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Medical Breakthrough in Spinal Cord Injuries Was Made by a Computer Program

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Re: Medical Breakthrough in Spinal Cord Injuries Was Made by a Computer Program

#21
post #16

Earlier quoted context omitted.

biology is not my forte but- i imagine "dark data" (with context) is always more valuable than no data.

Last time your build failed because you made a typo, did you package it up and release that version anyway?

Bad analogy. There's a lot more to learn from a failed medical experiment than a failed build.

Re: Medical Breakthrough in Spinal Cord Injuries Was Made by a Computer Program

#22

Earlier quoted context omitted.

Not if your dark data is "I forgot to autoclave an instrument and contaminated my samples." In that case without an unexpected positive result it's just error and not worth reporting.

biology is not my forte but- i imagine "dark data" (with context) is always more valuable than no data.

That's simply not true. One of the most, if not the most, common ways to fail an experiment is through contamination and there are at least a dozen different types of bacteria in the average lab that are brutally efficient at outcompeting whatever is in your sample and probably thousands more that are problematic at best. Once your sample is contaminated it is useless because the number of variables out of your control grow several orders of magnitude in an already poorly bounded experiment.

Even if you have the best biosafety hood with proper airflow to pull things away from your samples, even the simple mistake of taking off your gloves in the hood or wafting your hands over petri dishes is enough for some skin cells carrying bacteria to wipe out an entire experiment.

Re: Medical Breakthrough in Spinal Cord Injuries Was Made by a Computer Program

#23
post #17

Earlier quoted context omitted.

biology is not my forte but- i imagine "dark data" (with context) is always more valuable than no data.

Wrong data is much much worse that no data, since it may lead you down the wrong path. Think what the false news of a Russian nuclear strike in US soil would have done during the Cold War.

"could" my ass! Think what was literally moments away from happening when Russia actually got false news of a US nuclear strike.

https://en.wikipedia.org/wiki/Stanislav_Petrov

We were one sane man away from world war 3.

Re: Medical Breakthrough in Spinal Cord Injuries Was Made by a Computer Program

#24
The substance of the article is quite interesting, but the headline and premise--that it was a computer program and not humans who found the result--is ridiculous. The computer program did not collate and index the raw data and notes. The computer program did not choose the relevant inputs from the sum of all knowledge. And most importantly, the computer program did not write itself.

Software is a tool that humans create and use, not an entity in itself. Even if you think true AI is near at hand, this article describes nothing of the sort.

Houses are far easier to build with saws, hammers, and nails than by manipulating wood, earth, and metal with our bare hands, but that does mean the tools built the house.

Re: Medical Breakthrough in Spinal Cord Injuries Was Made by a Computer Program

#25
Hidden relationship mining has taken a few different paths from TDA to LDA graphical modelling (Michael Jordan, David Blei) to Vector Space driven (Berkeley Lab). Extracting hidden relationships in datasets and using these to form new hypothesis and enable or even make new discoveries is certainly the future...

Lawrence Berkeley National Laboratory vector space for hidden relationships: http://newscenter.lbl.gov/news-releases/2008/07/09/berkeley-...

A Search Engine that Thinks http://newscenter.lbl.gov/feature-stories/2005/03/31/a-searc...

Statistical modeling of biomedical corpora: mining the Caenorhabditis Genetic Center Bibliography for genes related to life span - Blei DM1, Franks K, Jordan MI, Mian IS. - http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1533868

Re: Medical Breakthrough in Spinal Cord Injuries Was Made by a Computer Program

#26
Here is the actual paper: http://www.nature.com/ncomms/2015/151014/ncomms9581/full/nco...

Coming from medicine I think the title of "medical breakthrough" is too generous. It's a great proof of concept but all this says is that in rats, high Bp in thoracic spinal cord injuries was associated with worse outcomes. Id like to see a follow up on human data from perioperative Bp recordings next. If it still holds true, then you can research whether an intervention in Bp control makes a difference. I'm not a neurosurgeon but I'm sure the correlation btw Bp and sci outcomes has been looked at before

Re: Medical Breakthrough in Spinal Cord Injuries Was Made by a Computer Program

#27
post #12

Could someone please offer a TLDR; The article seems very clickbait and full of teases.

Auto Summarized Content (Algorithm: Tuatara GS1)

Before Ferguson had thought to use it for probing spinal cord injuries, Carlsson and others researchers had successfully employed TDA to find a unique mutation in breast cancers hiding in data sets that had been publicly available for more than a decade...\" In the case of the spinal cord injury data, Ayasdi 's TDA-driven approach mostly confirmed what researchers already knew: The drugs didn 't work...

Auto Extracted Ranked Tags (Algorithm: Tuatara GS1)

ferguson, injury, spinal, cord, ayasdi, variable, paper, researcher, tda, study, human, team, drug, long-term, carlsson, approach, trial, published, probing, hidden, big, implication, pattern, complex, pressure, analysi, hypertension, experiment, conducted, medical, colleague

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Re: Medical Breakthrough in Spinal Cord Injuries Was Made by a Computer Program

#30
post #8

Earlier quoted context omitted.

Frequently a lot of this hoarded data is flawed or defective due to improper setup or execution of the experiment. That isn't to say the information in this "dark data" is useless, but it needs to be taken in context. The cleanest data with the best results are put forward into a paper; the chaff is not.

Shouldn't this be noted? Isn't providing the "best" data risking making data fit your hypothesis?

A recent interesting commentary in nature suggests researchers should "blind" themselves to their data, and instead analyse a similar but altered data set. When they are happy with their anaysis, the steps are then applied to the real data. The aim is to prevent confirmation bias.

http://www.nature.com/news/blind-analysis-hide-results-to-se...

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