Raja Tamil Selvan
@rajatamil.bsky.social
PhD_ing at Uni Freiburg #Mass_spec :)
Trying to understand proteolysis in Kidney health / GRK2606-Protpath
Trying to understand proteolysis in Kidney health / GRK2606-Protpath
Reposted by Raja Tamil Selvan
Discovery of a new class of natural antibiotics with a new mode of action to address antimicrobial resistance, a major unmet need
@mcmasteruniversity.bsky.social
@nature.com
www.nature.com/articles/s41...
@mcmasteruniversity.bsky.social
@nature.com
www.nature.com/articles/s41...
A broad-spectrum lasso peptide antibiotic targeting the bacterial ribosome - Nature
A new lasso peptide antibiotic exhibits broad-spectrum activity against Gram-negative and Gram-positive bacteria by interfering with bacterial protein synthesis, is unaffected by common resistanc...
www.nature.com
March 26, 2025 at 5:48 PM
Discovery of a new class of natural antibiotics with a new mode of action to address antimicrobial resistance, a major unmet need
@mcmasteruniversity.bsky.social
@nature.com
www.nature.com/articles/s41...
@mcmasteruniversity.bsky.social
@nature.com
www.nature.com/articles/s41...
Reposted by Raja Tamil Selvan
This is a really fun story, and natural extension of the MIPI (metabolome informed protein imaging) pipelines Marija and Kristin started!
The more advanced the MSI, the more biology unlocked #TeamMassSpec
The more advanced the MSI, the more biology unlocked #TeamMassSpec
Advanced multi-modal mass spectrometry imaging reveals functional differences of placental villous compartments at microscale resolution #NatCommun www.nature.com/articles/s41...
Advanced multi-modal mass spectrometry imaging reveals functional differences of placental villous compartments at microscale resolution - Nature Communications
Spatial multi-omics methodologies are essential for capturing the molecular heterogeneity of complex biological systems. In this study, the authors introduce a multi-omics imaging workflow capable of ...
www.nature.com
March 4, 2025 at 9:33 PM
This is a really fun story, and natural extension of the MIPI (metabolome informed protein imaging) pipelines Marija and Kristin started!
The more advanced the MSI, the more biology unlocked #TeamMassSpec
The more advanced the MSI, the more biology unlocked #TeamMassSpec
Reposted by Raja Tamil Selvan
Reposted by Raja Tamil Selvan
After a VERY long time, it got published: rdcu.be/d8KyK.
My deep thanks to Sonja, Matthias and the other authors for analysing my own cancer. Now to convince my clinicians to use it for treating me. The battle is far from over.
My deep thanks to Sonja, Matthias and the other authors for analysing my own cancer. Now to convince my clinicians to use it for treating me. The battle is far from over.
Deep visual proteomics reveals DNA replication stress as a hallmark of signet ring cell carcinoma
npj Precision Oncology - Deep visual proteomics reveals DNA replication stress as a hallmark of signet ring cell carcinoma
rdcu.be
February 5, 2025 at 8:25 PM
After a VERY long time, it got published: rdcu.be/d8KyK.
My deep thanks to Sonja, Matthias and the other authors for analysing my own cancer. Now to convince my clinicians to use it for treating me. The battle is far from over.
My deep thanks to Sonja, Matthias and the other authors for analysing my own cancer. Now to convince my clinicians to use it for treating me. The battle is far from over.
Reposted by Raja Tamil Selvan
1. A thread about the value of doing "slow science": When I was in grad school I heard this (likely apocryphal) story about one of my favourite scientists: Barbara McClintock.
January 31, 2025 at 6:20 PM
1. A thread about the value of doing "slow science": When I was in grad school I heard this (likely apocryphal) story about one of my favourite scientists: Barbara McClintock.
Reposted by Raja Tamil Selvan
Let me give a concrete example of the importance of applications with high risk-high reward as well as the role of NIH staff in taking risks.
Decades ago, a physical chemist proposed ideas about doing mass spectrometry on proteins (when this was deemed probably impossible).
1/n
Decades ago, a physical chemist proposed ideas about doing mass spectrometry on proteins (when this was deemed probably impossible).
1/n
January 26, 2025 at 9:51 PM
Let me give a concrete example of the importance of applications with high risk-high reward as well as the role of NIH staff in taking risks.
Decades ago, a physical chemist proposed ideas about doing mass spectrometry on proteins (when this was deemed probably impossible).
1/n
Decades ago, a physical chemist proposed ideas about doing mass spectrometry on proteins (when this was deemed probably impossible).
1/n
Reposted by Raja Tamil Selvan
DIA-NN 2.0 is released! We consider it the biggest step forward in the history of DIA-NN. On modern LC-MS almost all identifications are now peptidoform-confident, with major improvements e.g. for phospho. Some other cool things too: github.com/vdemichev/Di...
Release DIA-NN 2.0 · vdemichev/DiaNN
We are excited to announce DIA-NN 2.0, the most significant milestone in the history of DIA-NN development.
Key Breakthroughs
Proteoform Confidence mode: DIA-NN 2.0 solves the long-standing chall...
github.com
January 29, 2025 at 9:04 AM
DIA-NN 2.0 is released! We consider it the biggest step forward in the history of DIA-NN. On modern LC-MS almost all identifications are now peptidoform-confident, with major improvements e.g. for phospho. Some other cool things too: github.com/vdemichev/Di...
Reposted by Raja Tamil Selvan
Reposted by Raja Tamil Selvan
We built a rust library (rustyms) and the Annotator GUI to analyze any complex bottom-up or top-down peptidoform with any fragmentation based on ProForma 2.0.
Get it on github and read more in the preprint:
www.biorxiv.org/content/10.1...
github.com/snijderlab/a...
github.com/snijderlab/r...
Get it on github and read more in the preprint:
www.biorxiv.org/content/10.1...
github.com/snijderlab/a...
github.com/snijderlab/r...
January 22, 2025 at 8:25 PM
We built a rust library (rustyms) and the Annotator GUI to analyze any complex bottom-up or top-down peptidoform with any fragmentation based on ProForma 2.0.
Get it on github and read more in the preprint:
www.biorxiv.org/content/10.1...
github.com/snijderlab/a...
github.com/snijderlab/r...
Get it on github and read more in the preprint:
www.biorxiv.org/content/10.1...
github.com/snijderlab/a...
github.com/snijderlab/r...
Reposted by Raja Tamil Selvan
Prioritized MS increases proteomic data completeness.
The increase is largest for the most challenging proteins.
When using TMT, data completeness reaches 93% for all proteins across multiple sets.
www.nature.com/articles/s41...
The increase is largest for the most challenging proteins.
When using TMT, data completeness reaches 93% for all proteins across multiple sets.
www.nature.com/articles/s41...
January 21, 2025 at 4:17 PM
Prioritized MS increases proteomic data completeness.
The increase is largest for the most challenging proteins.
When using TMT, data completeness reaches 93% for all proteins across multiple sets.
www.nature.com/articles/s41...
The increase is largest for the most challenging proteins.
When using TMT, data completeness reaches 93% for all proteins across multiple sets.
www.nature.com/articles/s41...
Reposted by Raja Tamil Selvan
We are excited to share our new Nature Methods paper describing the Chip-Tip workflow for single-cell proteomics identifying >5,000 proteins in single cells, enabling PTM analysis without enrichment and throughput of up to 120 single cell samples per day: rdcu.be/d6qJe
Enhanced sensitivity and scalability with a Chip-Tip workflow enables deep single-cell proteomics
Nature Methods - Chip-Tip is a label-free quantification-based single-cell proteomics workflow for deep single-cell proteomics, which identifies over 5,000 proteins and 40,000 peptides in single...
rdcu.be
January 16, 2025 at 11:23 AM
We are excited to share our new Nature Methods paper describing the Chip-Tip workflow for single-cell proteomics identifying >5,000 proteins in single cells, enabling PTM analysis without enrichment and throughput of up to 120 single cell samples per day: rdcu.be/d6qJe
Reposted by Raja Tamil Selvan
1. I feel like this is such obvious advice that it gets taken for granted & consequently no one says this to young scientists but READ PAPERS, read all the papers. As you move up in your career you will have less & less time to do this. Read everything that appeals to you not just in your field
December 13, 2024 at 4:21 PM
1. I feel like this is such obvious advice that it gets taken for granted & consequently no one says this to young scientists but READ PAPERS, read all the papers. As you move up in your career you will have less & less time to do this. Read everything that appeals to you not just in your field
Reposted by Raja Tamil Selvan
Who is messing with your favorite protein Filamin C in stressed muscle cells? 🧩🔬 We tackled this riddle in our latest paper in Scientific Reports. A huge shoutout to former lab mate Anja and Thomas from the @mkoehn.bsky.social lab - this was a true team effort! 👏🎉! A short thread: 🧵(1/5)
December 20, 2024 at 2:58 PM
Who is messing with your favorite protein Filamin C in stressed muscle cells? 🧩🔬 We tackled this riddle in our latest paper in Scientific Reports. A huge shoutout to former lab mate Anja and Thomas from the @mkoehn.bsky.social lab - this was a true team effort! 👏🎉! A short thread: 🧵(1/5)
Reposted by Raja Tamil Selvan
12 Proteomics Conference/Meetings already listed for 2025. Please let us know of others that are currently not present and also whether any are considered predatory and we'll remove them.
http://www.pastelbio...
http://www.pastelbio...
December 16, 2024 at 9:40 AM
12 Proteomics Conference/Meetings already listed for 2025. Please let us know of others that are currently not present and also whether any are considered predatory and we'll remove them.
http://www.pastelbio...
http://www.pastelbio...