How to probe medical knowledge gaps -- and get a useful pub

I researched alcoholic myopathy the other day. The results were appalling. There’s been very little research in the past 25-30 years, fundamental questions are unanswered, repeated references are made to the same old prevalence numbers, etc.

It reminded me again of the big gaps in our medical knowledge base. Some topics get a lot of research, others seem to be forgotten. So I wondered about a way to characterize the gaps.

I think this would work, and it would be a nice paper for someone:

1. From medicare data get list of most often used 1,500 ICD-9 codes (still 9 for US).
2. For the “other” codes map them to the parent level in hierarchy.
3. For this set obtain ICD long names (optionally, use the better structured SNOMED names using ICD to SNOMED maps).
4. For each string run a pubmed query using the NLM’s API.
5. For each results count which are reviews, randomized controlled studies etc. (standard NLM metadata).
6. Analyze the results for outliers with few reviews, studies, etc. I’d expect 50-100 would be neglected.
7. Publish.

Medical history: What CT did to neurology, MRI has done to sports medicine

Few remember this now, but once neurologists were proud of their ability to localize brain injuries based on complex and detailed examinations. They could, for example, find a tumor or a stroke based on an examination.

Then CT scans came along, and we discovered that those exams didn’t, actually, work.

More or less the same things happened with cardiac auscultation and cardiac anatomy. I remember our cardiology teachers and my fellow medical students could hear “S4s” that somehow I could never hear.  I assumed it was because I was tone deaf. Then cardiac ultrasound took over…

I think the same thing happened with sports medicine. Once we had all kinds of specific shoulder tendon diagnoses we made based on examination. Then MRI showed things were messier. We used to talk about various hip soft tissue disorders like “piriformis” syndrome, not it’s just “deep gluteal pain syndrome”.

There’s a lesson in this somewhere.

Aetna's unethical cost savings are enabled by the "arbitration" laws purchased by large corporations

The New York Times did a superb series this fall on how large corporations changed American law to neutralize a major consumer protection — the class action lawsuit. Arbitration clauses mean a single consumer goes up against multi-million dollar legal teams, a hopelessly mismatched battle.

I realize that’s why Aetna can get away with cutting health insurance costs through strategic incompetence. Ten years ago if they were routinely evading their contractual obligations they’d be subject to a multi-million dollar suit. Sure, any penalties would be too small to truly impact Aetna, but a potential payoff would be big enough to fund a suit. More importantly, once a judgment was made, Aetna would need to wind the scam down — a recurring judgment might eventually amount to real money.

Today there’s really no downside for them. I’m certainly not going to take them to arbitration. So, yes, the Feds should block Aetna and Anthem’s acquisitions, but this is just one facet of a much bigger problem. The modern mega-corp has damaged our political and commercial landscape — from secular stagnation to political corruption. It may take the second coming of Theodore Roosevelt to set things right.

Why DOJ should block Aetna and Anthem acquisitions: A story of strategic pre-authorization delays

The health insurance industry is consolidating. Aetna acquired Humana and Anthem bought Cigna. That leaves UnitedHealth, Aetna and Anthem as the mega-corporate rulers of US healthcare. Unless, of course, the US Justice Department blocks these mergers. 

Like most people who pay attention to healthcare policy I very much hope the DOJ does its job properly. I’m glad we have the Obama DOJ to stand up for us, at least now we have a fighting chance. That’s not why I’m writing this blog post though, and it’s not the reason why I’ll be writing Senator Klobuchar to ask her to work against these mergers.

I’m writing this because, of course, I’m personally mad at Aetna. I think I know why Aetna and Anthem are in a position to do the acquiring, and it’s not because they’re better at delivering health care. I think they’re winning because they excel at both strategic incompetence supported by a tobacco-industry class executive culture.

In my case a physician ordered a radiology procedure for me that requires pre-authorization by my insurance company - Aetna. The order, alas, was placed in early December — perilously close to the end-of-year period. A period where cost can shift, depending on deductibles, from the insurance company to the insured, or from one carrier to another.

Aetna could decline the authorization. That might have been a reasonable act — not every physician recommended procedure is a good idea, particularly when the physician owns the imaging process. I’m guessing they don’t have grounds for denial, so instead they simply stall. Information is provided … and Aetna can’t find it. They ask for the same information several times. They will succeed in running out the clock. My physician’s staff tell me Aetna excels at this game, even by industry standards they’re good at not delivering what we pay for. Which is usually considered theft.

Aetna’s executives don’t have to write up a formalize this profitable process. They don’t need to put anything in writing. All they have to do is underfund their pre-authorization process (a “cost center”), or provide financial incentives to delay payments, or not staff for the holidays, or promote executives who are good at cost control. Most likely they do all four. 

I suspect Anthem has the same skill set, but Humana and Cigna probably aren’t quite as good at being evil. There are so many ways in healthcare to do well by doing wrong; it’s a rough rule of thumb that the more profitable a healthcare operation is the less good it’s doing.

Aetna is going to win their little battle with me. The best I can do to get even is write Senator Klobluchar (I know Senator Franken will oppose) and complete their legally mandated complaint form.

And I can write a blog post.

See also

• Happy accident fraud - Feds move on Aetna and other health insurers with deceptive provider listings 5/2015. “Don’t put your Disability Claims office on the fifth floor of a building with a faulty elevator to defraud anyone, just do it for the cheap rent.” After signing up you discover there you actually can’t get healthcare
• Anthem - Putting the Hell in Health Insurance 8/2010. Strategic incompetence in action. Their profits let them buy Cigna.
• Emergent fraud: Anthem and automatic payment denials 9/2010. We really don’t want Anthem owning Cigna
• Big GOP stealth donors: aetna, coke, koch, exxon; pfizer, unitedhealth, walmart, Microsoft. Yeah, Aetna and UnitedHealth.
• Gordon’s Notes: Emergence: how entropy and incentives create scams 2/2009. A systemic problem where information asymmetry exists.
• AMA asks Justice Department to block Aetna-Humana, Anthem-Cigna mergers 11/2015. I don’t often agree with the AMA, but they are right about this one.

Update 12/30/2015

After completing the official complaint form, and separately posting a public message to Twitter @aetnahelp and follow-up email to socialmediacustomerservice@aetna.com, I received this message on the morning of 12/30:

Of course it’s too late now, Aetna ran out the clock. As we knew they would. Even though the bad guys won this one, I would try public Twitter messages and email to socialmediacustomerservice@aetna.com in future. A kind of special service track for the geek elite. 

Growing old grudgingly: The CrossFit Inversion

Mature audiences only.

Under 45 not admitted.

You have been warned.

I was 53 when I started my CrossFit hobby. That was almost 3 years ago. I knew then, given the shape of 83, that there was a cliff ahead. I didn’t need my older friends to remind me of that, but they have. Faithfully.

Back then my gym had us post our “personal bests”, like best time for a mile, or best back squat. Since I’d never done olympic weightlifting, or even serious training, it was fun to rack up my lifetime personal bests as an old man. The gym stopped doing that, probably for a good reason, but I kept my own records. Six months ago I had another one in the deadlift.

It was the deadlift that did my latest injury. Lower back of course. Not a bad one, I’ve done this before, but aggravating. It’s the context that’s the real problem, this injury follows the knee and the shoulder. 

I get the message. My cliff started at 55; the arthritis probably moved it up a few years. Now I’m in post-cliff hang gliding mode.

I’m good at taking clearly delivered feedback like this. So I’m updating my list of personal bests and filing it away. Been there, done that. In its place I’m making up a list of personal “safe limits”. For my deadlift I’m afraid that will be low even for a little guy like me — something like 235. Safe limits go up very carefully.

Personal best replaced by personal max. That’s my CrossFit inversion. Now I’ll see how far that gets me…

Smartphone calendaring: a brief survey

i’m collecting some data on how people do calendaring on their smartphones to support my special needs smartphone for independent living book project. If you’re reading this before December 20th 2015, can you please fill out this 2-3 min, 3-7 question survey? Thanks!

Calendaring in iOS, OS X, Outlook 2010 and Google Android/Chrome are all very different.

If you’ve ever wondered why healthcare institutions can’t easily share data between computer systems, just take a look at Calendaring in iOS, OS X, Outlook 2010 and Google Android/Chrome.

Google went down the road of calendar overlays. You can have as many calendars as you like and you can share them across a Google Apps domain or between Google users. Public calendars are available for subscription. My current Google Calendar calendar list holds twenty distinct calendars of which 8 belong to my family. (One for each family member, one for entire family, a couple of parent-only calendars that the kids don’t see.) In Google’s world, which is consistent across Chrome and Android, shared calendars can be read-only or read-write. Google supports invitations by messaging.

I love how Google does this, but I’m a geek.

I’ve not used any modern versions of Outlook, but Outlook 2010 also supported Calendar subscription. They didn’t do overlays though, every Calendar stood alone. I never found this very useful.

Apple did things differently. Not only differently from everyone else, but also differently between iOS, OS X, and iCloud.  OS X supports calendar overlays and subscriptions, but the support of Google Calendar subscriptions is  weird (there are two ways to view them and both are poorly documented). iOS has a very obscure calendar subscription feature that I suspect nobody has ever used, but it does support “family sharing” for up to 6 people/calendars (also barely documented). There’s an even more obscure way to see multiple overlay Google calendars on iOS, but really you should just buy Calendars 5.app.

iCloud’s web calendar view doesn’t have any UI support for Calendar sharing, I’ve not tested what it actually does. Apple is proof that a dysfunctional corporation can be insanely profitable.

All three corporations (four if you treat Apple as a split personality) more-or-less implement the (inevitably) quirky CalDAV standard and can share invitations. Of course Microsoft’s definition of “all-day” doesn’t match Apple or Google’s definition, and each implements unique calendar “fields” (attributes) that can’t be shared.

Google comes out of this looking pretty good — until you try to find documentation for your Android phone and its apps. Some kind of reference, like Google’s Android and Nexus user guides. As of Dec 2015 that link eventually leads to a lonely PDF published almost five years ago. That’s about it.

I don’t think modern IT’s productivity failure is a great mystery. 

Arthritis - the feeds and queries (reference post)

I feel like I’m tied to a railroad track, and see the light of the train approaching. And I don’t know if it’s one mile away, or 500. 
Anonymous, a patient three years into leukemia remission.

Cancer will give many of us that oncoming train feeling, but of course the light is always there. We’re just good at denial. When we’re young and healthy the train is probably far away. When we’re 93 it’s pretty close. In between we try not to look.

There’s only one “train”, but there are lots of smaller hits along the way. Bicycles and cars maybe. One of them ran into me recently, so I’ve renewed an old interest in the so-called “rheumatic disorders” (misleadingly named after bodily fluid flow).

It really is an old interest. Before I figured out how to do medical school [1], I closely read the 1982 version of the Arthritis Foundation’s “Primer on the Rheumatic Diseases”. Within the broad bounds of unreliable memory I recall that osteoarthritis was a “wear and tear” disorder of aging, rheumatoid arthritis and a handful of other disorders were “auto-immune” diseases, gout and non-gout crystal deposition were relatively well understood, and many viral and non-viral diseases (Gonorrhea and, a bit later, Lyme) caused arthritis. Steroids (not the androgen variety!) worked very well on the auto-immune disorders, but the long term side-effects were horrible and inevitable. We had reasonable drugs for Gout, gold for Rheumatoid arthritis (some value [7]), and nothing for osteoarthritis. Okay, so we had NSAIDs like ibuprofen, but we already suspected they were a mixed blessing. We’ve kind of given up on them.

Things aren’t that much different 33 years later. Relatively recently we’ve realized that “osteoarthritis” covers a multitude of evils, some or all of which, like “psoriatic” arthritis, are more than “wear and tear”. We still don’t have any great treatments for Systemic Lupus Erythematosis, though we now do less harm with the treatments we have. Rheumatoid arthritis has seen the most care improvements, but, amazingly, we can’t actually cure it or any other auto-immune arthritis [3]. We still wonder about the role of infectious agents in creating or sustaining auto-immune disorders but we have few leads [2][6]. The most recent (2005) edition of the Primer on Rheumatic disease says of Osteoarthritis “It is clear that this … includes a variety of different conditions, but we have made less progress …”.

More recent publications have even undone old certainties; we’re no longer confident that the various flavors of psoriatic and osteoarthritis are primarily “arthritic” (greek: Arthron, joint). Disorders along the osteoarthritis - psoriatic arthritis spectrum may begin as diseases of the tendons. Some of them may be lifelong disorders of tissue healing; small injuries accumulate due to a healing defect, perhaps with later onset of an auto-immune component reacting to disordered tissues.

My medical school interest became personal as I watched my mother go through the arthritis experience for about 35 years, ending as “rheumatoid arthritis” (our classifications are imprecise). It wasn’t pretty.

Which is all by way of introducing this “reference post”; a blog post that I’m going to be revising and extending. It’s a post supporting my surveillance of our historically limited knowledge base. I’ll revise it periodically over the next year or two. Sometimes I’ll post/tweet about updates to this reference post, but most of the interesting results will appear in a pinboard RSS stream tagged “arthritis” [4].  

My surveillance relies on PubMed [5] (National Library of Medicine) RSS feeds. Anyone can create these, but I’ve never seen anyone but me write about them. I’ll list them by topic below, but first I’ll describe what I’m not monitoring.

I’m not monitoring care guidelines or the cutting edge of rheumatologic practice. I see a rheumatologist for that; that’s his job. If I want an update on current practices I’ll take a look at FP Notebook’s Rheumatology Book. I’m not interested in alternative or complementary therapies — that way lies madness. I’m only mildly curious about lifestyle factors; mostly because we know so little and very little research is going to get funded.

I am curious about tolerance induction — the Holy Grail of the rheumatic disorder treatment. We’ve been hammering on this decades, but we have new tools now. This is what we really want - a cure for at least some of these diseases. I’m looking for articles on disordered healing and secondary arthritic conditions, but I’ve yet to figure out a good search for that one. Likewise I’m looking for articles that relate loss of self-tolerance to a dysfunctional pseudo-neoplastic component of the immune system (yeah, this is definitely fuzzy). More concretely anything about the role of infections organisms in precipitating or maintaining arthritis.

Here are the RSS feeds and “similar articles” queries I’m revising and using for each of these topics. I wish there were RSS feeds for the “similar to” queries, as I learn the topics i’ll put create RSS feeds with similar results.

tolerance induction

• tolerance induction in arthritis (feed)
• peptide based immunotherapy (not limited arthritis, feed)
• T cell immunoglobulin-3 (Tim-3) therapy (query)
• tolerogenic dendritic cells

tendon injury (enthesitis) and arthritis

• enthesitis in psoriatic arthritis (query)

microbiome and role of infection in creating and maintaining arthritis

• microbial dysbiosis in rheumatoid arthritis (query)

Immune system and neural networks (because I figure the immune system is a form of neural network)

• Google scholar related article query

other

• psoriatic arthritis - natural history (not a query because this seems to be only article!)
• cimetidine and innate immunity (feed - because of this post)

- fn -  

[1] The way to do the didactic portion medical school is to maintain a relentless focus on examinations. If you’re doing well you may then indulge your passion and curiosity. 
[2] As a still distractible student I read the first speculative article written on an association between bugs living in the high acid stomach and gastric ulcer disease. Before then we thought the stomach was sterile; nothing could live in such a disagreeable environment. That probably contributed to my extremophiles and auto-immune disease post.
[3] Juvenile Rheumatoid Arthritis does resolve about half the time. Which is curious.
[4] Like all things Pinboard it has an RSS Feed: http://feeds.pinboard.in/rss/secret:c6ea18730310000211dc/u:jgordon/t:arthritis/. Sadly there are no RSS feeds for “similar article” queries and “My NCBI” doesn’t show feeds.
[5] My medical informatics career began in Family Medicine residence as a beta tester of the “Grateful Med” software. I believe the product manager, Rose Marie Woodsmall, was a dead head. I was among the last generation of medical students to use the paper Index Medicus to do journal research.
[6] I’d wondered years ago why we weren’t mining synovial fluid for foreign DNA. Turns out this was done in 2001 with interesting results, but the follow-up was limited until “microbiome” became a funding source.
[7] Gold was used to treat Rheumatoid arthritis from at least 1945 through the early 1990s. I seem to remember it was sometimes associated with extended remissions. I can find almost nothing on it written after 1965 or so, and nothing at all on how it worked. There’s very little on long term outcomes. Which is, you know, profoundly weird.

Update 12/18/2015

I have a hunch that whatever is afflicting me now is the end-stage of a congenital defect with soft tissue/tendon formation. I’ve always been prone to calcium deposits along tendons and to overuse tendonopathies. It would not be surprising that as I’ve aged my body’s ability to manage this problem, and heal from injury, has declined. That in turn could lead to some secondary auto-immune issues (prolonged inflammatory/antigen spill issues). I haven’t come up with a search criteria yet to explore this idea; it would probably show up in whole genome analyses. I would need to look for discovery of a gene associated with auto-immune arthritis/osteoarthritis that was important for tendon formation.

Extremophiles and auto-immune disease

The extremophiles are at home in near boiling water and the deep crust of the earth. Every ecological niche is colonized by life; and life forms everywhere work to change their ecology to suit themselves.

It is the inevitable logic of natural selection in action.

So then, why should the hot tissues of auto-immune disease be any different? How could there not be life forms evolved to that extreme environment? Life forms that might facilitate it, to defeat their enemies and extend their preferred environment. An ecology that, once created, will host competitors, some liking it hotter, some coder. An ecology with successor species, like any forest.

It seems inevitable.

Hockey skill videos (reference post)

Adult ice hockey is a new hobby. Unsurprisingly there are lots of adult no-checking leagues in the Twin Cities, JMS Hockey is the one I went with. Actually, I should say “we” went with. My #1 son is 18 now, and he is the first identified special needs adult hockey player in our league. We play on the same line — he plays at the top range of the “lower level” games and I’m at the bottom. After more than 10 years of managing his hockey teams and even becoming a level 1 coach (no skills required) I finally got off the bench.

Despite growing up in Montreal when Les Habs ruled hockey I’m a lousy hockey player. Fortunately I’m not a bad skater, though lately somewhat knee impaired. So I’m trying to pick up some stick handling skills.

This blog post is where I’m going to put the video links and references I like — largely from HowToHockey.com [1] and a UK(!) Hockey Tutorial I’ll update it over the season (assuming I last).

Basic snapshot and wrist shot (because this is so embarrassing right now)

Wrist shot

Most basic shot, what I’m learning now. When learning face the puck.

• How To Take A Wrist Shot
• How To Take A Wrist Shot In Hockey For Beginners | Hockey Tutorial
• Two Types of Wrist Shots
• How To Improve Wrist Shot Accuracy

Snap Shot

Quick shot taken when skating to net, face the net, puck to the side.

• How to take a Snapshot in Hockey
• How to take a snap shot in hockey for beginners | Hockey Tutorial
• How to Take a Snapshot - Off Ice Tutorial

Other

• Don’t shoot the puck
• How to Raise the Puck and improve your accuracy
• How to lift the puck of the ice in hockey and score more goals | Hockey Tutorial
• How to Work on Your Shot Inside (without breaking stuff!)
• Simple Tips to Improve Your Shooting at Home
• How to Shoot While Skating

[1] There are many books and videos on mountain biking skills. Hockey players don’t generally do that kind of thing.

Car stereo and price hiding: Buy from Crutchfield but hire an installer.

Our car stereo died a few weeks ago. Wire cutter liked a model that seemed to fit our needs, the Pioneer DEH-X6800BT (Owners manual, I save these on my iPhone) was $112 at both Best Buy and Crutchfield. I didn’t want to do my own installation, so I bought it at Best Buy.

When it came time to do the installation Best Buy told me I needed to spend $70 for a kit — which they didn’t have. It turns out the same kit is bundled free of charge with the Crutchfield device. I can see why Best Buy exploits information asymmetry to hide the true cost of their services, but I think Crutchfield could market their price advantage a bit more. The Best Buy installers (Geek Squad) tell me they’ll do the install at the same price if I bring in the parts.

So now you know. 

(I’ve ordered the unit from Crutchfield, when it comes I’ll decide if I want to try the install myself. In their favor Best Buy is good at accepting returns, in this case an unopened return.)

Update 12/14/2015

After I studied the Crutchfield installation directions little red lights started going off. Especially given vague descriptions of tools I needed (not mentioned previously) and after I took a look at the wiring harness. So I decided to hire an expert.

Best Buy installers require payment in advance and they were booked out quite far. I found a local place with a single (very good) Yelp rating; same cost, quicker appointment, no advance payment and I felt more confident in them. The install took 45 minutes. I’m very glad I didn’t attempt it myself; the uneasy feeling I got from the Crutchfield online directions was well justified. I wonder if Crutchfield more-or-less expects people to pay someone to do the install.

My installer had no qualms about using the Crutchfield gear, he didn’t need anything else.

So after trial and error I’d recommend: 

1. Find a local installer and confirm they’ll work with the gear you bring.
2. Look at Wirecutter recommendations. Emily wanted CD so narrowed it down. 
3. Order from Crutchfield. They bundle installation gear so was $70 less than Best Buy. 
4. Pay expert to install. Locally I’d recommend this place.

The car stereo seems fine. I won’t do a full review (no time!), but only negatives were a default color change pattern only a teenage boy would appreciate and finding that the Pandora features don’t work with iPhone if you choose Bluetooth connectivity. The former is fixable in settings; the manual doesn’t mention this but you can easily set the display a neutral white. The latter wasn’t a big deal.

 

There’s a huge volume shift from Bluetooth to FM Radio; when I switched sources I almost blew my stock speakers out. 

 

Update 12/16/2015

• The bluetooth connection is messing up Siri, it’s way less reliable. I know of a similar problem with a different BT user. I’m probably going to disable the BT connection and connect via USB.
• The faceplate won’t come off, it’s stuck on the left side. My installer class that’s a problem with the (free) Crutchfield cage.
• The UI is pretty awkward, but I’ll figure it out.
• My Amazon review, including volume issues. I’m going to switch to using the USB/power cable and see if the volume/Siri problems are better.

See also

• Sony Car FM/CD Head Unit: iPod/Audio-In/USB Car FM/CD Stereo: a review 3/2007. For historic interest.

The impossible machine

The immune system is an impossible, incomprehensible, machine. It is not even a ’system’ — evolution is not so modular. We name it as a thing so we can model it, but it is not made by a mind. It is made by evolution, so it is bizarre and emergent. Like a machine that pumps water and makes potato chips on the downstroke.

The thing we name, which is in truth not a bounded thing, allows us to exist, briefly, in a seething sea of self-organizing energy. Presumably its antecedents emerged with the bounded sack of water we call a cell. It has grown in complexity since then, a complexity that often resembles the nervous system. It is, after all, a processing machine. Brains must tell lies from truth, the immune system must distinguish friend from enemy from frenemy. It must often attack the non-self, except when the non-self is a fetus. It should not attack the parts of the self, except when those parts are broken or rogue. It ages as the body ages, but even as it grows frail the body grows more rogue.

Sometimes the non-self is a frenemy, at least for the moment. We are walking biomes, ecosystems in motion. Billions of microbes live within us, often helpful, sometimes the enemy of our enemy. Except when they turn on us. The immune system must manage this, even as the enemies and frenemies adopt the face of the self.

We created the idea of the immune system, and we created the idea of diseases of the immune system — though the boundary between disease and individual variation is not sharp. Some immune systems are poor at stopping some enemies — we usually die then. At other times the immune system confuses self and non-self, and it turns on the organism. We call this an auto-immune disease.

We can do very little about auto-immune diseases. System Lupus Erythematosis is a classic of this genre, our treatment has changed very little in thirty years. We have some newer treatments for diseases like rheumatoid and psoriatic arthritis, but our treatments don’t correct the error of the immune system, they merely induce selective immune dysfunction to slow the progress of disease. We know so little. We aren’t even quite sure that there isn’t some bizarre infection lurking in the tissues of affected people; maybe sometimes the immune system has the right idea but the wrong execution.

Auto-immune diseases are common. We used to think osteoarthritis was a disease of aging tissues, of wear and tear. Now we think this name we made contains multitudes, some related to aging, others to an attack of self on self (“erosive inflammatory OA”). We have no truly effective treatments for these conditions. We don’t even know if sleep and exercise are a good idea — what strengthens healing also strengthens the enemy within. The war on joints and tendons wears on the body, inducing metabolic syndromes and accelerating aging.

If we could reverse auto-immunity, if we could re-induce tolerance, we might be able to manage organ transplants and even stop the enemy within. Inducing tolerance is now an active research area — at least in rats. We have a very long way to go. I hope the next 30 years improves on the last 30, but we have had many false starts.

Related RSS feeds (for Feedbin, Feedly, etc).

• inducing self-tolerance in arthritic disorders.
• peptide-based immune tolerance induction
• Immune tolerance - therapy (very broad)

See also

• app.net thread: inducing tolerance might be rather like (re)training a neural network. The immune system as neural network analogy dates back to at least 1997.

Resurrect anthropology

One of my big disappointments of past 15 years is absence of falsifiable models of factors that create and sustain Daesh and kin. 

Anthropology died in the 80s. We need to drag it out of the grave and apply high voltage with a serum of empirical economics, political science and geography. 

Or we can keep floundering.

Scott Moses' FP Notebook is an astounding, and free, medical reference

Want to double check your doctor’s approach to your cholesterol problem?

Try this Family Practice Notebook (FPN) entry …

Hypercholesterolemia

… VII. Management: Less than two Cardiac Risk Factors

Cholesterol Management
Goal if LDL Cholesterol below 160 mg/dl (ideally <130)
Low Fat Diet if LDL Cholesterol over 160 mg/dl
Anti-hyperlipidemic if LDL Cholesterol over 190 mg/dl

Monitoring
Desirable lipids: Repeat Lipid panel in 5 years
Borderline lipids: Repeat lipid panel in 1 year
Elevated lipids: Repeat lipid panel in 3-6 months…

Or take a look at the cardiovascular medicine book. (In FPN-speak a “book” is a collection of topics, they are accessible from the top right menu.) Ok, I admit there’s a lot of implicit knowledge in those terse phrases. FP Notebook isn’t aimed at consumers, it’s written for family physicians, though it also works for internists and pediatricians. If you’re not a physician you may have to take my word for it — this is an efficient high quality information source for “up to date” (more on that below) evidence-based US medical practice. It’s also a one man show of epic scale (emphases mine)…

About FP Notebook

… This site is derived from a peripheral brain collection of medical notes and is divided over 5700 topics within over 600 chapters and 31 subspecialty books. Information is gleaned from reputable sources, referenced where possible, taken from lectures and workshops, peer reviewed articles and bulletins, and key texts.

… This site is personally funded by the site author, Scott Moses, MD. Additional funding is obtained via advertising support; all paid advertisements are clearly delineated as such. Our advertising related privacy policy may be reviewed at here

Please let us know if you find any advertising to be distasteful or inappropriate, or which you find dilutes the value or integrity of this web site. Absolutely no content on the site is influenced or authored by advertisers. Content is solely per the discretion of the site author….

… These medical notes began as a few scattered pearls of text stored with the Notetaker application of the HP Palmtop 200LX. Since 1995, notes from conferences, articles, textbooks and colleagues have accumulated to its current state.

As the collection of text grew, so did the complexity of its organization, and a program known as Brains was developed as a stand alone application for notetaking and for compilation of the website.

Brains is able to import raw text from the database, process the outlines, titles and synonyms, as well as images and links.

In its third iteration, Brains is written in C# with a SQL Server database and can output each of the site versions of html in 1-2 hours. This latest version also allows topics to be linked to the UMLS metathesaurus codes, and to be viewed on handheld devices.

… Most images on the site I have created myself. Many of the anatomy images were created using the 3d models from Zyogote. Others use a combination of Adobe Illustrator, Photoshop and Poser software.

When images are used from other sources, they are clearly cited. These include the NIH Virtual Human project and MedPix

… Gray’s Anatomy 20th edition from 1918 (Lewis) is in the public domain following expiration of its patent. Scanned images of the plates are available online at both bartleby.com and Yahoo.

In 2012, I started an anatomy series using the Zygote 3D models. I will provide 2 sizes of these images: 800x600 and 4096x3112 (poster size). I have maintained a margin on poster size images, such that they can be printed at 8x10,16x20, and 20x30 inches without losing content when cropping. Costco prints a 20x30 image for about $8.

You may use these images freely for printing (e.g. classroom poster) as well as presentations (e.g. Powerpoint) as long as they are not re-sold or modified…The author of the Family Practice Notebook, is Scott Moses, MD, a board-certified Family Physician practicing in Lino Lakes, Minnesota.

I think this is his hobby. Some people build cabinets, Dr Moses builds textbooks.

There’s really nothing like this any more - FPNotebook is a relic of a bygone world. Twenty years ago, when he started, there were quite a few free online medical references. I did a small one myself, many better ones were published by medical schools and hospitals. For a while some medical textbooks were available online for low costs, often bundled into services like MD Consult. That’s all gone now; Wolter-Kluwers Up To Date has replace many textbooks and online resources - at $500/year for an individual subscription. Once free references, like American Family Physician, are now buried behind paywalls (thereby raising a bit of revenue but sacrificing much good will).

Even if you have a subscription to Up To Date, perhaps through your institution, I suspect you’d find much to like in FPN. For example, take a look at the updates page including the May 2015 FAST exam update: “Test Sensitivity may be as low as 22% for abdominal free fluid in blunt Trauma”. Want to keep abreast of meaningful changes to American medical care? Forget those expensive newsletters, just subscribe to the (new) updates feed: http://fpnotebook.com/updates.xml. What a painless way to keep up.

Ok, you get the idea. This is an awesome resource — but how reliable can it possibly be? As Dr Moses notes, it’s entirely dependent on his vigilance and email feedback — nobody has volunteered to do peer review. I can give a partial response — because 10 weeks ago I started doing serious studying for my Family Medicine board exam. I last did family practice in 1994 and I don’t have an institutional subscription to Up To Date, so I used FP Notebook as a supplement to traditional texts, American Family Physician, and examination critiques. Over those weeks I covered a lot of family medicine in FPN; the only error I found was a minor misplaced section heading (an obvious copy/paste error that wouldn’t confuse any physician). I (and many others) found more mistakes in the closely edited ABFM exam critiques. There must be mistakes in 5.700 topics — but that’s an impressive record. I wouldn’t use FPN as my only guide to patient care, but I can testify to its excellence as a study and memory aid — and as a guide to what’s new and important.

FP Notebook is a dinosaur — straight out of Jurassic World, stomping over the puny mammals of the  modern web.

Try it, you’ll like it. (And say thanks — perhaps suggesting Dr Moses add a donation button. If nothing else, a charity donation button?)

Randall Munroe introduces world language and Google Translate training program using charming New Yorker article

XKCD’s Randall Munroe, the notorious interstellar sAI, has published a simplified vocabulary explanation of Special and General Relativity in the New Yorker.

This work is presumably taken from his almost released new book, Thing Explainer ($15 Amazon pre-order). The essay is entertaining and educational; it also promotes his new book and shows he is a smart pants man.

But that’s not the real reason he’s written this. Obviously his true agenda is to create an English dialect of a universal human language with a simplified vocabulary and grammar that is ideally suited to machine translation and, eventually, colloquial conversations with terrestrial AIs (contra the Wolfram Language for AI conversation, see also Marain. Siri-speak 2015 is a crude version of this.)

Let’s see how well his first version works, using the nsAI Google Translate to do round trip translations of a sample paragraph from the original muEnglish to another language and then back again. We’ll start with French, a language related to that of England’s 11th century conquerors, then we’ll do Chinese. I know from past experiments that round-trip translations from English to Chinese and back typically produce incomprehensible gibberish:

Munroe original (muEnglish)

The first idea is called the special idea, because it covers only a few special parts of space and time. The other one—the big idea—covers all the stuff that is left out by the special idea. The big idea is a lot harder to understand than the special one. People who are good at numbers can use the special idea to answer questions pretty easily, but you have to know a lot about numbers to do anything with the big idea. To understand the big idea—the hard one—it helps to understand the special idea first.

French version

La première idée est appelé l'idée particulière, car elle ne couvre que quelques pièces spéciales de l'espace et du temps. Celui-la grande idée-couvre l'autre tous les trucs qui est laissé par l'idée particulière. La grande idée est beaucoup plus difficile à comprendre que le spécial. Les gens qui sont bons à numéros peuvent utiliser l'idée spéciale pour répondre à des questions assez facilement, mais vous devez savoir beaucoup sur les numéros de faire quelque chose avec la grande idée. Pour comprendre la grande idée-le dur-elle aide à comprendre l'idée première spéciale.

French to English

The first idea is called the particular idea because it covers only a few special pieces of space and time. This great idea covers the other all the stuff that is left by the particular idea. The big idea is much harder to understand than the special. People who are good at numbers can use special idea to answer questions fairly easily, but you should know a lot about the numbers to do something with the big idea. To understand the great idea - hard - it helps to understand the first special idea.

Chinese

第一个想法就是所谓的特殊的想法，因为它涵盖的空间和时间只有几个特殊部位。另外一个大的想法，涵盖了所有剩下的由特殊的想法的东西。大的想法是很多更难理解比特殊的一个。人们谁是善于号码可以使用特殊的想法很容易回答的问题，但是你要知道很多关于数字做的大创意什么。为了解大的想法，硬一它有助于先了解特殊的想法

Chinese to English

The first idea is the idea of so-called special because the space and time it covers only a few special parts. Another big idea, covering all rest of the stuff from the special idea. Big idea is a lot more difficult to understand than the special one. People who are good at numbers you can use special idea is very easy question to answer, but you know a lot about what the figures do big ideas. To understand the big idea, hard and it helps to understand the idea of a special.

Munroe English (muEnglish) works rather well between French and English. If you’re interested in learning French, you might enjoy reading a future French version of Thing Explainer or simply run the English version through Google Translate (and use speech recognition for verbal work).

The Chinese round-trip experiment almost works, but falls apart grammatically. For example, “you can use special idea is very easy question to answer, but you know a lot about what the figures do big ideas” is missing things like “need” and “to” and a few pronouns. There’s also an unfortunate “numbers” to “figures” word substitution. Given that Munroe is a far more advanced AI than Google this essay will be used to enhance Google’s Chinese translation model (which desperately needs work).

I’m optimistic about this new language and happy that the Munroe is now taking a more active hand in guiding human development. Zorgon knows we need the help.

Update 11/19/2015: There’s a flaw in my logic.

Alas, I didn’t think this through. There’s a reason speech recognition and natural language processing work better with longer, more technical words. It’s because short English words are often homonyms; they have multiple meanings and so can only be understood in context [1]. Big, for example, can refer to size or importance. In order to get under 1000 words Munroe uses many context tricks, including colloquialisms like “good at numbers” (meaning “good at mathematics”). His 1000 word “simple” vocabulary just pushes the meaning problem from words into context and grammar — a much harder challenge for translation than mere vocabulary.

So this essay might be a Google Translate training tool — but it’s no surprise it doesn’t serve the round-trip to Chinese. It is a hard translation challenge, not an easy one.

[1] Scientology’s L Ron Hubbard had a deep loathing for words with multiple or unclear meanings, presumably including homonyms. He banned them from Scientology grade school education. Ironically this is hard to Google because so many people confuse “ad hominem attack” with homonym.