February 4, 2020
Laboratory Informatics Weekly Update

Volume 18, Issue 5


In This Issue

 Upcoming Webinars

02/11/2020 - Webinar: Protecting Healthcare Institutions from Cyber Attacks

02/19/2020 - Webinar: Operationalizing Business Associate Risk Management for Compliance with HIPAA Regulation

02/19/2020 - Webinar: LIMS Instrument Interfacing – The Times They Are A-Changing

02/27/2020 - Astrix Webinar – Best Practices for Conducting Data Integrity Assessments

 Journal Articles

One tool to find them all: A case of data integration and querying in a distributed LIMS platform

In this early 2019 journal article published in the journal Database, Grand et al. of the Candiolo Cancer Institute present the fine details of their laboratory information management system (LIMS) Laboratory Assistant Suite (LAS) for cancer and other genomic research. Citing "a substantial mismatch between the LIMS solutions on offer and the functional requirements dictated by research practice," the authors describe the requirements they had for a LIMS in their institution and how they went about creating it. After describing the data models, functionalities, modular architecture, and its usage, the authors conclude that their LAS, in conjunction with a custom data management module, allows researchers to "execute complex queries without any knowledge of query languages or database structures, and easily integrate heterogeneous data stored in multiple databases," while also resulting in an improvement in data quality, a reduction in data entry and retrieval, and new insights with the enabled data interconnections.

From command-line bioinformatics to bioGUI

The topic of making bioinformatics applications more approachable to researchers and students has been discussed off and on for years, and some efforts have even been made in that regard. Another step forward for bioinformatics applications is offered by Joppich and Zimmer of Ludwig-Maximilians-Universität München, with their open-source bioGUI. The software attempts to address two problems of bioinformatics applications that rely heavily on the command line: many of them work on Unix-based systems but not Microsoft Windows, and researchers have a tendency to shy away from complex command-line apps despite their utility. The authors present in detail their framework and its use cases, showing how a graphical user interface or GUI can make many such command-line apps more approachable. They conclude that providing a GUI and easy-to-use install modules for bioinformatics apps using the command line makes "execution and usage of these tools more comfortable" while allowing scientists to better analyze their data.

Big Data Analytics

This is a University of Adelaide course that is released on the edX platform. The ten-week course is designed for students to "learn key technologies and techniques, including R and Apache Spark, to analyze large-scale data sets to uncover valuable business information." The course is free to take, with a Verified Certificate of completion available for $150. This course is also part of Adelaide's Big Data MicroMasters program. The course requires on average eight to ten hours a week of effort. Access to the class begins Februay 3, 2020.

Demystifying Biomedical Big Data: A User's Guide

This is a Georgetown University course that is released on the edX platform. The eight-week course is designed to provide greater "understanding, analysis, and interpretation of biomedical big data to those in the biomedical field with limited or no significant experience in bioinformatics." The course is free to take, with a Verified Certificate of completion available for $49. The course requires on average three to six hours a week of effort. Access to the class begins September 9, 2019.
 Featured Discussions

01/29/2020 - Titrator TAN,TBN Curve error

01/22/2020 - Vendor response to LIMS URS

01/21/2020 - Need Some Advice - Cannabis Testing

12/17/2019 - strategic partners for new LIMS app platform.

12/10/2019 - I am an instrument vendor and I have a question regarding data standard


National Institutes of Health (NIH) Research and Upcoming Events – February 2020

Business Benefits of a LIMS

Water Outlook integration added to QLIMS

Future Advances in LIMS and ELN Technology


02/04/2020 - One Dorset Pathology latest network to adopt a single LIMS from CliniSys

02/04/2020 - Swift Biosciences and Opentrons Partner to Provide a Turnkey Automated NGS Library Preparation Workflow

02/04/2020 - Science Experiments from Vernier Software & Technology Now Available in LabArchives Lab Builder

02/04/2020 - Benchling Unifies Hardware with Software to Maximize Lab Automation Investments

02/04/2020 - XIFIN RPM 11 Provides Diagnostic Labs with Unmatched Insights and Automation to Improve Claim Accuracy and Reimbursement

 Upcoming Trade Events

02/12/2020 - Seed to Sale Show

02/17/2020 - SmartLab Exchange Europe

03/01/2020 - Pittcon

03/09/2020 - HIMSS 2020

04/21/2020 - Paperless Lab Academy 2020

 Bid Opportunities

02/14/2020 - Request for Tender: Development, Testing, Configuration and Implementation of a Laboratory Information Management System (LIMS)

02/17/2020 - Request for Bids: Laboratory Information Management System for Washington State University College of Veterinary Medicine

02/21/2020 - Request for Bids: LIMS for Veterinary Laboratory Services

02/28/2020 - Presolicitation: Anatomic Pathology Laboratory Information System (APLIS)

03/04/2020 - Request for Proposal: Installation and Implementation of a Laboratory Information Management System (LIMS) for the Milwaukee Water Works Water Quality Laboratory

Become a Sponsor
CSols Inc.
Autoscribe / Autoscribe Informatics, Inc.
Thermo Fisher Scientific
LabLynx, Inc.
Abbott Informatics Corporation
Astrix Technology Group
Blaze Systems Corporation
ApolloLims / Common Cents Systems, Inc.
Computing Solutions, Inc.
OnQ Software
Paperless Lab Academy
Hudson Robotics, Inc.

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