We are very pleased to announce the user joint meeting between Molecular Discovery Ltd. and AB SCIEX.
This meeting will show the new features of MetaSite, Mass-MetaSite, WebMetabase from Molecular Discovery as well as Metabolite Pilot WP from ABSCIEX, practical hands on sessions on these software with the experts and presentations from users on how they enhance their workflows by using our software.
The meeting is address to ADME, Metabolite Identification experts and user of Metabolite Pilot/MetaSite-MassMetaSite-WebMetabase users.
The meeting will be held at the Molecular Discovery facilities in Perugia Italy on the 14th and 15th of May 2014.
The number of places are limited. Please, contact us as soon as possible
Download the meeting preview here
WebMetaBase is a server-based application that is used for metabolite identification data storage, reviewing metabolite identification experiments, and extracting the maximum knowledge from the information loaded into the system.
We are now pleased to announce the release of version WebMetaBase 2.0 with new and improvement capabilities to further streamline experimental protocols like metabolite identification, reactive metabolite trapping, Soft Spot identification, etc.
New features in WebMetaBase 2.0
- New search capabilities:
- Definition of search domains.
- Save searches ( criteria and result snapshot).
- New view for the search results in the form of a table (review tool).
- User control enhancement in the experimental analysis:
- Experimental flag system, user defined chromatographic filters, re-numbering of metabolites, user defined metabolite names, metabolite group definition, customizable view of the chromatogram data, manual edition for Markush structures, etc.
- Handling of isotopes.
- Handling of UV signal and Radio signal in the chromatogram browser.
- Specific workflows for GSH trapping experiments.
- New protocol controls:
- Enable/disable protocol to be used.
- A specific replicate variable and calibration variable definition.
- Assign protocol instances directly to a folder.
- New Analysis tool called Fragment Analysis: to search in approved experiments for specific substructures to study frequency of metabolism and reactions involved.
- Administrative controls for maintenance and new documentation to develop the IT WebMetaBase infrastructure.
Mass-MetaSite is a new approach for the automatic identification of metabolites from Liquid Chromatography – Mass Spectrometry data, reducing manual analysis from several hours to only a few minutes per compound
We are now pleased to announce the release of version Mass-MetaSite 3.0 with improvements in signal treatment and also with new workflows that helps in the daily work of ADME scientists.
New Features in Mass-MetaSite 3.0
- Exclusion List for m/z values made available for MS peaks.
- Improved chromatogram peak correlation measurement for a more accurate filtering of the MS spectrum.
- Customizable neutral loss and fragment ion definitions for GSH metabolites detection.
- Added cyanide and methylhydroxylamine trapping.
- Easy activation/deactivation of uncommon reactions.
- Improved discarding of metabolites peaks coming from background noise.
- Importing and exporting of GUI and batch processor settings.
- Processing of Radio files now supported by the batch processor.
- Automatic filtering of unusual metabolites for Markush simplification.
- Typical Glucuronide neutral loss (-176) taken into account for MetId.
- SD File format exporting.
- Activation/Deactivation of double-charged peak search. Improved isotopic pattern checking for double-charged ions detection.
- Better smoothing algorithm for chromatogram peak detection. Smoothing level can now be fine-tuned inside the settings.
- Batch processor sample list wizard for direct interaction with WebMetaBase 2.0.
We are pleased to announce the release of MoKa 2.5 for fast and accurate pKa, tautomer, logP, logD and IEP modelling.
As with every version, many literature compounds have been experimentally retested to improve our confidence in the models; with this release 40 of the 55 models have been recomputed based on this new data.
Additionally, structural input has been improved to make it more efficient and less affected by external factors; for example, counterions are now automatically stripped during LogP-LogD and IEP calculations.
Recognized ionizable centres that are predicted with lower certainty are now shown, to enable Users to see where they should focus their efforts to improve the provided models.The molecule isoelectric point (IEP) is now computed. Finally, the model training module Kibitzer is now accessible command-line, enabling users to automate custom model building as new company data is obtained.
More information about MoKa can be found here
PharmBench 1.0 is a community benchmark dataset for the evaluation of molecular alignment and pharmacophore elucidation approaches, containing 960 aligned ligands across 81 targets. The pharmbench.moldiscovery.com site has now been updated with a web service, so that users can score their own alignment models using the same objective scores described in the original publication.
We are pleased to announce new software releases for all of our metabolism platform software. Whilst Mass-MetaSite already enables computer-assisted peak detection and assignment for MetID independently of hardware platform, users can now check the raw data, manually select peaks and assign structures in WebMetaBase 1.2 without having to go back to the hardware platform specific software. With a single click, see if metabolites have been identified in previous analyses, using not only Markush representations of structure but also the the MSMS spectra comparison. This in turn allows users to directly compare experiments – are the same metabolites produced by an in vitro system compared to an in vivo one? How do the metabolites compare across different species?
Along with these major new features, many other features have been introduced to improve workflows, for example including additional metabolic transformations, improved filtering and processing of MS spectra, improved fragmentation rules, improved organisation and navigation of different experiments, visualisation of the predicted interactions with specific Cytochromes, and more.