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We report many proteins not predicted by the genetic code.
They are stable & abundant O( 10³ ) copies / cell.
Generative mechanisms include codon-anticodon mismatches & RNA modifications.
Their abundance depends on codon frequency & protein stability.
biorxiv.org/content/10.110…
They are stable & abundant O( 10³ ) copies / cell.
Generative mechanisms include codon-anticodon mismatches & RNA modifications.
Their abundance depends on codon frequency & protein stability.
biorxiv.org/content/10.110…
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Slavov Laboratory retweeted
Biology advances in leaps, and the leaps follow measurement. Sequencing DNA gave us genomes and transcriptomes.
The next leap will come from embracing the molecules and processes animating life.
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blog.slavovlab.net/2026/10/31/unl…
The next leap will come from embracing the molecules and processes animating life.
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blog.slavovlab.net/2026/10/31/unl…
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Slavov Laboratory retweeted
In pursuit of this new direction, our team at @ParallelSqTech developed multiple timePlex implementations.
They demonstrate strong potential. A few highlights include:
biorxiv.org/content/10.110…
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They demonstrate strong potential. A few highlights include:
biorxiv.org/content/10.110…
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Slavov Laboratory retweeted
A major update on combinatorial scaling of proteomics throughput using time-encoded multiplexing.
Mass spec proteomics has long multiplexed samples in the mass domain (with mass tags). timePlex multiplexes in the time domain, setting a direction with new possibilities.
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Mass spec proteomics has long multiplexed samples in the mass domain (with mass tags). timePlex multiplexes in the time domain, setting a direction with new possibilities.
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Slavov Laboratory retweeted
Participating in the rapid evolution of this technology, from proof of principle to a robust, quantitative methodology, has been a thrilling adventure.
Writing this perspective revived many wonderful memories and brought a bright smile to my face.
Writing this perspective revived many wonderful memories and brought a bright smile to my face.
New ACS Editors' Choice from @J_ASMS!
Congratulations to Nikolai Slavov! His Perspective explores a decade of advances in single-cell proteomics and the new possibilities they're opening for biology.
Read more: doi.org/10.1021/jasms.…
#JASMS #TeamMassSpec #MassSpectrometry
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Slavov Laboratory retweeted
Realizing this workflow for single-cell proteomics benefited from discussions at the 2025 single-cell proteomics conference.
Facilitating such collaborations is a core part of @SCP_meeting's mission !
Facilitating such collaborations is a core part of @SCP_meeting's mission !
Parallel Squared Technology Institute aims to scale the throughput of sensitive proteomics without compromising quantitative accuracy, depth or specificity.
Today, we share a step in this direction:
🔹 A workflow supporting the analysis of 1,130 single-cell samples per day depth and quantitative accuracy.
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biorxiv.org/content/10.110…
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Slavov Laboratory retweeted
Parallel Squared Technology Institute aims to scale the throughput of sensitive proteomics without compromising quantitative accuracy, depth or specificity.
Today, we share a step in this direction:
🔹 A workflow supporting the analysis of 1,130 single-cell samples per day depth and quantitative accuracy.
1/
biorxiv.org/content/10.110…
Today, we share a step in this direction:
🔹 A workflow supporting the analysis of 1,130 single-cell samples per day depth and quantitative accuracy.
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biorxiv.org/content/10.110…
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Protein functions depend on the full amino acid sequence, including isoforms, cleavage products, and modified residues that distinguish proteoform states.
To capture these modifications, we and @ParallelSqTech introduce multiDIA to increases proteome sequence coverage.
To capture these modifications, we and @ParallelSqTech introduce multiDIA to increases proteome sequence coverage.
Proteomics has long faced a choice: Go deep, or go fast.
Deep, high-confidence coverage of protein sequences has traditionally required extensive chromatographic fractionation, large sample inputs and data acquisition times too long to be practical for analyzing human cohort data-independent acquisition (DIA) workflows handle many samples quickly, but detect less of each protein and with lower confidence.
Our new preprint introduces multiDIA: It gets more from each sample without fractionation.
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doi.org/10.64898/2026.…
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Slavov Laboratory retweeted
Proteomics has long faced a choice: Go deep, or go fast.
Deep, high-confidence coverage of protein sequences has traditionally required extensive chromatographic fractionation, large sample inputs and data acquisition times too long to be practical for analyzing human cohort data-independent acquisition (DIA) workflows handle many samples quickly, but detect less of each protein and with lower confidence.
Our new preprint introduces multiDIA: It gets more from each sample without fractionation.
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doi.org/10.64898/2026.…
Deep, high-confidence coverage of protein sequences has traditionally required extensive chromatographic fractionation, large sample inputs and data acquisition times too long to be practical for analyzing human cohort data-independent acquisition (DIA) workflows handle many samples quickly, but detect less of each protein and with lower confidence.
Our new preprint introduces multiDIA: It gets more from each sample without fractionation.
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doi.org/10.64898/2026.…
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Slavov Laboratory retweeted
Congratulations to Luke Khoury on the successful defense of his dissertation.
Working, learning and growing together has been fun.
I am proud of his scientific growth.
Our research has opened a fresh perspective on peripheral immune cells:
doi.org/10.64898/2026.…
Working, learning and growing together has been fun.
I am proud of his scientific growth.
Our research has opened a fresh perspective on peripheral immune cells:
doi.org/10.64898/2026.…
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Slavov Laboratory retweeted
The regulatory variation within a cell type is remarkably informative and interesting.
This gets particularly interesting in single cells from the same cell type.
Working at the cell type level misses much of the action.
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biorxiv.org/content/10.110…
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Slavov Laboratory retweeted
This gets particularly interesting in single cells from the same cell type.
Working at the cell type level misses much of the action.
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biorxiv.org/content/10.110…
Working at the cell type level misses much of the action.
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biorxiv.org/content/10.110…
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Join the Dissertation Defense of Luke Khoury:
Decoding Cell-Type-Specific Functional Coordination in Primary Human Immune Cells
Thursday, October 15, 2026 | 9:30am-11:30am EST
Richards Hall 229
Decoding Cell-Type-Specific Functional Coordination in Primary Human Immune Cells
Thursday, October 15, 2026 | 9:30am-11:30am EST
Richards Hall 229
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Join the Dissertation Defense of Luke Khoury:
Decoding Cell-Type-Specific Functional Coordination in Primary Human Immune Cells
Thursday, October 15, 2026 | 9:30am-11:30am EST
Richards Hall 229
Decoding Cell-Type-Specific Functional Coordination in Primary Human Immune Cells
Thursday, October 15, 2026 | 9:30am-11:30am EST
Richards Hall 229
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Slavov Laboratory retweeted
Do you need an intro to analyzing (prote)omics data?
This series of lectures may be helpful.
We aimed to make them short & accessible.
Enjoy watching & learning !
youtube.com/playlist?list=…
This series of lectures may be helpful.
We aimed to make them short & accessible.
Enjoy watching & learning !
youtube.com/playlist?list=…
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Slavov Laboratory retweeted
Read the methods before reading the results
Read the methods before reading the conclusions
Read the methods before evaluating the conclusions
Read the methods before making conclusions
Read the methods!
Read the methods before reading the conclusions
Read the methods before evaluating the conclusions
Read the methods before making conclusions
Read the methods!
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Slavov Laboratory retweeted
How much data would it take to describe human biology ?
A very crude description of molecular abundance requires 1,000× more bites than all digital data humanity stores.
We need more than scale to close the gap.
blog.slavovlab.net/2026/09/27/how…
A very crude description of molecular abundance requires 1,000× more bites than all digital data humanity stores.
We need more than scale to close the gap.
blog.slavovlab.net/2026/09/27/how…
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Slavov Laboratory retweeted
Using single-cell proteomics, we discovered protein (and functional) symmetry breaking in early mammalian embryos influencing cell fates.
These proteomic asymmetries are detectable at the zygote stage, intensify by the 2-cell and 4-cell stage, and correlate with the sperm entry lization as a symmetry-breaking event. The clear protein differences allowed us to define two types of blastomeres, termed alpha and beta.
⬛ These differences predict the developmental potential of the blastomeres. Similar clustering and protein enrichment patterns found in human 2-cell embryos suggest this early asymmetry might be conserved.
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These proteomic asymmetries are detectable at the zygote stage, intensify by the 2-cell and 4-cell stage, and correlate with the sperm entry lization as a symmetry-breaking event. The clear protein differences allowed us to define two types of blastomeres, termed alpha and beta.
⬛ These differences predict the developmental potential of the blastomeres. Similar clustering and protein enrichment patterns found in human 2-cell embryos suggest this early asymmetry might be conserved.
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Slavov Laboratory retweeted
Beyond heterogeneity, single-cell analysis can reveal functional coherence.
Coherence, regularity and principles advance science.
Full recording: youtube.com/watch?v=z0dIhG…
Coherence, regularity and principles advance science.
Full recording: youtube.com/watch?v=z0dIhG…
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Slavov Laboratory retweeted
Millions of PBMCs have been analyzed by scRNA-seq. Have we seen it all ?
We profiled thousands of single PBMCs — proteomes and transcriptomes side by side — and uncovered functional coordination undetectable in the deepest scRNA-seq we could perform.
biorxiv.org/content/10.648…
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We profiled thousands of single PBMCs — proteomes and transcriptomes side by side — and uncovered functional coordination undetectable in the deepest scRNA-seq we could perform.
biorxiv.org/content/10.648…
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