NOVINKA – Proteome Discoverer

Vážení proteomici,

unikátní SW Proteome Discoverer (PD) v. 2.4 byl uveden před nedávnem na trh a my Vám přinášíme stručné shrnutí, jak jej získat či upgradovat Vaši stávající verzi. PD nyní využívá stejný licenční mechanismus jako BioPharma Finder nebo Compound Discoverer. Pokud si objednáte Proteome Discoverer 2.4, dostanete email od ThermoMSLicensing@thermofisher.com s odkazem na stažení SW a licence ze serveru Flexera. Pro verzi 2.4 již nebude dostupná tzv. maintenance licence, kdy šlo po dobu jednoho roku zdarma upgradovat na nejnovější vydané verze. Pro starší verze je tato speciální utilita stále k dispozici. Zcela nový SW objednávejte pod kódem OPTON-30945 (Proteome Discoverer 2.4 Base & Quan), upgrady pomocí níže uvedené matice za použití kódů OPTON-30959, OPTON-20141 a OPTON-30957. V případě jiné nestandardní situaci či Vašeho požadavku, prosím, kontaktujte naše obchodní zástupce.

      

Detects multiple precursor masses within isolation window

Searches the MS/MS spectrum multiple times using each precursor mass

Each precursor mass may produce a different PSM

For high resolution MS/MS data, use of the Precursor Detector node may increase protein ID’s up to 10% and unique peptides by 20%.

Enables users to call external scripts developed in R, Python, or other programming languages in a Proteome Discoverer workflow.

This will most commonly be used as a post-processing node to perform further data analysis after a workflow is complete.

Nodes can also be registered for use in Processing or Consensus workflows.

The scripting node currently can only access data from PD result tables (e.g. Proteins, Peptide Groups, etc.). Raw MS data and study information are inaccessible.

Please consult the scripting node section of the help for more information about the node. Examples of scripts in R, Python, and Java are included on the USB media.

Default TMTpro 16plex modification and quantification method

New table for TMTpro 16plex correction factors

New default workflow for TMTpro 16plex quantification

Note: Users of previous versions of PD can import the TMTpro 16plex quantification method and the TMTpro 16plex modification to analyze such data in that version. At the time of publication of this PDI, these files were not available to download but should be from either the Thermo Pierce website or the Flexera download site in the near future.

The licensing mechanism has been changed to the same system as Compound Discoverer 3.1 and Biopharma Finder.

Updated license dialog

Users can now deactivate licenses to move their installation to a new PC.

The Protein Annotation node is now tied to the Proteome Discoverer base license. Users will no longer need an active maintenance license to use this node. 

Updated Familiarization Guide

Familiarization exercise 3 updated to include Precursor Detector node. 

ProSightPD 3.0 (see ProSightPD 2.0 PDI)

XLinkX for PD2.4

FAIMS compensation voltage column in CSM tables

Can view target-decoy distributions for manual validation of the false discovery rate calculation.