@parallelsq.bsky.social
A nonprofit research institute for advancing protein research in human health and disease | parallelsq.org
You can help enable the quantification of thousands of samples/day without sacrificing depth or accuracy.
What makes this position special is that these technologies are directly and tightly integrated with biological discovery.
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jobs.lever.co/convergentre...
A special opportunity for lovers of mass spectrometry proteomics to join a like-minded team at PTI.
Join a collaborative initiative to enable direct protein analysis at unprecedented scale, in partnership with leading instrument developers, academics, and industry leaders.
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Weโre testing conceptual hypotheses, dissecting disease progression, proteostasis, protein degradation, PTMs, and aggregation, all with focus on creative, rigorous data interpretation.
If you want to do science that changes how we think, this is it. ๐
jobs.lever.co/convergentre...
๐ฅ Weโre hiring! A rare opportunity to rethink neurodegeneration:
๐ฆ Develop creative, rigorous approaches to data interpretation toward mechanistic insights.
Join our team at PTI to study neurodegenerative disease using direct protein analysis at single-cell resolution.
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During his graduate studies, Mahlon Collins worked with ALS patients who underwent painful spinal taps to donate CSF for his biomarker research. Now, he leads neurodegenerative disease research at @parallelsq.bsky.social.
Learn more about Mahlon's journey: bit.ly/3NoKX4g
Single-cell proteomics is moving past descriptive snapshots to quantitative models of cellular regulation and biological mechanisms.
Come to #Boston this July to shape the next chapter and have your voice heard.
Abstract deadline: Apr 1, 2026.
single-cell.net/proteomics/s...
We're delighted to have Mahlon Collins featured in an @ionopticks.bsky.social article! The article goes over Mahlon's work on AD research, with a focus on advancing single-neuron proteomics at PTI.
ionopticks.com/2026/01/09/f...
The focussed research organizations enabled by @convergentresearch.bsky.social are driving forward an ambitious agenda !
youtu.be/L5W-lV1K_xQ?...
Biologyโs earliest decisions are written in proteins.
Using single-cell proteomics, we discovered protein (and functional) symmetry breaking in mammalian embryos long before major transcriptome differences are detectable.
cell.com/cell/fulltex...
We will host full day hands-on workshop that will take participants from biological samples through sample preparation to mass spectrometry data acquisition and analysis.
single-cell.net/proteomics/s...
Single-cell proteomics enables discoveries!
It illuminates the frontiers of biomedical research.
Among all proteome changes in Alzheimerโs disease (AD), 20S proteasomes stand out.
โฌ๏ธ Their abundance strongly declines in AD patients.
=> This decline parallels a reduction in 20S substrate proteins and leads to abnormal protein accumulation in AD.
biorxiv.org/content/10.1...
To facilitate technology dissemination, we will host a workshop in our laboratory. Register to secure a spot!
Workshop participation is free with in-person conference registration but requires an advanced registration. To facilitate interactions and hands-on experience, participation is limited.
To facilitate technology dissemination, we will host a workshop in our laboratory. Register to secure a spot!
Workshop participation is free with in-person conference registration but requires an advanced registration. To facilitate interactions and hands-on experience, participation is limited.
Research Fest highlighted PTI's scientific achievements to date as well as the team that made it all happen. We are thankful for the members on our team and the community who support our work, and wish everyone a Happy Thanksgiving.
youtu.be/YFfeJqHC3tM
Technologies for increasing the parallelization of mass spectrometry proteomics in the time and mass domains:
www.parallelsq.org/research-ove...
The multiplexing approaches that we are developing allow scaling up such rate measurements.
timePlex, PSMtags, and JMod can all support increased throughput for ๐๐ ๐ฃ๐๐ฃ๐ metabolic pulse experiments, and thus make dynamic protein analysis more scalable.
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More excellent work from @parallelsq.bsky.social ! So proud to be part of this team #TeamMassSpec #proteomics
19.11.2025 13:44 โ ๐ 2 ๐ 1 ๐ฌ 0 ๐ 0
No one is immune to aging but what exactly happens to our immune system as it ages? @thibaultcolombani.bsky.social takes a molecular dive into the immune system and talks about understanding age-induced immune altercations through single-cell proteomics.
www.youtube.com/watch?v=WUU1...
We aim to enable this via plexDIA and new mass tags:
www.parallelsq.org/psmtags
They bring multiplexed, high-throughput DIA to map these changes across population scale cohorts, including protein PTMs and single-cell proteomes.
Proteoforms matter:
Protein functions change due to sequence variants and diverse modifications regulating their activities.
๐๐จ ๐ฌ๐๐ ๐๐ข๐จ๐ฅ๐จ๐ ๐ฒ (๐๐ง๐ ๐๐ข๐ฌ๐๐๐ฌ๐) ๐๐ฅ๐๐๐ซ๐ฅ๐ฒ, ๐ฐ๐ ๐ง๐๐๐ ๐ฉ๐ซ๐จ๐ญ๐๐จ๐๐จ๐ซ๐ฆ-๐ฅ๐๐ฏ๐๐ฅ ๐ช๐ฎ๐๐ง๐ญ๐ข๐๐ข๐๐๐ญ๐ข๐จ๐ง ๐๐ญ ๐ฌ๐๐๐ฅ๐.
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๐ถ๐๐๐๐๐๐๐ก๐๐๐๐๐ scaling may unlock a new level of throughput. This is enabling a long-awaited experiment !
Our team, led by Jason Derks, enabled combinatorial-scaling of mass spec proteomics throughput by developing multiplexing in the time domain, timePlex.
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Combining this time domain multiplexing with mass domain multiplexing (plexDIA), we demonstrated combinatorial scaling of throughput. You can read about it www.biorxiv.org/content/10.1... and hear Jason describe it at the Parallel Squared Technology Institute Research Fest: youtu.be/2rLBk4IaZpk?...
01.11.2025 16:59 โ ๐ 3 ๐ 2 ๐ฌ 1 ๐ 0
Mahlon Collins is leading our discoveries in profiling the proteome of single neurons from Alzheimer's disease patients. He presents this research journey in a talk, "Discovering Alzheimer's disease protein dysfunctions with high throughput proteomics".
youtu.be/UD8uSIfg7WY
@jasonderks.bsky.social presents "Increasing Mass spectrometry throughput using time encoded sample multiplexing" at Research Fest in Boston, MA on April 22, 2025.
www.youtube.com/watch?v=2rLB...
And, we are back with another presentation from this year's Research Fest. PTI's Senior Computational Scientist, Kevin McDonnell, talks about developing joint modeling (aka JMod) of mass spectra for empowering multiplexed DIA proteomics.
www.youtube.com/watch?v=plK4...
Throwback Thursday continues with a presentation by Maddy Yeh and Mark Adamo from Research Fest: "Tags for improving peptide sequencing and throughput in sensitive proteomics".
Watch on YouTube: www.youtube.com/watch?v=jA2I...
The counting statistics for single-cell MS support accurate estimates of protein abundance in single cells, which is essential for quantitative analysis.
Further, measuring and modeling protein degradation is key to biological interpretations.
pubs.acs.org/doi/10.1021/...
Earlier this year, @parallelsq.bsky.social hosted a research fest.
We began with a broad perspective:
โพ๏ธ A century of remarkable progress! Proteomics drove conceptual discoveries and medical treatments.
Listen to what's next!
Proteomics: The arc of progress
youtu.be/Sc2QLXb84XI?...
Congrats to @e11bio.bsky.social on developing and showcasing PRISM for mapping brain wiring.
02.10.2025 23:00 โ ๐ 2 ๐ 0 ๐ฌ 0 ๐ 0
