Witold Szymański
@witek-teammassspec.bsky.social
mass spec | proteomics | EVs | cycling | climbing | running
Opinions here are my private!
I am a staff scientist at the Core Facility for Proteomics at the Phillips University of Marburg, Germany.
Website: graumannlab.science
Opinions here are my private!
I am a staff scientist at the Core Facility for Proteomics at the Phillips University of Marburg, Germany.
Website: graumannlab.science
Reposted by Witold Szymański
April 13, 2025 at 7:17 AM
@openvibe.social quite often, in light theme, I don't see my clock and other controls on top as the font is white on white background. But then sometimes I see it as the text becomes gray. Is it a bug from open vibe or android stuff?
April 10, 2025 at 12:55 PM
@openvibe.social quite often, in light theme, I don't see my clock and other controls on top as the font is white on white background. But then sometimes I see it as the text becomes gray. Is it a bug from open vibe or android stuff?
Ms upgrade!!! +10% to IDs
April 10, 2025 at 11:52 AM
Ms upgrade!!! +10% to IDs
There is something poetic in this email 🫠
April 8, 2025 at 5:48 AM
There is something poetic in this email 🫠
Comparison of Protein Solubilization and Normalization Methods for Proteomics Analysis of Extracellular Vesicles from Urine pubs.acs.org/doi/10....
---
#proteomics #prot-paper
---
#proteomics #prot-paper
April 7, 2025 at 7:11 AM
Reposted by Witold Szymański
How did I not think of this ?
So insightful.
So specific.
Just leverage AI.
(given the information density, multiple readings may help)
So insightful.
So specific.
Just leverage AI.
(given the information density, multiple readings may help)
April 3, 2025 at 4:24 PM
How did I not think of this ?
So insightful.
So specific.
Just leverage AI.
(given the information density, multiple readings may help)
So insightful.
So specific.
Just leverage AI.
(given the information density, multiple readings may help)
Reposted by Witold Szymański
Starting today, only certified Evosep engineers will show up in the official orange cape and mask.
Make sure your service hero is properly attired before letting them near your system!
#proteomics #lcms
Make sure your service hero is properly attired before letting them near your system!
#proteomics #lcms
April 1, 2025 at 7:40 AM
Starting today, only certified Evosep engineers will show up in the official orange cape and mask.
Make sure your service hero is properly attired before letting them near your system!
#proteomics #lcms
Make sure your service hero is properly attired before letting them near your system!
#proteomics #lcms
Reposted by Witold Szymański
Our PCA-N workflow featuring a neutralization step allows direct enzymatic digestion, doubles proteome depth from 5µL neat plasma, and handles 10K+ sample-preps daily. Democratizing plasma proteomics with 50K sample validation. Check it out on bioRxiv!
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
A simplified perchloric acid workflow with neutralization (PCA-N) for democratizing deep plasma proteomics at population scale
Large scale plasma proteomics studies offer tremendous potential for biomarker discovery but face significant challenges in balancing analytical depth, throughput and cost effectiveness. We present an...
www.biorxiv.org
March 27, 2025 at 8:20 AM
Our PCA-N workflow featuring a neutralization step allows direct enzymatic digestion, doubles proteome depth from 5µL neat plasma, and handles 10K+ sample-preps daily. Democratizing plasma proteomics with 50K sample validation. Check it out on bioRxiv!
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Witold Szymański
For no particular reason at all, I want to give a shout-out to @signal.org - do yourself and your data privacy a favor and switch over from other messengers (tell your friends too!)
Only way your data could be compromised there is if you accidentally invite a journalist to your group chat 👀
Only way your data could be compromised there is if you accidentally invite a journalist to your group chat 👀
March 25, 2025 at 6:38 AM
For no particular reason at all, I want to give a shout-out to @signal.org - do yourself and your data privacy a favor and switch over from other messengers (tell your friends too!)
Only way your data could be compromised there is if you accidentally invite a journalist to your group chat 👀
Only way your data could be compromised there is if you accidentally invite a journalist to your group chat 👀
https://youtube.com/shorts/RnyUlMS5RAA?si=E3WNT-3aifshHkZn This race was a blast! Best Milan San Remo that I have watched. 🎉 And the commentary was 11/10💪 Rob does it best.
March 24, 2025 at 6:48 PM
https://youtube.com/shorts/RnyUlMS5RAA?si=E3WNT-3aifshHkZn This race was a blast! Best Milan San Remo that I have watched. 🎉 And the commentary was 11/10💪 Rob does it best.
#teammassspec does anyone use 96-well plates from Macherey-Nagel with the HR-X material? Either the 85 or 45μm format?
If not, can one recommend another plate for C18 based desalting? Ideally something suitable for small amounts of peptides.
If not, can one recommend another plate for C18 based desalting? Ideally something suitable for small amounts of peptides.
March 24, 2025 at 7:27 AM
#teammassspec does anyone use 96-well plates from Macherey-Nagel with the HR-X material? Either the 85 or 45μm format?
If not, can one recommend another plate for C18 based desalting? Ideally something suitable for small amounts of peptides.
If not, can one recommend another plate for C18 based desalting? Ideally something suitable for small amounts of peptides.
I'm unfortunately not being paid by them but finally I found a better Bluesky client for Android: https://openvibe.social/ The main missing feature of the official app was the timeline scrolling and no ability to get back to reading where I left it last time.
Openvibe — Town Square for Open Social Media
Interact With Anyone On The Open Internet. All Decentralised Social Networks, Single Timeline.
openvibe.social
March 24, 2025 at 7:11 AM
I'm unfortunately not being paid by them but finally I found a better Bluesky client for Android: https://openvibe.social/ The main missing feature of the official app was the timeline scrolling and no ability to get back to reading where I left it last time.
I am late to the party, but what a f&%$king shit show it was from Trump and Vance during the meeting with Zelensky! It was an ambush, done on purpose in front of cameras! WTF? If I was Zelensky, I would not be able to keep my temper as he did... Jfc!
March 1, 2025 at 12:38 PM
I am late to the party, but what a f&%$king shit show it was from Trump and Vance during the meeting with Zelensky! It was an ambush, done on purpose in front of cameras! WTF? If I was Zelensky, I would not be able to keep my temper as he did... Jfc!
Reposted by Witold Szymański
Reposted by Witold Szymański
News in Proteomics Research blog post | Was your LC column provider acquired? Try a new vendor out, save some $$ and get a free column! proteomicsnews.blogs...
---
#proteomics #prot-other
---
#proteomics #prot-other
February 11, 2025 at 7:40 PM
News in Proteomics Research blog post | Was your LC column provider acquired? Try a new vendor out, save some $$ and get a free column! proteomicsnews.blogs...
---
#proteomics #prot-other
---
#proteomics #prot-other
Reposted by Witold Szymański
Favorite figure showing how poorly RNA and protein correlate?
January 10, 2025 at 10:25 PM
Favorite figure showing how poorly RNA and protein correlate?
Reposted by Witold Szymański
DIA-NN 2.0 release is almost ready, will come with some big news. One is scanning methods support, at the moment doing some tuning of the algorithm using Synchro-PASEF data :) Turns out, 'Q1 information' is really helpful for gaining peptidoform confidence. Likely also channel-confidence in plexDIA.
January 9, 2025 at 12:16 PM
DIA-NN 2.0 release is almost ready, will come with some big news. One is scanning methods support, at the moment doing some tuning of the algorithm using Synchro-PASEF data :) Turns out, 'Q1 information' is really helpful for gaining peptidoform confidence. Likely also channel-confidence in plexDIA.
From one side, it's a QC/QA issue that I got a broken PepSep column from #Bruker, but kudos to them for sending the replacement very quickly!
What's your experience with other vendors?
Do you pack the columns yourself or use commercial ones?
What's your experience with other vendors?
Do you pack the columns yourself or use commercial ones?
January 6, 2025 at 12:03 PM
From one side, it's a QC/QA issue that I got a broken PepSep column from #Bruker, but kudos to them for sending the replacement very quickly!
What's your experience with other vendors?
Do you pack the columns yourself or use commercial ones?
What's your experience with other vendors?
Do you pack the columns yourself or use commercial ones?
Another strange thing. If I run the method with the trap column, the spray seems to be fine. Same Hela QC without trap column, has spray issues.
December 19, 2024 at 8:55 AM
Another strange thing. If I run the method with the trap column, the spray seems to be fine. Same Hela QC without trap column, has spray issues.
1/2 #teammassspec I need help! My FAS @kronigert.bsky.social is on holidays and I have an issue. On TimsTof Ultra, coupled with nanoElute2 and using PepSep Ultra columns, I am loosing spray. I changed the column, I changed the emitter, today I exchanged the glass capillary, but for some reason...
December 18, 2024 at 10:05 PM
1/2 #teammassspec I need help! My FAS @kronigert.bsky.social is on holidays and I have an issue. On TimsTof Ultra, coupled with nanoElute2 and using PepSep Ultra columns, I am loosing spray. I changed the column, I changed the emitter, today I exchanged the glass capillary, but for some reason...
I know that it's Christmastime and a common madness with packages, but... In the last 3 years, all 3 nearest post offices of #deutschepost were just closed. On Friday, I was waiting 35 minutes in the queue to send something. There was only one poor woman working there...
December 15, 2024 at 12:14 PM
I know that it's Christmastime and a common madness with packages, but... In the last 3 years, all 3 nearest post offices of #deutschepost were just closed. On Friday, I was waiting 35 minutes in the queue to send something. There was only one poor woman working there...
Reposted by Witold Szymański
I have a radical idea. All DIA tool developers meet in Geneva for a convention and agree to apply certain additional conservative quality filters by default (so yeah, not 10k proteins but “just” 8k…). And then provide users an option to relax the filters at their own risk. Not the other way around.
December 12, 2024 at 1:56 PM
I have a radical idea. All DIA tool developers meet in Geneva for a convention and agree to apply certain additional conservative quality filters by default (so yeah, not 10k proteins but “just” 8k…). And then provide users an option to relax the filters at their own risk. Not the other way around.
@fcyucn.bsky.social Hi! Before I start a GitHub issue for FragPipe I thought I'd ask you shortly here. Can a non-specific digest search on dia-pasef data with a custom database of sORFs + Human be run?
#teammassspec
#teammassspec
December 6, 2024 at 8:33 AM
@fcyucn.bsky.social Hi! Before I start a GitHub issue for FragPipe I thought I'd ask you shortly here. Can a non-specific digest search on dia-pasef data with a custom database of sORFs + Human be run?
#teammassspec
#teammassspec