BorisVSchmid

6 ms·

1.
by BorisVSchmid 4y ago
For the scientific domain there is https://elicit.org/
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by BorisVSchmid 6y ago
You could sign up at https://www.clojuriststogether.org/ They do a pretty good job sponsoring both new-ish and critical projects within the clojure ecosystem
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by BorisVSchmid 7y ago
I can imagine that a dominant hypothesis could play a role in the predictions of future trajectories of climate on earth, but not so much for things like measuring past temperature / sea level rise. To twist the analogy back to Alzheim
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by BorisVSchmid 7y ago
Depending on the complexity of the model it would take me at least a month for a single paper. What makes it fully unbelievable to me is the claim of detecting p-value hacking in many of these 130 papers while doing 3 papers every 2 days. T
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by BorisVSchmid 9y ago
Still using Light Table as my favorite light-weight IDE. I hope things like https://clojuriststogether.org/ or possibly patreon will make clojure open source projects more sustainable for developers.
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by BorisVSchmid 9y ago
Depends on how you mean the question. ancient DNA analysis has settled that the first two plague pandemics were Yersinia pestis, so if your question was on what kind of bacterium caused the Black Death - that is Yersinia pestis. If it is ab
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by BorisVSchmid 9y ago
Paper is online now :-). I also put a popular science summary of the paper online here: https://medium.com/@boris.schmid/human-ectoparasites-and-the...
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by BorisVSchmid 9y ago
Potentially, but I am a bit sceptical. Plague reached a lot of new territory during the third pandemic (for example, australia and the americas), while still having a low mortality. One could check whether native populations to those conti
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by BorisVSchmid 9y ago
Thanks! You might be able to postpone the panicking. Although I haven't looked into head lice (we specifically looked at body lice), this redditor had some links in that head lice apparently are less likely to carry diseases. https:&#
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by BorisVSchmid 9y ago
There were indeed hundreds of outbreaks during those centuries. The outbreaks we selected were the ones for which we could find daily or weekly mortality records, as that gives you an epidemic curve that you can fit mathematical model to. W
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by BorisVSchmid 9y ago
Not a bad first impulse :-). It often pays in science to wait a few years/follow-up studies before fully accepting something. What is thought to be true in plague is especially fluid now with ancient DNA studies on human remains coming
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by BorisVSchmid 9y ago
You are right that there have been people speculating about it for a long time, going back more than a hundred years. Some of the earliest reports are from the time of the Indian Plague Commission, and there have been some snippets of evid
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by BorisVSchmid 9y ago
That indeed could be. We didn't test mixed models of transmission, but we took the first step here by testing all three models independently. Xavier Didelot did some work on testing mixed models for two cities, 17th century Eyam and 19
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by BorisVSchmid 9y ago
The 2017 madagascar one might actually have been a combination of rats and pneumonic plague. But yeah, it is good to pay attention to all possible routes of transmission and see where you can intervene.
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by BorisVSchmid 9y ago
There are some studies that looked at the ectoparasites found during plague outbreaks, but just finding an ectoparasite with plague-infected blood in it doesn't tell you much yet on the importance of the transmission route. Piarroux R,
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by BorisVSchmid 9y ago
Last author here. The paper itself comes out this week on PNAS, but the press embargo is lifted already. When it comes out, you can find it here: http://www.pnas.org/cgi/doi/10.1073/pnas.1715640115 What we ha
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by BorisVSchmid 10y ago
I think right now for clojure, Anglican is the one furthest along. It took me some effort to get into it, with the documentation being a little bit all over the place, but I got it working for me. Do remember that Anglican is a partial lang
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by BorisVSchmid 10y ago
Looks nice! I would suggest to enable import from ORCID. Seems to be the best initiative around to give a unique identifier to scientists. http://orcid.org/0000-0003-0452-623X
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by BorisVSchmid 10y ago
Must be for a strange value of "free", when you see http://www.cdc.gov/measles/cases-outbreaks.html From January 2 to September 10, 2016, 54 people from 16 states (Alabama, Arizona,California, Colorado
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by BorisVSchmid 10y ago
Most infectious diseases in humans are known to have originated from wildlife, so eradicating all current diseases will still leave us with new diseases entering the human population. Current rate at which new diseases establish themselves
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by BorisVSchmid 10y ago
The average length of intact Y. pestis DNA that researchers are capable of extracting from medieval teeth is something in the order of 55 basepairs. To put that into perspective - Y. pestis' main chromosome is a little over 4 million b
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by BorisVSchmid 10y ago
Samuel Pepys was another diary writer at that time. Pretty interesting read, and you can get a quick overview of how much he was occupied by the plague from the following site: https://goldin.shinyapps.io/Search_Pepys/
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by BorisVSchmid 10y ago
I am happy with every new ancient DNA sequence of plague that becomes available. Combined, they can be used to figure out the way the disease spread across Eurasia and persisted in Europe. That said, I would like these news articles to actu
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by BorisVSchmid 10y ago
For those interested, below is the lecture of Krause on that topic, discussing the results in more detail. http://eccmidlive.org/#resources/ancient-pathogen-genomics-w... A big challenge is how to translate the genetic
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by BorisVSchmid 10y ago
Authors can be wrong in interpreting the available (or lack of available) information. According to Ole Benedictow, there is little or no surviving records of plague in Sweden, but I would be curious to know why Larsson and Marklunds interp
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by BorisVSchmid 10y ago
It basically comes down to data availability, and some historian digging through the available archives. For example, Givry is a tiny place somewhere in France, but for which by happenstance the parish registers at the time of the Black Dea
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by BorisVSchmid 10y ago
The Black Death was followed by about 400 years of plague outbreaks in Europe. It also struck the Middle East, Africa, the Caucausus and Russia. It is bloody hard to make a total tally of how many people died by plague. But the Black Death
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by BorisVSchmid 10y ago
Glanced at the abstract, and the amazon reviews. The medieval medical guilds were well aware of the clinical symptoms of the Black Death, so I wonder how Mike Baillie connects the characteristic buboes of the plague with meteor strikes? I e
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by BorisVSchmid 10y ago
That is a valid Frankfurt :-) see https://en.wikipedia.org/wiki/Frankfurt_(Oder) Ran into a lot of examples like that when merging two existing georeferenced datasets of plague outbreaks in Europe. Had to do quite some
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by BorisVSchmid 10y ago
"Published in History TodayVolume 55 Issue 3 March 2005" The article is a bit old, and misses out on the large amount of genetic evidence since then sequenced and analyzed. Cui et al found that the closest living relatives to the

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