Hagen’s Biological and clinical data integration in healthcare study is great!

Just finished looking at Matt Hagen’s 2014 “Biological and clinical data integration and its applications in healthcare.” PhD  dissertation. This is a great piece of work … You can find it here.

While its around 5 years old, the insights and discussion are excellent.  I like the detailed breakdown of how different ontologies and vocabularies align (and how things fall through the cracks).  I liked the discussion of using Neo4j to analyze relationships and simplify searches and relationship mappings.

Particularly liked the discussion of using  ontologies.  to” facilitate improved prioritization of intensive care admissions and accurate clustering of multimorbidity conditions”.  THIS IS BIG! with enormous potential.

Discussion of his BioSPIDA relational database translator and its contrast with  the separate Entrez Gene, Pubmed, CDD, Refseq, MMDB, and Biosystems NCBI databases.

His Table 7.2: Descriptions of patient clusters is rather illuminating, as his discussion and analysis of ICU Electronic Health Records and findings associated with morbidity outcomes.

For example Cluster 1 contains the following Most Prevalent Conditions: Coronary arteriosclerosis, Hypercholesterolemia, Diabetes, Gastroesophageal reflux disease,  Atrial fibrillation, Hyperlipidemia, Tobacco dependence.  Which led to the following Most Prevalent Procedures:  Catheterization of left heart, Cardiopulmonary bypass operation, Angiocardiography of left heart,.


 I  am surprised this work is not cited as much as it should be!.  IMHO, this work definitely should be used as blueprint for additional investigations.



Experiment 2 -The Search for Deep Learning Impact

Now added a recent search that looked for recent USPTO grants that specified Deep Learning and Medicine …

filed under

PATEX 2: Patent Exploration for Artificial Intelligence in Medicine (AIM)

Experiment 2 -The Search for Deep Learning Impact

As an amusing element, it picked up this:

US-10040551-B2. – Drone delivery of coffee based on a cognitive state of an individual.



artificial intelligence, natural stupidity.

according to popular legends and urban myths … Amos Tversky is said to have said …

My colleagues, they study artificial intelligence; me, I study natural stupidity.

this, from CoEvolving Innovations which seems like a fascinating resource.

The blog entry there talks about Daniel Kahneman  and Amos Tversky.

The topic is fascinating.  The question of how intelligence and stupidity are related is fascinating.

There’s also a reference to Daniel Kahneman, Paul Slovic, and Amos Tversky book Judgment under uncertainty: Heuristics and biases,  that I now feel compelled to investigate

interesting factoid …Kahneman  was awarded the 2002 Nobel Prize in economic sciences  despite being a psychologist, not an economist.  Which goes to show you … that Forrest Gump’s Mom was right  Life is like a box of chocolates. You never know what you’re gonna get.”