Author Archives: Dan Gezelter

Great OpenScience news today

Lots of fantastic OpenScience happenings in the news today: The G8 Science ministers support open data in science with one of the strongest statements I’ve seen: “To the greatest extent and with the fewest constraints possible publicly funded scientific research … Continue reading

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Playing with MultiGraph

I’ve been playing around with a cool JavaScript library called MultiGraph which lets you interact with graphical data embedded in a blog post.   The data format is a simple little xml file called a “MUGL“.   Here’s a sample … Continue reading

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SimThyr – simulation software for pituitary thyroid feedback

This is a bit outside our normal area of expertise, but it looks interesting. Thyroid hormones play an important role in metabolism, growth and differentiation. Therefore, exact regulation of thyroid hormone levels is vital for most organisms. The mechanism for the feedback … Continue reading

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Not a kickstarter for science, a prize clearinghouse

Yesterday’s post on the reversible random number generators received some interesting reactions from my colleagues.  They were uniformly impressed with the solution to what everyone thought was a hard problem, but surprisingly, most of the scientists I talked to were … Continue reading

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Reversible Random Number Generators

This news comes by way of John Parkhill, my new colleague here at Notre Dame. William G. Hoover (of the Nosé-Hoover Thermostat) and Carol G. Hoover issued a $500 challenge on arXiv to generate a time-reversible random number generator.  The … Continue reading

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Relax – Molecular dynamics by NMR data analysis

Edward d’Auvergne pointed out the relax program, which looks like a useful way to connect experimental NMR spectra with molecular dynamics simulations. relax is designed for the study of molecular dynamics of organic molecules, proteins, RNA, DNA, sugars, and other … Continue reading

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The Tyranny of Pi day

March 14th is -day in the US (and perhaps day in Europe). The idea of a day devoted to celebrating an important irrational number is wonderful — I’d love to see schools celebrate e-day as well, but February 71st isn’t on … Continue reading

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Fantastic news on the Open Access front

The White House just posted a new policy memorandum in response to the Open Access petition:  Expanding Public Access to the Results of Federally Funded Research.   This is great news for Open Science!

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Do.abl.es

Do you want to know how to measure DNA contour lengths using ImageJ?  Perhaps you want to stain a C. Elegans embryo for imaging?  Or possibly, you might want to test whether or not you have gotten an immune response using ELISA? Martin … Continue reading

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The Up-Goer Five Research Challenge

I thought this was silly at first, but after struggling to do it for my own research, I now think it can be a profound exercise that scientists should attempt before writing their NSF broader impact statements. Here’s the challenge: … Continue reading

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