TOOLS assignment guidelines.docx - TOOLS ASSIGNMENT GUIDELINES Note This document is just an overall description(which is why it has no deliverables or

TOOLS assignment guidelines.docx - TOOLS ASSIGNMENT...

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“TOOLS” ASSIGNMENT GUIDELINES Note: This document is just an overall description (which is why it has no deliverables or points associated). There are separate descriptions and drop boxes for the 4 parts of the assignment . With these 4 separate parts combined the assignment is worth 25 points. There is nothing "abstract" about this assignment. It plunges you directly into the real-life world of informatics by asking you to gain some beginning- level experience with four important "tools" that real-life health informaticians or practitioners might use. Because there are separate deliverables for each part of this assignment I have created four separate CANVAS drop boxes. More detailed instructions for completing the assignments are found in association with the dropboxes (here in the Assignments section). An electronic health record. You will enter information into the record as if you were the doctor caring for a patient. Our electronic record system, InputHealth is unique in the way it facilitates inclusion of other voices into the record (particularly the patient!) We will also give you some experience entering information into the record from a perspective other than the doctor. HL7 - an Interoperability standard. HL7 is a set of standards that dictate how messages can be passed from one computer system to another in a way sufficiently standardized to assure that they mean the same to the receiving system as they did at the sending point. Version 2 is still the most widely-used form of HL7, and we will ask you to "decode" a simple HL7 message. There are a variety of ways to do this decoding, and later in this document we will review some of these that you might choose to use. This assignment should give you a first hand connection to one of healthcare informatics' most important and ubiquitous tools. Natural Language Processing using "Metamap". Anyone who uses Siri on an iphone already has some understanding of how computers can turn language into a form that machines can understand (and that people can process using the power of machine data storage, analysis, and display). Metamap is a free program that decomposes written language into parts of speech and then maps it to terms in the "UMLS Metathesaurus". The metathesaurus has been built so that the US Natural Library of Medicine can classify medical information (typically books and journal articles) in its huge holdings. In this process you will gain some brief familiarity with what XML looks like (a topic we also
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address in the 2nd module on databases) and the closely related data format called "JSON". Your task will be to take a very short sentence, submit it to Metamap, and then interpret the surprisingly lengthy output. You have to submit an application for access to metamap, and this often takes a week or even longer to be approved. So don't wait too long to get started submitting your metamap access application. (More information on this below.) SQL tutorial. We manage to stay away from computer programming for most of this class. In healthcare informatics we are more likely to use
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