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Strategic Health IT Advanced Research Projects (SHARP) -
Research Focus Area 4 - Secondary Use of EHR Data -
Increasing efficiency of patient care through electronic healthcare records
Mayo Clinic, long a leader in the science of health care delivery, is proud to be a recipient of the Strategic Health IT Advanced Research Project award. The SHARP Program – part of the Office of the National Coordinator for Health Information Technology, is focused on improving quality, safety and efficiency of health care through Information Technology.
Area four's SHARP project will enhance patient safety and improve patient medical outcomes through the use of an electronic health record. Traditionally, a patient’s medical information, such as medical history, exam data, hospital visits and physician notes, are stored inconsistently and in multiple locations, both electronically and non-electronically. We propose research that will generate a framework of open-source services that can be dynamically configured to transform EHR data into standards-conforming, comparable information suitable for large-scale analysis, inferencing, and integration of disparate health data.
Area four's mission is to enable the use of EHR data for secondary purposes, such as clinical research and public health. By creating tangible, scalable, and open-source tools, services and software for large-scale health record data sharing, this project will ultimately help improve the quality and efficiency of patient care through the use of an electronic health care record.
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2012 SHARPn Summit "Secondary Use" June 11-12, 2012 - RESERVE YOUR SEAT TODAY
Building solutions that matter
- Enabling secondary use of EHR data to generate new
- knowledge, improve care, and address population needs
SHARPn—one of the grantees of the Strategic Health IT Advanced Research Projects (SHARP) program—would like to invite you to its 3rd annual meeting on June 11-12, 2012 on the University of Minnesota Rochester Center campus to present and discuss work in the following areas:
- Standards, Data Integration & Semantic Interoperability
- Natural Language Processing
- Phenotyping: clinical trial selection, clinical decision support, quality measurement
- Software evaluation
You should attend if you want to:
- Learn more about SHARPn and the health IT field
- Explore technologies and tools that enable secondary uses of EHR data
- Participate in a hands-on tutorial from experts on how to better leverage secondary data using open source tools
- Present your paper or poster on related topics through a peer reviewed process
- Work side-by-side with community leaders to develop and refine customer and stakeholder requirements
Please join us in Rochester, MN in June. The meeting will include tutorials, published paper and poster presentation, technical demos and code-a-thon opportunities. Meeting registration is free, and breakfast and lunch will be provided for registered attendees.
Registration
Registration is free and breakfast and lunch will be provided.
Registration Link: http://www.surveygizmo.com/s3/887692/2012-SHARPn-Summit
Guest rooms have been reserved at DoubleTree and Hilton Garden Inn.
- DoubleTree by Hilton Rochester/Mayo Clinic Area
- 150 South Broadway
- Rochester, MN 55904
- For reservations please call the hotel direct at 507-281-8000 and ask for the “Area 4 SHARP Face to Face Conference” block or click on the following link http://doubletree.hilton.com/en/dt/groups/personalized/R/RSTDTDT-SHA-20120610/index.jhtml?WT.mc_id=POG
- Check in: 3:00 pm
- Check out: 1:00 pm
- Hilton Garden Inn Rochester Downtown
- 225 South Broadway
- Rochester, MN 55904
- For reservations please call the hotel direct at 507-285-1234 and ask for the “Area 4 SHARP Face to Face Conference” block or click on the following link http://hiltongardeninn.hilton.com/en/gi/groups/personalized/R/RSTRHGI-SHA-20120610/index.jhtml?WT.mc_id=POG
- Check in: 3:00 pm
- Check out: 1:00 pm
Call for Paper, Poster and Demo Presentations
New this year, the SHARPn Summit will provide the opportunity for colleagues to present and discuss their work. SHARPn would like to invite paper, poster and demo presentations on the following themes:
- Healthcare data standards
- Data Integration and knowledge acquisition
- Semantic interoperability in healthcare data
- Natural Language Processing of clinical data
- Phenotyping and patient cohort identification using electronic health records
- Clinical data quality
- Methods and approaches for healthcare software evaluation
- Applications in clinical trial selection, clinical decision support, quality measurement, and population health management
- Call for Paper Abstract
- The paper abstract must be original, i.e. not published in an earlier workshop or conference or journal. Papers shall be accepted or published research and with at least one person with a PhD in the list of editors. Upon acceptance peer-review will be conducted by the SHARPn investigators. Authors of accepted abstracts will have 15 minutes to present and allow for questions on their work at the summit. There will be a limit of 10 slides. Proceedings and slides will be published on freely accessible archive site and will retain material copyrights . Paper abstracts are limited to 300 words.
- Call for Posters
- Each accepted poster will be displayed during a dedicated poster session. At least one author must be present at their assigned poster session. Poster abstracts are limited to 300 words. Electronic versions of the posters may also be sent to be published.
- Call for Demos
- Each accepted demo will be displayed during a dedicated demo session. At least one author must be present at their assigned demo session. Demo abstracts are limited to 300 words.
- Submission instructions
- Please complete the SHARPn summit registration form (http://informatics.mayo.edu/sharp/index.php/Annual_Gathering) to be prompted for abstract submission(s).
Submissions are DUE May 18th COB.
Tools
Data Normalization
Clinical Element Model (CEM) Search Tool. Website: http://intermountainhealthcare.org/cem
Natural Language Processing
Introducing cTAKES 1.3.2
December 23, 2011
An updated release of the Clinical Text Analysis and Knowledge Extraction System (cTAKES) is now available, cTAKES 1.3.2.
This update now allows inclusion of a set of UMLS dictionaries (SNOMED-CT and RxNorm). The Dictionary Lookup component now includes these dictionaries for doing SNOMED CT and RxNorm Named Entity Recognition out-of-the-box. You no longer need to take an extra step to get production level dictionaries except to supply a UMLS username and password. As well, two new annotators--Constituency Parser and Coreference resolver are included in this new release.
https://cabig-kc.nci.nih.gov/Vocab/KC/index.php/CTAKES_1.3
Introducing cTAKES 1.2.2 and NEW integrated version icTAKES
October 20, 2011
The Mayo SHARP (SHARPn) Natural Language Processing (NLP) team is excited to announce an updated release of the Clinical Text Analysis and Knowledge Extraction System (cTAKES), cTAKESv1.2. cTAKES is a free and open source NLP system distributed by Mayo Clinic through Open Health Natural Language Processing (OHNLP) consortium which allows researchers to utilize clinical information stored in free text through NLP techniques.
cTAKES release 1.2 includes a new annotator (beta version), SideEffect, which extracts physician-asserted drug side effects from clinical notes. This release also introduces an integrated version of cTAKES, icTAKES, which provides an integrated version of cTAKES for end users and developers. To distinguish these two cTAKES versions, cTAKES is distributed as cTAKES1.2.1 and icTAKES is distributed as cTAKES1.2.2.
https://cabig-kc.nci.nih.gov/Vocab/KC/index.php/CTAKES_1.2
Clinical NLP Evaluation Workbench
October 17, 2011
SHARPn NLP team is excited to announce the release of Clinical NLP Evaluation Workbench ( http://orbit.nlm.nih.gov/resource/clinical-nlp-evaluation-workbench). The intended audiences of the tool are NLP researchers and developers.
New cTAKES Annotator Now Available.
March 14, 2011
The SHARP 4 NLP team is excited to announce the release of a new annotator in cTAKES. This is the second cTAKES release from efforts completed through the ONC-funded SHARP project.
This release includes a Smoking Status Classifier that processes clinical documents and identifies patients’ smoking status at the patient level as well as the document level. This pipeline will generate one of five smoking status categories: past smoker, current smoker, smoker, non-smoker and unknown.
This annotator is modular, so if you already have cTAKES installed you can add this piece without having to re-install cTAKES.
Click here to download: https://cabig-kc.nci.nih.gov/Vocab/KC/index.php/OHNLP_Documentation_and_Downloads
The SHARP Area 4 NLP team is excited to announce the release of cTAKES 1.1.
December 22, 2010
- This is the first cTAKES release from efforts completed through the ONC-funded SHARP project.
- The new software includes an updated medication annotator that will allow researchers to extract drug mentions from clinical free text. This was first developed under a grant from the AT&T Foundation. It includes features such as: Frequency; Dosage; Strength; Form; Route; Duration; Drug change status.
- This version of cTAKES also includes a dependency parser — a foundational component that analyzes syntactic structure. This building block enables the development of future cTAKES components that utilize grammatical context to extract events, attributes, and relations from clinical documents.
- Click here to download: https://cabig-kc.nci.nih.gov/Vocab/KC/index.php/OHNLP_Documentation_and_Downloads
- Stay tuned. The team is working on more updates to cTAKES that will advance the secondary use of Electronic Health Record data.
Useful Links
