LabKey Server

Our kudos to Angela Rasmussen and her collaborators in the Michale Katze lab at the University of Washington for developing a method that allows researchers to link genetic background to susceptibility to Ebola infection using a new mouse model. ... [More] Their team uses LabKey Server to manage the data for this ongoing work, coordinate shipments of samples and mice, and share data post-publication. [Less]

Join us for an overview of LabKey Server at the November installment of the fhcrc.io seminar series:

LabKey congratulates the National Cancer Institute's Proteomics Tumor Analysis Consortium (NCI-CPTAC) on the launch of its new assay for portal for tumor proteomics. The portal uses Panorama (and thus LabKey Server) for entry and analysis of ... [More] proteomic assay data. Panorama is a repository for targeted proteomics that is implemented on LabKey Server. From the NCI news release: "In a paper recently published by the journal Nature Methods, Investigators from the National Cancer Institute’s Clinical Proteomic Tumor Analysis Consortium (NCI-CPTAC) announced the launch of a proteomics Assay Portal for multiple reaction monitoring-mass spectrometry (MRM-MS) assays.  This community web-based repository for well-characterized quantitative proteomic assays currently consists of 456 unique peptide assays to 282 unique proteins and serves as a public resource of methodologies and data related to cancer associated targets..." Read more... On the portal, you can see data from Panorama about half-way down on protein detail pages, such as this one. [Less]

Kudos to our long-time partners in the Dr. Michael MacCoss lab at the University of Washington for leading the publication of a new paper on the Panorama platform and including LabKey collaborators. Panorama is a repository for targeted proteomics that is based on the LabKey Server open source platform.

LabKey will present at talk at the Bioinformatics Workshop preceding the first international conference on Systems Biology of Infectious Disease in Seattle this August.

We're pleased to announce the opening of registration for the 2014 LabKey User Conference and Workshop.

Seattle author Chris Tachibana's new article in Science examines "The Paperless Lab."  A section explores LabKey as an open source option for moving to electronic management of complex lab data.

Title: Panorama: Managing and Analyzing Large Data Sets Developers from the Skyline and LabKey Software teams will share some of the exciting projects that are using Panorama as a key component in their targeted mass spec workflows. They will also ... [More] present ways to create custom reports and analytics using Panorama, and give an overview of recent enhancements, including new support for iRT. When: Tue, August 19, 2014 9:00 AM - 10:00 AM PDT Space is limited, so please reserve a webinar seat - it's free. Reservations: https://attendee.gotowebinar.com/register/4105609763172337922After registering you will receive a confirmation email containing information about joining the webinar. [Less]

LabKey Software congratulates the Immune Tolerance Network's (ITN) TrialShare team on winning the National Academy of Sciences Data and Information Challenge.  The Academy's contest highlights leadership and innovation in "Using Data for the Public ... [More] Good." ITN TrialShare is a clinical trials research portal based on LabKey Server that was developed by the ITN in partnership with LabKey Software. Details from the ITN: "The ITN’s entry, entitled “ITN TrialShare: Enabling True Clinical Trial Transparency” describes the unique data sharing portal developed by the NIH-sponsored clinical research consortium. The system provides clinical trial investigators an unprecedented ability to share data with other researchers. Among its unique features are the ability to access raw de-identified participant level study data, review published analysis methods, and perform real-time interactive graphical analyses in collaboration with other researchers. ...With a number of high profile drug failures in the past decade, there is a growing movement within government, industry, and academia for greater transparency in the reporting of clinical trial results. Substantial progress has been made in reaching consensus on the need for change; however a number of technical and procedural challenges have limited the ability to implement effective solutions. ITN TrialShare has been created to specifically address many of these issues. “Modern clinical trial data is highly complex, often including information related to genetic testing and other high throughput techniques that generate a lot of data,” says Adam Asare, ITN Director of Bioinformatics. “What we’ve done is create a set of intuitive tools that allow researchers to share and analyze their data in multiple ways – you can be an expert statistician or a novice, and find what you need.” Anyone with a valid email address can self-create a free ITN TrialShare account in minutes and start accessing hundreds of datasets for dozens of completed studies, data and analyses.  ITN TrialShare currently has data and specimen bio-repository information associated with 35 trials and 3,200 participants available to the public in the therapeutic areas of transplant, allergy, autoimmunity, and type I diabetes..." ...more [Less]

The LabKey team is pleased to announce LabKey Server v14.2, the 30th public release of the platform.  We've filled it full of tools from user wish lists.