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Tej @scienthusiast.bsky.social · 02/09/2026

You're making Bruker's convoluted file format/software interface and AI, both sound good :). Really cool stuff!

Tej @scienthusiast.bsky.social · 02/09/2026

Agree, I do like those features, continuous injection numbers, particularly..easy to track before-, after- QCs, no of injections per the column..numbers help !

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Tej @scienthusiast.bsky.social · 01/09/2026

This is cool... can I ask how you made this.. extracted injections from sample table ?

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Tej @scienthusiast.bsky.social · 05/08/2026

Waiting for @pubs.acs.org and JPR to finish migration, so can have access to full texts again..🫠

static.klipy.com

ALT:

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Posas Lab @posaslab.bsky.social · 30/07/2026

We're looking for a highly motivated Postdoctoral Fellow (Ref. PD/26/11) to join our team at @irbbarcelona.org to study MAPK signaling & conserved stress adaptation mechanisms, using cutting-edge transcriptomics, genomics & proteomics. Apply here: recruitment.irbbarcelona.org/jobs/8135937...

recruitment.irbbarcelona.org

Postdoctoral Fellow (Ref. PD/26/11) - IRB Barcelona

Your Role & Our Team IRB Barcelona is seeking a highly motivated and talented Postdoctoral Fellow to participate in cutting edge research line -Crosstalk analysis of MAPK signaling- of the ...

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Tej @scienthusiast.bsky.social · 24/07/2026

Can MES be applied retrospectively? Always thought of it, as to be considered at study design

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Tej @scienthusiast.bsky.social · 24/07/2026

Agree, PCA wasn't significant.. it wasn't clear which is more realistic or unrealistic and hence was alluding to biological perspective, proteins, like you mentioned. Extracting the scores and looking beyond the two PCs is a good idea. Thanks, that's helpful!

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Tej @scienthusiast.bsky.social · 24/07/2026

Extrapolating to patient data, would it be good to search each independently than all together, since each individual is different? And if searching together with an algorithm as maxlfq would mask patient wise resolution? (Thinking out loud..)

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Tej @scienthusiast.bsky.social · 24/07/2026

The normalisation in SN is standard, these were median global normalised. The difference here, is from the quantitation algos in SN. Although not conclusive from PCA, wonder if sample specific quantitation rather than based on common peptides in samples (maxlfq), a better way for data resolution?

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Tej @scienthusiast.bsky.social · 24/07/2026

Following on , compared MaxLFQ vs Quant2.0, Left- SN Normalisation plot, Right - MaxLFQ vs Quant2.0 of the same data.. MaxLFQ seems to segregate con v test for C1 and C3 grps, while Quant2.0 is mixing both, and vice versa for C,C2! I'd say inconclusive, but might have to look from bio perspective?

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AcademicTransfer @academictransfer.bsky.social · 20/07/2026

Postdoc Position in Clinical Immunopeptidomics and Proteomics www.academictransfer.com/362808 @UniUtrecht

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Tej @scienthusiast.bsky.social · 16/07/2026

1. Would analysing all patients in one experiment still preserve patient specific response in proteome? 2. Or Would analysing each patient between comparative conditions be ideal and provide better resolution in capturing individual response.. ? Curious to hear on thoughts of #TeamMassSpec ..2/2

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Tej @scienthusiast.bsky.social · 16/07/2026

Hey #TeamMassSpec, Maxlfq builds pair-wise peptide ratios, on the peptides shared across samples, for a protein and the crossrun Normalisation in SN, scales the Normalisation factor across all samples in an experiment. What would be an ideal way to analyse, to study patient specific response.. 1/n

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Matthew Collins @matthewcollins.bsky.social · 15/07/2026

Copenhagen job alert 🚨 GLOBE (@ucph.bsky.social) is hiring a 21-mo Postdoc in #Bioinformatics & #ComputationalProteomics Work with @lindorfflarsen.bsky.social, @fridowelker.bsky.social, @brandtgroup.bsky.social & more mapping collagen/keratin diversity across 1000s of genomes. 📅 Deadline Aug 31

jobportal.ku.dk

Postdoc of Bioinformatics and Computational Proteomics

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Tej @scienthusiast.bsky.social · 08/07/2026

That's a very novel motif indeed, wonder if it is from A$$tral data 😄

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Alejandro Brenes @ajbrenes.com · 16/06/2026

New preprint out! We benchmarked SCP workflows across instruments, software and library strategies. We compare DIA-software, search parameters, quantification precision and quant reliability across 3 cell types: large A549, medium RKO, and the very challenging ex-vivo peripheral blood neutrophils.

biorxiv.org

The Single Cell Proteomic blueprint, navigating instrumentation platforms, software tools and high-load libraries in neutrophils, RKO and A549 cells

Mass spectrometry-based single cell proteomics (SCP) is rapidly emerging as a powerful approach for biological research, with applications extending beyond in-vitro cancer cell lines. Recent advances ...

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PastelBio @pastelbio.bsky.social · 03/06/2026

News in Proteomics Research blog post | Bruker ASMS! Delaying launches until they can support the products they have? proteomicsnews.blogs... --- #proteomics #prot-other

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Lee Cantrell @leecantrell.bsky.social · 18/05/2026

www.biorxiv.org/content/10.6... 1/ Proteomics method development often optimizes for IDs. But for cohort biology, IDs only matter if they remain quantitative, precise, and powered. We ask how chromatographic sampling density propagates from peaks → LOQ → discovery. 🧵

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Shabaz Lab @shabazlab.bsky.social · 19/04/2026

1 month left! www.brixenproteomics.org

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ProteomicsNews (Ben Orsburn) @proteomicsnews.bsky.social · 17/04/2026

MAJOR update for SCP Viz! github.com/OrsburnLab-P... - all the smart SCP code everyone hid on line 7,000 of their R package in a GUI with push buttons, lassos, and primary colors. Plus a special tab for peer reviewers who don't want to download 3TB of instrument .raw data. Live on the Pitt HPC now!

github.com

GitHub - OrsburnLab-Pitt/SCPViz: The new home of the SCP Viz program

The new home of the SCP Viz program. Contribute to OrsburnLab-Pitt/SCPViz development by creating an account on GitHub.

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Mann Lab @mannlab.bsky.social · 03/04/2026

We are hiring! The Matthias Mann Lab @mannlab.bsky.social @mpibiochem.bsky.social in Munich has 3 exciting #postdoc openings in proteomics & computational biology. #MSProteomics #PostDoc postdocprogram.mpg.de

postdocprogram.mpg.de

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PastelBio @pastelbio.bsky.social · 27/03/2026

TUM - Doctoral Candidate f/m/d in computational proteomics/bioinformatics portal.mytum.de/jobs... --- #proteomics #prot-jobs

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Tej @scienthusiast.bsky.social · 26/03/2026

Congratulations on your new role and all the very best! Sure it'll be fun doing things on the other side of the bench..

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Brett Phinney @ucdproteomics.bsky.social · 25/03/2026

Claude Code and I whipped up some software for running DIA-NN and LIMPA. I kinda like it so far. Has a lot of features I've always wanted and now I can make it myself !!, well with Claude Codes help ;) youtu.be/lXxqDpCHXOA

youtu.be

De-LIMP Proteomics Analysis Software Part1

YouTube video by Brett Phinney

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BioMassSpec @realbiomassspec.bsky.social · 20/02/2026

Faces of Mass Spectrometry/Bini Ramachandran #JASMS pubs.acs.org/doi/10.1021/...

pubs.acs.org

Faces of Mass Spectrometry/Bini Ramachandran

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Phil W @pwilmarth.bsky.social · 16/02/2026

All values (high intensity and low intensity) need to be within the linear dynamic range of the instrument platform to be safely adjusted by software normalizations. Overloaded samples suffer saturation, underloaded samples have things go below limits of detection. There are no shortcuts in life.

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ProteomicsNews (Ben Orsburn) @proteomicsnews.bsky.social · 16/02/2026

Astral with 2 minute gradients! More quantification off of triangles! www.nature.com/articles/s41... - I get it, I'm being the old jerk shouting at cars about how in my day we had to have more than 1 scan/peak.

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EMBL-EBI Training @training.ebi.embl.org · 11/02/2026

Proteomics bioinformatics by EMBL-EBI Training is the course for you if you want to discover: - Mass spectrometry - Quantitative proteomics - Data acquisition approaches - Proteogenomics - @emblebi.bsky.social resources: IntAct, PRIDE, and UniProt Apply by 15 March: www.ebi.ac.uk/training/eve...

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Matthias Trost @mtrost.bsky.social · 02/02/2026

I have a 3-year postdoc position available at University of Manchester for a mass spec expert in proteomics. The person will be involved in exciting projects in single cell proteomics, drug discovery and innate immunity - on timsTOF Ultra AIP & HF & Astral Zoom. www.jobs.ac.uk/job/DQJ093/r...

trostlab.org

Home - Trost Lab

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Brett Phinney @ucdproteomics.bsky.social · 27/01/2026

Want to make your DIA-NN QC reports in a web browser and then go back in time to the 80's and 90's? Now you can with my completely AI vibe coded streamline app! dia-nn-qc.streamlit.app You're welcome 😜

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PastelBio @pastelbio.bsky.social · 22/01/2026

Special Issue on Women in Proteomics www.mcponline.org/ar... --- #proteomics #prot-paper

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PastelBio @pastelbio.bsky.social · 18/01/2026

Yasset Perez-Riverol | This chart is a warning light for anyone in science or tech. www.linkedin.com/pos... --- #proteomics #prot-other

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PastelBio @pastelbio.bsky.social · 14/01/2026

A New Detailed Mass Offset Search in MSFragger for Improved Interpretation of Complex PTMs pubs.acs.org/doi/10.... --- #proteomics #prot-paper

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Tej @scienthusiast.bsky.social · 15/01/2026

Also good to know, it wasn't just me wondering why MAPS was left out..

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Tej @scienthusiast.bsky.social · 15/01/2026

Saw the same on biotechniques, atleast they cited the article in the press release. But, yeah, the press release was ambiguous with no specifics www.biotechniques.com/analytical-c...

biotechniques.com

New mass spectrometry technique captures low-abundance molecules

A new mass spectrometry technique captures molecules of lower abundance in a sample, providing a more comprehensive sample profile.

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PastelBio @pastelbio.bsky.social · 13/01/2026

Limited proteolysis-coupled mass spectrometry captures proteome-wide protein structural alterations and biomolecular condensation in living cells link.springer.com/ar... --- #proteomics #prot-paper

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PastelBio @pastelbio.bsky.social · 07/12/2025

News in Proteomics Research blog post | Finally! A ready-to-run human plasma proteomics standard! proteomicsnews.blogs... --- #proteomics #prot-other

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PastelBio @pastelbio.bsky.social · 05/12/2025

PhD Fellow in Spatial Proteomics of Cardiac Conduction and Disease Mechanisms | JobTeaser www.jobteaser.com/nl... --- #proteomics #prot-jobs

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Tej @scienthusiast.bsky.social · 29/11/2025

Multi spectral imaging at UV and IR range to mark sampling zones..and followed it up with hydrophobic ion-ion interaction to identify peptides.. old vs new peptides distinguished by monitoring of oxidation and deamidation.. sleuths at work..#paleoproteomics

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VIB Technologies @vibtechnologies.bsky.social · 28/11/2025

🚨 Job opportunity The Proteomics Core is hiring a (Junior) Technical Support Team Member to keep its mass-spec proteomics services running smoothly. 🗓 Deadline: November 30, 2025 👉 Apply via the VIB job site vib.be/en/technologies/about-vib-te…

vib.be

Jobs

Jobs at VIB Technologies

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Bioconductor @bioconductor.bsky.social · 06/11/2025

🎓 Upcoming Online Course: R/Bioconductor for Mass Spectrometry & Proteomics 📅 November 17–19, 2025 Join Dr Laurent Gatto for a hands-on course on mass spectrometry–based proteomics analysis using R and Bioconductor. 👉 Register & learn more: www.physalia-courses.org/courses-work...

physalia-courses.org

R/Bioconductor for Mass Spectrometry and Proteomics

Dates 17-19 November 2025 To foster international participation, this course will be held online

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Brett Phinney @ucdproteomics.bsky.social · 27/10/2025

Need to do some cutting edge Proteomics Differential expression? Maybe give Limpa a try! Guaranteed to rise to the occasion ...despite its name ! youtu.be/vqeOT8xcycc

youtu.be

Doing Differential Expression analysis on Proteomics Data using Limpa!!

YouTube video by Brett Phinney

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Phil W @pwilmarth.bsky.social · 27/10/2025

Some new content at GitHub: github.com/pwilmart/pow... We have been measuring proteomes for a long time but almost never think about our data and results at the whole proteome level. We lose a lot of information when we think one protein at a time. We need to multiplex our thinking.

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PastelBio @pastelbio.bsky.social · 23/10/2025

Are you having a LaPh? Diverse roles of Labile Phosphorylation in mammalian cells portlandpress.com/bi... --- #proteomics #prot-paper

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Tej @scienthusiast.bsky.social · 19/10/2025

"... if we're competitive from a price, thoughput and coverage perspective, the other technologies seem more than a bit silly. " That sums it up👍🏾

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PastelBio @pastelbio.bsky.social · 19/10/2025

Enrichment of Cysteine S-palmitoylated peptides using Sodium Deoxycholate Acid Precipitation www.mcponline.org/ar... --- #proteomics #prot-paper

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Tobias Kroniger @kronigert.bsky.social · 15/10/2025

Struggling to compare Bruker timsTOF methods or extract window schemes from raw .d files? I developed a free desktop tool to solve this: timsCompare! 🚀 It automates the manual work of extracting method parameters, presenting them in a structured and comparable view. (A thread 🧵)

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