The small molecule discovery process is becoming ever more data-driven. The analysis of scientific project data to drive decisions on the progression of chemical series is a critical activity in each discovery cycle. The Dotmatics solution for chemistry design empowers medicinal and synthetic chemists with analysis tools designed from the ground-up for them. This helps them make the best-informed decisions. It can also relieve the burden on data-scientists and computational chemists, ensuring that each cycle in the discovery process can be completed as efficiently as possible.
Too often visualization and analysis tools are designed for data scientists or computational chemists. They are powerful, but require dedicated expertise that can be limited in its availability. So projects decision can be fully informed but must wait for that resource, or can be timely but may have to be based on less than complete data and analysis. A solution designed for use by chemists themselves can support decision making that is both best-informed and timely
From one round of synthesis to the next there are many important tasks: collecting and organizing all of the project’s SAR data, visualizing and analyzing it, applying models to making decisions and then designing the next molecules or library. Chemists should be guided through these in a continuous workflow, without needing to use multiple disjointed applications or having to ever move data manually between programs
Project meetings and reports are often based around static snapshots of project data. These rapidly become stale, and are typically assembled manually so prone to error. All members of the project team should have real-time access to all the project data throughout the data review and decision making processes.
One of the hardest challenges in data analysis can be assembling a complete set of project data in the first place. The Dotmatics search capability allows project scientists to search and gather all relevant project data, irrespective of whether it is in Dotmatics databases, scattered across multiple third party systems or in corporate datamarts or warehouses.
Using the search capability allows all relevant project data to be assembled for analysis, without the need to manually join data that has been collected in multiple applications, ensuring that errors are not introduced before analysis. Exploratory queries can be run on demand, or standard project queries defined and run on an automated schedule to identify the latest data.
They key to our solution is a visualization and cheminformatics application that provides a simple guided web user interface. This is explicitly designed for bench scientists who are not data analysis experts and may not spend all day, every day in data analysis tools. It provides
An interactive design environment allows chemists to build and execute workflows to
With Dotmatics high speed chemistry search, massive databases of available reagents (such as the e-Molecules collection) can be used to quickly identify available reagents sets for library enumeration. The same capability can be used to filter commercially available screening compound collections to identify those to purchase to augment corporate collections, or to expand known SAR for a project
The entire process of gathering all project data, and then loading it into the analysis application is fully integrated and straightforward. This removes any point at which files need to be moved manually preventing cut-and-paste errors that might occur. The roundtrip from analysis back to dataset browsing is also part of the fully integrated workflow, so for example an interesting subset of molecules can be selected during analysis and then returned as a new hitlist, which in turn can then be used to set up a work request for those compounds to be screened in a follow up assay panel.
Once enumerated, design libraries can be loaded directly into analysis to select a subset for synthesis and then these can be used to automatically experiments in the ELN ready for their synthesis. Once again, there is no manual data manipulation, so the process is error-proof and maximally efficient.
Regular project team meetings to review project data and make decisions about future directions are a standard part of the drug discovery process. Very often these review data snapshots that are manually assembled into PowerPoint presentations. The manual assembly of these is time consuming and prone to error. The data once assembled, is static, as are the views that are reviewed during the meeting.
Reviewing data that is stale, and may have errors, can lead to decisions that may not be the best, and may take the project down the wrong path. Reviewing static views does not allow for “what-if” brainstorming discussions during team meetings
Using the Dotmatics visualization solution as a portal into live data during project meetings ensures that the data is accurate and up-to-date, and allow views to be refined on the fly to allow real-time data exploration while brainstorming.
Blueprint is a web-based visualization and scientific analytics application. It is designed to help project scientists working on small molecule discovery projects to visualize and analyze their project data, and to help them to design their next set of compounds to make.
Dotmatics Reaction Workflows is a graphical environment that enables scientists to build and execute data processing workflows to perform common cheminformatics tasks, such as library enumeration, structure normalization and compound profiling. Users build workflows in a drag-and-drop environment by selecting and connecting nodes that provide inputs (e.g a list of reagents) and outputs (e.g. view in Dotmatics Vortex) or perform actions (e.g. perform a reaction), configuring them with data and then executing the workflow to produce results. Many different tasks can be configured including:
Dotmatics Chemselector manages very large chemistry datasets with fast search and trivially simple maintenance/update. It has a modern user interface focused on browsing and filtering for molecule, reagent and sample selection. The available eMolecules+ for Chemselector dataset provides access to highly curated eMolecules sourcing data.
eMolecules+ for Chemselector
Dotmatics Studies Notebook is an Electronic Laboratory Notebook (ELN) with flexible templating to capture, store and search experiments from all scientific disciplines.
Dotmatics Vortex is an interactive data visualization and analysis solution for scientific decision support. Building on and extending the spreadsheet paradigm, it provides the data manipulation, statistical analysis and sophisticated plotting capabilities required to explore and understand any complexity and size of data. Vortex is also scientifically aware providing native cheminformatics and bioinformatics analysis and visualizations.