Table of Contents
i2b2 Related Projects #
Many projects are lead by independent investigators and dock into i2b2.These projects may be hosted on the i2b2 community web site, and interactions with the i2b2 core team are often published on the site. However, these projects are under the control of the independent teams, with the content of the site reflecting the individual initiatives. Coordination is generally open and encouraged by the i2b2 team through at least biannual postings.
Related Projects
| Title | Description |
|---|---|
| C3-PRO FHIR Uploading Cell | C3-PRO Research Framework is an iOS framework written in Swift. Combining FHIR and ResearchKit, usually for data storage into i2b2, this framework allows you to use FHIR Questionnaire resources directly with ResearchKit and will return FHIR QuestionnaireResponse that you can send to your server. In addition, a FHIR Contract resource can be used to carry trial eligibility requirements and define content to be shown during consenting. Subsequently, the contract can be “signed” with a FHIR Patient resource and returned to your server, indicating consent. |
| CARE – Cohort Analysis & Refinement Expeditors | A collection of webclient plugins to facilitate the analyses & refinement of Patient Set usages. |
| CRC Tester | A Workbench plug-in that tests the CRC web services by Mike Mendis |
| Clinical Trender | The Clinical Trender aims to allow researchers to track and visualize certain clinical variables related to a selected patient cohort in order to understand the longitudinal changes of the cohort and potentially identify early signs of significant deviates in these variables. This function is inspired by the work of Brownstein, Sordo, Kohane, and Mandl, which demonstrated the potential of elucidating important temporal trends using healthcare databases. |
| Control Matching | A server side plugin to find a set of matched controls based upon a patient set. |
| Crimson | A project to make specimens available through i2b2 infrastructure, organized by Lynn Bry |
| ExportXLS | The i2b2 Web Client Plugin that tabulates patient data & applicable specified concepts; and facilitates export to spreadsheet. |
| FACE caGrid CQL2 Data Source | A caGrid/TRIAD data service that runs i2b2 queries via the RESTful interface to CRC |
| Familial, Associational, & Incidental Relationships (FAIR) Initiative. | A collection of DBA tools and webclient plugins to facilitate the identification of related concepts amongst related patients. |
| Federated Query Simulations | Simulations of federated query tools that return aggregate counts, such as SHRINE, by Griffin Weber |
| GARLIC | Genomic Analysis Results Library Integration Cell, organized by Brian Wilson |
| GIRI (Generic integration of R into i2b2) | A project to make arbitrary R functions available within the i2b2 Web Client. |
| Genomic NGS Tool | Next-Generation Sequencing Genomics tools for i2b2. New Sequence Ontology and tools to import NGS data. |
| HOMERUN | The Hospital Medicine Reengineering Network, organized by Nick Anderson |
| Health Ontology Mapper | A general purpose instance mapper and associated ETL processing function running as an i2b2 cell, organized by Rob Wynden at UCSF. |
| IDRT – Integrated Data Repository Toolkit | A novel rest API that allows short restful messages to communicate with i2b2. |
| Incorporating Number Of Studies Query capability in i2b2 | Implements an administrative interface that reports Buber of studies done in an i2b2 hive. |
| Loyalty Cohorts | Because electronic health records are often missing information about patients, we developed and validated a tunable computer algorithm to identify subsets of patients whose data are relatively complete and therefore better suited for clinical research studies. |
| NLP cTAKES Project | A project which integrates cTAKES and i2b2 to extract concepts via NLP from clinical narrative into the i2b2 observation fact’s format. |
| Normal Patient | This plug-in contains a database script that identifies “healthy normal” patients in an i2b2 CRC cell. This is important for clinical trials that need a healthy control group. It uses a set of ten heuristic filters. |
| ODM to i2b2 importer | i2b2 cell to import electronic data capture (EDC) data such as data from REDCap and import into i2b2. |
| OMOP | The legacy i2b2 data model is comprised of a central fact table (observation_fact) surrounded by multiple dimension tables (star schema). In the Observation Medical Outcomes Partnership (OMOP) Clinical Data Model (CDM) rather than a central fact table, we have a collection of them distinguished by domain: procedures, condition, drug, measurement, observation, etc. In this project, we modify the CRC to run queries against multiple domain fact tables as dictated by the metadata. |
| PopMedNet Tools | Using PopMedNet and i2b2 for Distributed Queries |
| Query Health | Integrating i2b2 and Query Health for standards-compliant population health management |
| REDCap Tools | Research Electronic Data Capture Organized by Mark Weiner |
| SCIHLS Disease Data Mart Request | Automated Creation of a new data mart with the SCILHS ontology for projects that are initiated by a SCILHS SHRINE query. |
| SETL – Standards-based Extract, Transform, and Load | Interoperability with standards-based clinical data formats, including HL7 Continuity of Care Documents |
| SHRINE | The Shared Health Research Information Network, organized by Doug MacFadden |
| SMART | Substitutable Medical Apps, reusable technologies i2b2 integration, organized by Nich Wattanasin |
| SNP Terminology development with VISTA | Creating Single Nucleotide Polymorphism terminologies that will survive versioning, organized by Lori Phillips |
| TimeAlign | TimeAlign displays the records and their events in a linear, zoomable timeline that allows investigators to quickly grasp the temporal relationships of important events. |
| i2b2 FHIR Cell | Built by Kavishwar Wagholikar, this i2b2 addition allows SMART cells to communicate with the i2b2 core using the Fast Healthcare Interoperability Resources. |
| i2b2 wizard | Useful tool for installing i2b2 from scratch organized by Sebastian Mate |
| i2b2-based Registries | An enhanced patient registry and an associated web based toolkit, organized by Keith Marsolo |
| mi2b2 | Medical Imaging Informatics Bench to Bedside, organized by Christopher Herrick |
