FAIR Dataset Landing Pages, Digital Research Objects, and Software Tools for LINCS and BD2K

The Library of Integrated Network-based Signatures (LINCS, http://lincsproject.org/) program generates a wide variety of cell-based perturbation-response signatures using diverse assay technologies. For example, LINCS includes large-scale transcriptional profiling of genetic and small molecule perturbations, and various proteomics and imaging datasets. The BD2K LINCS Data Coordination and Integration Center (DCIC) has been developing a collection of tools including data standards specifications, data processing pipelines and infrastructure, a metadata registration system, and a diverse suite of end-user software tools to support and implement an end-to-end solution from submitting LINCS datasets by the Data and Signature Generation Centers (DSGCs) to dataset publication via a Data Portal followed by integrated data analytics enabled by easy to use web-based tools. We will give an overview of LINCS tools with an emphasis on our long-term goal of persistent and FAIR (findable, accessible, interoperable, reusable) LINCS resources by connecting signatures, data processing pipelines, analytes, perturbagens, model systems and related concepts, and analysis software tools via uniquely identifiable digital research objects.

All LINCS Datasets are already indexed in bioCADDIE DataMed. In another example of BD2K and LINCS collaboration, we are working with the CEDAR Metadata Center to develop a LINCS Community Metadata Framework for end-to-end metadata management supporting authoring, curation, validation, management, and sharing of LINCS metadata. Shared metadata facilitated via re-usable, modular, and user-friendly CEDAR templates provide the prospect of cross-searchable linkable datasets connecting many different data generation programs.

In addition to building an advanced integrated knowledge environment, our Center supports several internal and external data science research projects and we have an active outreach and training program. Our software and data analytics resources, data science projects, and training programs are available at http://bd2k-lincs.org/.