Jon Bang Ploug

Jon Bang Ploug

@jonploug.bsky.social

Historian. Studying historical epidemics & pathology collections at Roskilde University and PandemiX (Center of Excellence) in Denmark.

162 followers130 following679 posts

1/ I’ve made Archive Studio for Mac available on GitHub. It is a community macOS adaptation of Mark Humphries and Lianne C. Leddy’s Archive Studio, built for historians, archivists, and humanities researchers working with historical documents. #DigitalHumanities github.com/JonBangPloug...

github.comGitHub - JonBangPloug/Archive_Studio_for_Mac: Frontier archival processing of historical documents with AI (Mac version)Frontier archival processing of historical documents with AI (Mac version) - JonBangPloug/Archive_Studio_for_Mac
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6/ The app is local-first in the practical sense: project folders, images, transcriptions, translations, logs, and exports stay on your computer. When you run AI tasks, the relevant images/text are sent to the API provider you choose.

1/ I’ve made Archive Studio for Mac available on GitHub. It is a community macOS adaptation of Mark Humphries and Lianne C. Leddy’s Archive Studio, built for historians, archivists, and humanities researchers working with historical documents. #DigitalHumanities github.com/JonBangPloug...

github.comGitHub - JonBangPloug/Archive_Studio_for_Mac: Frontier archival processing of historical documents with AI (Mac version)Frontier archival processing of historical documents with AI (Mac version) - JonBangPloug/Archive_Studio_for_Mac
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3/ Mark Humphries and Lianne C. Leddy have been testing Gemini 3 Pro on historical handwriting, and the results suggest that general multimodal LLMs are now reaching a level where handwritten transcription can be genuinely useful out of the box.

4/ This is not just “better OCR.” For historians, it changes the workflow: photographed archival pages can become usable text much faster, so more time can be spent checking, correcting, interpreting, and analysing rather than manually typing everything.

1/ I’ve made Archive Studio for Mac available on GitHub. It is a community macOS adaptation of Mark Humphries and Lianne C. Leddy’s Archive Studio, built for historians, archivists, and humanities researchers working with historical documents. #DigitalHumanities github.com/JonBangPloug...

github.comGitHub - JonBangPloug/Archive_Studio_for_Mac: Frontier archival processing of historical documents with AI (Mac version)Frontier archival processing of historical documents with AI (Mac version) - JonBangPloug/Archive_Studio_for_Mac

2/ The app lets you create local projects from images or PDFs, run AI-assisted transcription/OCR/HTR with Gemini, OpenAI, or Claude, correct the text against the image, translate it, and export to TXT, Markdown, CSV, JSON, or JSONL.

Jon Bang Ploug reposted

Excited to share our work on #AncientRNA from alcohol-preserved lungs, recovering the oldest human RNA virus genome (an 18th-century rhinovirus). Our study shows that viral RNA remnants persist in centuries-old tissue, opening new ways to study virus evolution and historical disease #Paleovirology🫁🦠

biorxiv.orgbiorxiv.org

Between 1904 and 1907, approximately two million people are estimated to have died of plague in northern India. Despite this extraordinary scale, the episode has never been narrated as a historical catastrophe, surviving instead almost exclusively in statistical series and technical reports.

At a recent presentation, I argued (with a bioinformatician) that smallpox virulence likely declined around 1600, an argument already well described by the historians Carmichael and Silverstein. A historian at the presentation dismissed my use of sources from different periods as “cherry-picking.”

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Most bizarrely, this logic undercuts decades of historical epidemiology. Carmichael and Silverstein become “naïve” simply for doing what historians have always done: reconstruct change across time.

At a recent presentation, I argued (with a bioinformatician) that smallpox virulence likely declined around 1600, an argument already well described by the historians Carmichael and Silverstein. A historian at the presentation dismissed my use of sources from different periods as “cherry-picking.”

Jon Bang Ploug reposted

🦠 Nipah outbreak Nipah virus outbreaks have high fatality rates, in the 40-70% range. The latest outbreak is in eastern India. Five cases are reported, and 100 people are under quarantine. Several Asian countries are reported to be stepping up alertness. 1/2

slguardian.orgThailand Begins Airport Screening as Nipah Virus Outbreak Spreads in IndiaThailand’s Ministry of Public Health has begun screening air passengers arriving from India for signs of Nipah virus infection, following reports of a cluster of cases in India’s eastern state...

Jon Bang Ploug reposted

Folklore experts: I need help visualizing a portent from an Icelandic Annal: A man sees a "strange sheep" that is spotted and shaped like a "gaflkæna" (a small boat with a flat stern?). Text says: "...with a long snout in front and short/blunt behind; it came up after him in the wake of his boat."

I often use documentaries by BBC and others to help bring the past to life for my students. The catch is that you can't make them yourself to fit the exact subject you're teaching. That’s where AI tools could be helpful. They offer infinite customization. Here I had some fun with Nano Banana Pro.

It will be challenging to counter a new pandemic influenza strain that spreads through a population like wildfire if our health authorities keep insisting that it is transmitted solely via large droplets. Unfortunately, this is the stance that all health authorities are taking now.

Adam Kucharski@adamjkucharski.bsky.social

The UK isn’t prepared for the next pandemic – and nor are many other countries. kucharski.substack.com/p/we-arent-p...

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Why are we still too good-mannered to say this loud? Aren't the stakes too high for niceties and for ignoring the fact that we have a completely wrong understanding of how best to protect ourselves against influenza, caused by an outdated paradigm?

It will be challenging to counter a new pandemic influenza strain that spreads through a population like wildfire if our health authorities keep insisting that it is transmitted solely via large droplets. Unfortunately, this is the stance that all health authorities are taking now.

Adam Kucharski@adamjkucharski.bsky.social

The UK isn’t prepared for the next pandemic – and nor are many other countries. kucharski.substack.com/p/we-arent-p...

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However, when a new strain of the virus emerges and immunity is lacking, the virus's airborne nature becomes much more evident. Relying on measures like coughing into your elbow and washing your hands will then be entirely useless.

Looking back five years, we faced a similar situation where medical professionals were evidently more concerned about having to revise dogma and their teachings than about effectively addressing a pandemic virus.

It will be challenging to counter a new pandemic influenza strain that spreads through a population like wildfire if our health authorities keep insisting that it is transmitted solely via large droplets. Unfortunately, this is the stance that all health authorities are taking now.

Adam Kucharski@adamjkucharski.bsky.social

The UK isn’t prepared for the next pandemic – and nor are many other countries. kucharski.substack.com/p/we-arent-p...

When studying the history of influenza, it is clear that it spreads in the air, just like measles. The challenge is that widespread immunity can create the illusion that influenza is not easily transmitted, as it reduces the number of individuals who are susceptible to the virus.

Jon Bang Ploug reposted

Jon Bang Ploug reposted

Jon Bang Ploug reposted

I really did not enjoy Jay Bhattacharya & Matthew Memoli’s screed against pandemic & virology research for the flagship blog of a “free-market think tank." Instead of getting mad, I accepted @jeremyfaust.bsky.social's kind invitation to take a factual & scientific blowtorch to it.

Jeremy Faust, MD@jeremyfaust.bsky.social

We've got a MASSIVE DEEP-DIVE rebuttal to the NIH leadership’s recent essay. They're arguing for a head-in-the-sand approach to pandemic preparedness. The great @angierasmussen.bsky.social joins me in an extraordinarily detailed, line-by-line fact check. insidemedicine.substack.com/p/a-rebuttal...

Jon Bang Ploug reposted

Can't emphasize how damaging this is. A single non-scientist—Peter Bogner—holds all power & makes all decisions at GISAID & provides no justifications for any of them, except blatantly false ones. He has that power because he conned rich & powerful people into giving it to him. Enough.

Dr Emma Hodcroft@firefoxx66.bsky.social

I want to spell this out in case the implications aren't clear: This means all public tools/webapps of GISAID data (all the ones you've been used to seeing thru the pandemic, as far as we can tell) are prohibited. The file allowed this. Cut that - cut off all tools the public & others were using.

In Denmark, archaeologists are thrilled about metal detecting. They have discovered otherwise unknown treasures. Our National Museum is currently holding an exhibition celebrating their finds. Why not in England? Bad experiences? nationalmuseet.dk/udstillinger...

nationalmuseet.dkJagten på Danmarkshistorien: Skatte fra fortidenOpdag Danmarkshistorien med skattejægere, fra guldhorn til vikingeguld, og se deres fantastiske fund.
Dr Matt Pope@mattpope.bsky.social

How about "Where is our heritage demonstrably most risk from metal detecting"? It isn't lost, it's part of the archaeological record. Cc @Tess_Machling🏺 #FindsFriday www.independent.co.uk/news/uk/home...

The wildest part is that most people will scroll past this, because we instinctively assume no one could publish a study that excludes almost all the relevant evidence. We tend to miss the glaring flaws and only notice (since they are more believable) the minor ones.

The modern 'rat-only' understanding of plague transmission is out of touch with the sources: "In Glasgow, whatever the original source of the infection may have been, there was no evidence that rats played any part in carrying it amongst those who were attacked by the disease." Glasgow, 1900.

Jon Bang Ploug reposted

The healthy vaccinee effect runs deeper than we may think What this full national Danish study shows is that a huge effect remains even after correcting for age, sex, comorbidity, medical visits and place of residence The "unvaccinated by choice" test less (and die earlier) 1/

Jon Bang Ploug reposted

A grave of a Roman physician in Bingen dating to the 2nd c. AD contained a remarkable set of medical instruments, including cupping cups with a stand in the shape of a grapevine. These cups were used for therapeutic suction or bloodletting, a practice with deep roots in Greco-Roman . 🧵1/ 2 📷 me 🏺

Jon Bang Ploug reposted

I am fascinated by how viruses evolve - and not just since #SARSCoV2 has shown us at the global stage how consequential virus evolution can be for us. In my new story in @science.org I got to explore how researchers are probing deeper into the past with old RNA virus genome. So a 🧪 thread…

science.orgOn an Arctic archipelago, frozen soil may preserve a hidden history of virusesScientists are hunting for ancient RNA in Svalbard’s permafrost, hoping to shed light on the evolution of viral diseases

This is not only worrisome but also extremely foolish. It would make for a bad movie where influenza has somehow infected people to do their bidding: "Many of the top American flu scientists are not able to do the critical research that might help clarify this because it is no longer allowed."

Angie Rasmussen@angierasmussen.bsky.social

A lot of people have been making claims about H5N1 being on the verge of “going pandemic.” We don’t that, or how or if a pandemic with H5N1 would occur. But we do know what the virus would need to do & there are ways we can stop it. rasmussenretorts.substack.com/p/what-would...

Still, no one dares to adress the elephant in the room: "China holds the distinction of being the world’s largest producer and consumer of antibiotics. Per capita antibiotic use in China is approximately ten times higher than in the United States" pmc.ncbi.nlm.nih.gov/articles/PMC...

theguardian.comSharp global rise in antibiotic-resistant infections in hospitals, WHO findsExperts describe findings as deeply concerning and predict 70% increase in related deaths by 2050

A terrorist group attempts to assassinate the Prime Minister of a European country, and people respond by nearly condoning the terrorists. What is wrong with people here? People on social media, including Bluesky, are nearly as extreme as in the 1930s. This does not bode well for the future.

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"The fabled Ghoul was a delicate-minded gentleman, compared to an old, hardened sexton." Interesting and humoristic but also pretty macrabe description of the work of the old city sexton/gravedigger. It must qualify as one of the worst jobs in history.