluded because of their Ethnicity or Race". One year of paid, mentored research! Please spread the word to folks who might benefit.
ohsu.edu/postbaccalaureate-r…
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