Difference between revisions of "Template:Article of the week"

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<div style="float: left; margin: 0.5em 0.9em 0.4em 0em;">[[File:Fig2 Zheng JPathInfo2015 6.jpg|220px]]</div>
<div style="float: left; margin: 0.5em 0.9em 0.4em 0em;">[[File:Fig1 Barker IntJourSTEMEd2015 2.jpg|220px]]</div>
'''"[[Journal:Support patient search on pathology reports with interactive online learning based data extraction|Support patient search on pathology reports with interactive online learning based data extraction]]"'''
'''"[[Journal:University-level practical activities in bioinformatics benefit voluntary groups of pupils in the last 2 years of school|University-level practical activities in bioinformatics benefit voluntary groups of pupils in the last 2 years of school]]"'''


Structural reporting enables semantic understanding and prompt retrieval of clinical findings about patients. While [[LIS feature#Synoptic reporting|synoptic pathology reporting]] provides templates for data entries, information in [[Clinical pathology|pathology]] reports remains primarily in narrative free text form. Extracting data of interest from narrative pathology reports could significantly improve the representation of the information and enable complex structured queries. However, manual extraction is tedious and error-prone, and automated tools are often constructed with a fixed training dataset and not easily adaptable. Our goal is to extract data from pathology reports to support advanced patient search with a highly adaptable semi-automated data extraction system, which can adjust and self-improve by learning from a user's interaction with minimal human effort.
[[Bioinformatics]] — the use of computers in biology — is of major and increasing importance to biological sciences and medicine. We conducted a preliminary investigation of the value of bringing practical, university-level bioinformatics education to the school level. We conducted voluntary activities for pupils at two schools in Scotland (years S5 and S6; pupils aged 15–17). We used material originally developed for an optional final-year undergraduate module and now incorporated into 4273''π'', a resource for teaching and learning bioinformatics on the low-cost Raspberry Pi computer.


We have developed an online machine learning based information extraction system called IDEAL-X. With its graphical user interface, the system's data extraction engine automatically annotates values for users to review upon loading each report text. The system analyzes users' corrections regarding these annotations with online machine learning, and incrementally enhances and refines the learning model as reports are processed. ('''[[Journal:Support patient search on pathology reports with interactive online learning based data extraction|Full article...]]''')<br />
Pupils’ feedback forms suggested our activities were beneficial. During the course of the activity, they provide strong evidence of increase in the following: pupils’ perception of the value of computers within biology; their knowledge of the Linux operating system and the Raspberry Pi; their willingness to use computers rather than phones or tablets; their ability to program a computer and their ability to analyse DNA sequences with a computer. We found no strong evidence of negative effects.
 
Our preliminary study supports the feasibility of bringing university-level, practical bioinformatics activities to school pupils. ('''[[Journal:University-level practical activities in bioinformatics benefit voluntary groups of pupils in the last 2 years of school|Full article...]]''')<br />


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''Recently featured'': [[Journal:Factors associated with adoption of health information technology: A conceptual model based on a systematic review|Factors associated with adoption of health information technology: A conceptual model based on a systematic review]][[Journal:Generalized procedure for screening free software and open-source software applications|Generalized procedure for screening free software and open-source software applications]], [[Journal:Human–information interaction with complex information for decision-making|Human–information interaction with complex information for decision-making]]
''Recently featured'': [[Journal:Support patient search on pathology reports with interactive online learning based data extraction|Support patient search on pathology reports with interactive online learning based data extraction]], [[Journal:Factors associated with adoption of health information technology: A conceptual model based on a systematic review|Factors associated with adoption of health information technology: A conceptual model based on a systematic review]][[Journal:Generalized procedure for screening free software and open-source software applications|Generalized procedure for screening free software and open-source software applications]]

Revision as of 18:12, 30 November 2015

Fig1 Barker IntJourSTEMEd2015 2.jpg

"University-level practical activities in bioinformatics benefit voluntary groups of pupils in the last 2 years of school"

Bioinformatics — the use of computers in biology — is of major and increasing importance to biological sciences and medicine. We conducted a preliminary investigation of the value of bringing practical, university-level bioinformatics education to the school level. We conducted voluntary activities for pupils at two schools in Scotland (years S5 and S6; pupils aged 15–17). We used material originally developed for an optional final-year undergraduate module and now incorporated into 4273π, a resource for teaching and learning bioinformatics on the low-cost Raspberry Pi computer.

Pupils’ feedback forms suggested our activities were beneficial. During the course of the activity, they provide strong evidence of increase in the following: pupils’ perception of the value of computers within biology; their knowledge of the Linux operating system and the Raspberry Pi; their willingness to use computers rather than phones or tablets; their ability to program a computer and their ability to analyse DNA sequences with a computer. We found no strong evidence of negative effects.

Our preliminary study supports the feasibility of bringing university-level, practical bioinformatics activities to school pupils. (Full article...)


Recently featured: Support patient search on pathology reports with interactive online learning based data extraction, Factors associated with adoption of health information technology: A conceptual model based on a systematic reviewGeneralized procedure for screening free software and open-source software applications