Use of connectivity mapping to support read across: A deeper dive using data from 186 chemicals, 19 cell lines and 2 case studies

New Tricks for Old Guys: Recent Developments in the Chemistry, Biochemistry, Applications and Exploitation of Selected Species from the Lamiaceae Family

“…As previously mentioned, this approach is applied also to natural products and plant extracts, [19,20] and recently it has been supported by several tools such as the Connectivity Map (CMap), the Library Integrated Network based Cellular Signatures (LINCS), the Ge-nome Wide Association Studies (GWAS), the Side Effect Resource (SIDER), and the Directionality Map (DMAP), which have significantly reinforced the drug repurposing applications. [21][22][23][24][25] These recent studies besides to be applied to fight the main pathologies previously described appear particularly promising in the research of therapeutic tools against the so-called rare or orphan diseases, which are often chronic and progressive without an appropriate drug equipment as well as focused pharmaceutical studies.…”

“…This approach applied in these last years in the pharmaceutical sector has been mainly developed for economic reasons (but not only) because the production of a new drug is a very long (13–15 years) and very expensive (2–3 US$ billion) process, whereas the cost of a pharmaceutical repurposing of an old drug is about 300 million of US$, since in this case, the toxicity and clinical studies have been already carried out. As previously mentioned, this approach is applied also to natural products and plant extracts, and recently it has been supported by several tools such as the Connectivity Map (CMap), the Library Integrated Network based Cellular Signatures (LINCS), the Genome Wide Association Studies (GWAS), the Side Effect Resource (SIDER), and the Directionality Map (DMAP), which have significantly reinforced the drug repurposing applications …”

Drivers of and Obstacles to the Adoption of Toxicogenomics for Chemical Risk Assessment: Insights from Social Science Perspectives

“…2018 ); an academic team built the Toxicogenomics-1000 (T1000) gene set based on analyses of in vivo and in vitro data from human and rat studies from the Toxicogenomics Project-Genomics Assisted Toxicity Evaluation System (Open TG-GATEs) database ( Soufan et al. 2019 ); and a group of industry researchers used the Connectivity Map (CMap) concept in a read-across study that spanned 186 chemicals and 19 cell lines ( de Abrew et al. 2019 ).…”

Comparison of Approaches for Determining Bioactivity Hits from High-Dimensional Profiling Data

“…High-throughput profiling (HTP) assays are untargeted screening assays that measure a large number (hundreds to thousands) of cellular features to capture the biological state (i.e., phenotype) of a cell. 1 Examples of HTP assays are “omics” technologies, including transcriptomics 2–4 and imaging-based morphological profiling, such as Cell Painting. 5,6 HTP assays have been used in various research settings, including academia 7,8 and industry, 4 to characterize the biological activity of chemicals or genetic manipulations using a variety of different cell models and assay technologies.…”