OpenMS Team

Our study on FDR estimation bias in top down proteomics (TDP) proteoform ID is published in Proteomics! Errors in precursor mass determination is frequent in TDP and the false proteoform IDs from them are not well controlled via target decoy! …iencejournals.onlinelibrary.wiley.com/doi/10.1002/pm…. .

And as the name implies, it is very fast!! If you want to check the accurate proteoform abundance in no time, e.g., for your large scale studies, FLASHQuant should be your choice!

FLASHQuant reports the area of the LC-MS features corresponding to each monoisotopic mass, i.e., each proteoform mass. It also disentangles the shared features between different proteoforms, using shape fitting and signal decomposition.

Preprint alert!! Our new MS1-level label-free quantification tool for top-down proteomics FLASHQuant is presented in BioRxiv!! As a part of OpenMS @OpenMSTeam, FLASHQuant is freely available and open source! Check out: biorxiv.org/content/10.110…

Folks! We have created a survey to better understand users' experience with OpenMS. The survey is short, and we would love to hear your opinions on what's good and bad! Please share your thoughts surveymonkey.de/r/9F6TMJL #proteomics #metabolomics #lipidomics #TeamMassSpec #PhD

Recent version 1.1.0 of quantms is now out. You can now perform DIA using DIA-NN, DDA-TMT, DDA-LFQ, and Phospho localization analysis. Everything is based on standard file formats including mzML, SDRF, mzTab. Great collaboration with @DemichevLab @OpenMSTeam @nf_core teams.

If we were to do a one-hour online 'seminar'/Q&A focusing on complex workflows in OpenMS, what tools would you like us to discuss? 👀 #MassSpec #TeamMassSpec #proteomics #metabolomics

Samuel Wein just published a detailed step-by-step protocol on how to analyze #RNA sequences and modifications using NucleicAcidSearchEngine! Check it out! Congrats Sam! 😄 link.springer.com/protocol/10.10… #MassSpectrometry #TeamMassSpec #MassSpec #Epitranscriptomics #transcriptome

Happy New Year! 🥳🎉

@GarciaLabMS Petition to add a category for the spookiest data/plots. We submit this beast of a chromatogram for the academy consideration. 😂 #TeamMassSpec #AcademicChatter #AcademicTwitter #phdchat

Worried about not having data to show at the next group meeting? Make interactive plots to distract/impress!😆PyOpenMS lets you interface with python packages to make interactive MS data. Here, we used it to zoom on an ion mobility trace #TeamMassSpec Doc: pyopenms.readthedocs.io/en/latest/inte…

@ypriverol We love them all :)

Which #HUPOPSI22 format do you use, or you are planning to use?

Massive collaboration with @OpenMSTeam and @DemichevLab to allow Quantitative MS-based data analysis distributed and in the cloud. quantms allows analyzing DDA-LFQ, DIA-LFQ, DDA-ISO (TMT) proteomics data.

We are excited to announce our summer 2022 fellowship!! Great opportunity for grad students with #MassSpec background to receive training in #CompMS. The application deadline is May 6. #AcademicTwitter #opensource #proteomics #Metabolomics #Lipidomics #TeamMassSpec

We are looking for additional technical writers for our Google Season of Docs 2022 proposal! Great opportunity for students to get involved in computational #MassSpec! Reach out to us on Gitter/Discord for questions! #GSoD #opensource #WriteTheDocs github.com/OpenMS/OpenMS/…

Join us at #ISMB2022 #CompMS to learn about the latest advances in computational mass spectrometry. iscb.org/ismb2022 Keynote speakers: @Ge_Lab_UW, @briansearle, @Smith_Chem_Wisc, @gjpattij. Abstract submission deadline: April 21, 2022 ! iscb.org/ismb2022-submi…

It really is free and less than 2 weeks away. Register now for the EuPA and EPIC-XS workshop and webinar on Computational Proteomics compomics.com/events/2022-ep…

As part of the @iscb ISCBacademy series hosted by #CompMS, @Yue_Qin_SysBio and @leah_v_schaffer will present their work on integrating protein images and interactions. Join us on Tue March 29 at 11:00AM ET to hear about this exciting research! iscb.org/iscbacademy

We are participating in Google Summer of Code 2022! We have 5 proposed projects to choose from. This is a great opportunity for you to gain knowledge about the field of bioinformatics/computational mass spectrometry! open-bio.org/events/gsoc/gs… #GSOC #GSoC2022 #MassSpec #opensource