Lab Matters Fall 2022 | Page 68

APHL 2022 POSTER ABSTRACTS
Informatics decreases the advanced technical computing expertise typically required to set up and perform advanced bioinformatics analyses of sequencing data . LIMS Lite contains a partner communication portal that facilitates secure sharing of sample metadata , input files and results to appropriate partners . LIMS Lite is built with a set of containerized open-source modules enabling local- or cloudbased deployments that can be rapidly scaled for an efficient response to emerging outbreaks . The LIMS Lite platform will ensure that the CDC and other public health partners have the software and infrastructure required to establish consistent end-to-end sample processing from specimen preparation through in-silico bioinformatics analysis and data reporting to facilitate near-real time surveillance activities .
Presenter : Bonny Van , J Michael Consulting , LLC , blewisvan @ jmichael-consulting . com
Using Rhapsody to Support Instrument Interfaces for Public Health Laboratories
J Kondamuri , MK Yost-Daljev , J Park , C Pasfield and T Hardin , J Michael Consulting , LLC
Public health laboratories ( PHLs ) use instruments with a diverse set of capabilities and complexity that integrate with laboratory information management system ( LIMS ) applications . Existing instrument interfaces are rigid , often proprietary and tightly coupled . Development and maintenance of such interfaces is complex , time consuming and dependent on third-party software , as well as unnecessarily expensive . These factors can deter PHLs from implementing instrument interfacing . An architecture that is loosely coupled , reusable and able to support agile implementations can be a cost-effective and sustainable alternative for any laboratory . J Michael Consulting ( JMC ) is using Rhapsody to integrate laboratory instruments with LIMS . Rhapsody has built-in standard communication adaptors to connect with instruments . The Rhapsody components are portable , modular and reusable . These features give the flexibility of a plug-and-play model to integrate different instruments with minimal development effort . Using an iterative approach of instrument connectivity , results code mapping , Rhapsody route development and user acceptable testing , the team was able to interface a wide variety of instruments , saving the laboratory significant time .
Presenter : Mary Kate Yost-Daljev , J Michael Consulting , myostdaljev @ jmichael-consulting . com
Modernizing Data Exchange in Public Health Laboratories
MK Yost-Daljev , J Kondamuri , J Park , C Pasfield , T Hardin , L Parlier and E Jordanov , J Michael Consulting , LLC
In order to perform their mission to surveil , protect and improve the health of populations , public health laboratories and agencies rely on a diversity of applications and tracking systems . These systems must be able to send and receive data with many different data sharing partners , including systems used by healthcare providers ; by public health analysts at the local , state and federal level ; and by different programs within the agency . This data sharing can present an enormous challenge , requiring the translation and transformation of data from various standards and formats to exchange , ingest and use the data in a meaningful way . The pandemic has placed increased strain on these overtaxed systems , as well as a new urgency to improving public health data exchange . Integration engines such as Rhapsody present an agile way to integrate systems , share data and report information to public health . J Michael Consulting ( JMC ) is partnering with multiple state and federal partners to leverage Rhapsody , Mirth and other tools to create crate robust designs that are scalable and loosely coupled to support ever-changing public health needs . The solutions that we are implementing use a combination of existing architecture and new technology to modernize , consolidate and automate existing systems to improve the processes of data exchange for surveillance and reporting . Use cases include Electronic Laboratory Reporting ( ELR ), Electronic Laboratory Surveillances Messages ( ELSM ), Electronic Test Orders and Results ( ETOR ), electronic case notifications , electronic case reports ( eCR ) and billing . JMC has also automated yearly fiscal years , monthly overdue reports and daily statistical reports . We are developing a PowerBI dashboard to present messaging activity to agency leadership in an actionable format . Many of the solutions that we built responded to the strains of COVID reporting and testing volumes , but our goal is to build tools that are system and workflow agnostic . Agencies and laboratories can quickly adapt and deploy these solutions within their own systems .
Presenter : Jyothi Kondamuri , J Michael Consulting , jkondamuri @ jmichael-consulting . com
Leveraging Strategic Consultation for Informatics Modernization
B Lewis Van , A Prada and MK Yost-Daljev , J Michael Consulting
Laboratory informatics systems selection support services is a need for public health laboratories on an infrequent basis . The typical laboratory software system is used for a decade or longer . This means when replacement is needed and financially possible , the expertise to guide the selection process is often not available internally . The purpose of this presentation is to present a method to leverage independent consultants to make strategic decisions on laboratory informatics . Over a period of 10 years , we have created tools , documented themes and commonalities , and delivered approaches for informatics creation and implementation in public health laboratories . We have served as an extension of the laboratory leadership and staffing and as a go-between from software vendors to the laboratory . We will present a general approach to systematically determine informatics needs , evaluate existing software options , formulate system requirements and manage the implementation . Tools , tips and tricks will be shared . This approach can form the basis to identify the right consulting partners for strategic planning and implementation purposes .
Public health laboratory leadership will be provided with an approach to methodically identify resources to augment IT and laboratory staffing to support laboratory informatics infrastructure .
Presenter : Bonny Lewis Van , J Michael Consulting , blewisvan @ jmichael-consulting . com
66
LAB MATTERS Fall 2022