#Multiplex
#Imaging
#MachineLearning

calling this Combplex -- combinatorial multiplexing

validated, then adapted to mass-based approaches (MIBI-TOF)
#MassSpec

How does the method work? It learns the compression matrix

2/2

https://www.weizmann.ac.il/mcb/Keren/home

RT @Matrix_Science: You don't need a fancy new search engine to identify peptides from chimeric spectra. Just process the raw file in Mascot Distiller and search with Mascot Server. #proteomics #MassSpec #MassSpectrometry #Bioinformatics

https://www.matrixscience.com/blog/identifying-peptides-from-chimeric-spectra-dda-dia.html

RT @: Real-Time Spectral Library Matching for Sample Multiplexed Quantitative Proteomics #JProteomeRes #MassSpec

Added support for #MassSpec spectra comparisons using the spectral entropy similarity score to our #Spectra @bioconductor package (dev version):

https://tinyurl.com/y6u9wexa

Thanks Yuanyue Li for the #msentropy #rstats :rstats: package and support! 🥳

We have a free (already paid for) space available at this year's Ardgour Symposium! More details here - www.emsg-ardgour.site If you can get yourself to Aberdeen on the 20th August, then you could be enjoying a week of mass spec and related discussions, in the Highlands and with a free bar! #teammassspec #massspec #lipidomics #metabolomics #proteomics #ionization

RT @: What is the most popular / robust/ reliable tool out there for analyzing cross-linking #massspec XL-MS data ?

Asking for a friend.

#proteomics #tools #resources

Just in case anyone in #TeamMassSpec is curious, the likely culprit of my 248.9 m/z ion from this thread: https://mstdn.science/@sarahehancock/110818463525422168 is free cyanide reacting with the gold seals of the HPLC pump. I will have to try a few different brands of solvent to see if I can ameliorate this issue. More info also available here: https://community.agilent.com/technical/lcms/f/forum/5480/how-do-we-get-rid-of-identify-contamination-with-m-z-248-9737-negative-mode.

#metabolomics #lipidomics #massspectrometry #massspec

Hey #TeamMassSpec, I'm having issues with a contaminant ion @ 248.9 m/z in -ve ion mode when running 90% ACN 10 mM AmOAc at pH 9. Found a thread on research gate suggesting it comes from the ACN but have tried two brands now with no joy. Has anyone else had this problem?

Research gate link: https://researchgate.net/post/What-is-this-contaminant-with-m-z-2489718

ACN brands tried: Fisher Sci Optima, Supelco LiChroSolv. LiChroSolv has a lot less of it than Fisher Sci.

#metabolomics #lipidomics #massspectrometry #massspec

RT @: Always good to see new #massspec tools available.Dear #proteomicscommunity and #TeamMassSpec, I am happy to share HowDirty, an R package that facilitates evaluating and reporting molecular contaminants in LC-MS experiments.
https://authorea.com/users/643346/articles/656759-howdirty-an-r-package-to-evaluate-molecular-contaminants-in-lc-ms-experiments…

RT @: Anyone have advice on how they normalize TMT channel data when the samples are from a pulldown? Normalization methods assume that peptide abundances should be broadly equal across samples...

#TeamMassSpec #MassSpec #proteomics

I gave a talk on Depthcharge, our #deeplearning toolkit for #massspec data at the Cascadia #Proteomics Symposium this week. Here’s my slides in case you missed it, or want to see them again!

👉 https://zenodo.org/record/8161011

Postdoc, Kidney metabolism and metabolomics

Aarhus University

See the full job description on jobRxiv: https://jobrxiv.org/job/aarhus-university-27778-postdoc-kidney-metabolism-and-metabolomics/?feed_id=49965

#ScienceJobs #hiring #research #massspec
Aarhus University #Denmark #PhDStudent #PostdoctoralFellow
https://jobrxiv.org/job/aarhus-university-27778-postdoc-kidney-metabolism-and-metabolomics/?feed_id=49965

Postdoc, Kidney metabolism and metabolomics

Aarhus University

See the full job description on jobRxiv: https://jobrxiv.org/job/aarhus-university-27778-postdoc-kidney-metabolism-and-metabolomics/?feed_id=49678

#ScienceJobs #hiring #research #massspec
Aarhus University #Denmark #PhDStudent #PostdoctoralFellow
https://jobrxiv.org/job/aarhus-university-27778-postdoc-kidney-metabolism-and-metabolomics/?feed_id=49678

RT @: JULY 15 << The Abstract Deadline is fast approaching for the 2ND INTERNATIONAL TOP-DOWN PROTEOMICS SYMPOSIUM. Submit your work now at> https://tdp2023.topdownproteomics.org/submit-an-abstract/… #proteomics #ASMS #genomics #massspec #proteoform

RT @: Hey #TeamMassSpec - question re: low sample stage-tip fractionation. Anyone have any experience with it? We have some POROS 20 R2 packing. How much (~mg?) do you load into a 200µL tip?

#MassSpec #proteomics

RT @: 20,001 DOWNLOADS - The Human Proteoform Project seems to be of interest to quite a few people... #proteomics #proteoforms #genomics #massspec
https://science.org/doi/10.1126/sciadv.abk0734…

Can someone who knows something about mass spectrometry explain why the Agilent 8900 is called a triple quadrupole, when I'm fairly sure there are only two quads??

#labWork #MassSpectrometry #MassSpec

RT @: JOB OPPORTUNITY!

Looking for a post-doc developing multiplexed targeted #massspec assays to support clinical translation? Look no further!

#TeamMassSpec #Proteomics

MT @: A great opportunity for #SingleCell omics, #MassSpec, & #imaging #MassSpec researchers to publish their advances on pushing tech towards single-cell analyses, sensitivity & resolution JPR is not only about proteins -- metabolites, lipids, glycans, drugs, exposome, all welcome!Theo @thalexandrov and I will serve as editors for a Special Issue of @JProteomeRes Single-Cell Omics

Submissions before January 31, 2024 can be included in the special issue.

Information: https://axial.acs.org/biology-and-biological-chemistry/call-for-papers-single-cell-omics?utm_source=twttr&utm_medium=sm&utm_campaign=IC001_ST0002D_T000331_jprobs_Single-Cell_Omics_Call_for_Papers&src=IC001_ST0002D_T000331_jprobs_Single-Cell_Omics_Call_for_Paper

Lecture on proteomics by @lgatto at #csama 2023 including an overview on the :rstats: package ecosystem from #RforMassSpectrometry #MassSpec