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Parallel Squared Technology Institute

@parallelsq.bsky.social
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A nonprofit research institute for advancing protein research in human health and disease | parallelsq.org

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Parallel Squared Technology Institute @parallelsq.bsky.social · 22/09/2026
Single-cell proteomics is beginning to reveal functional coordination and principles. This motivate us to keep advancing the depth, quantitative accuracy, and scalability of the technology to further empower this analysis and help identify biological principles and targetable disease mechanisms.
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Parallel Squared Technology Institute @parallelsq.bsky.social · 16/09/2026
A recent Nature Technology Feature (lnkd.in/gurhMjXB) traces the remarkable development of single-cell proteomics, from a technology that was once considered nearly impossible to a field in which it is possible to measure 1000s of proteins from individual cells. See lnkd.in/g2tKtaxJ for more info!
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Parallel Squared Technology Institute @parallelsq.bsky.social · 15/09/2026
Great to see multiplexed single-cell proteomics uncover new biology. We are looking forward to further increasing the plex and thus the power of the technology for biological discoveries! Congratulations to Luke Khoury and team !
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Convergent Research @convergentresearch.bsky.social · 09/09/2026
Excited to see what @slavov-n.bsky.social and @parallelsq.bsky.social have been working on in @nature.com's new article on single-cell proteomics.
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Nikolai Slavov @slavov-n.bsky.social · 09/09/2026
The piece revisits the early days, our lab's initial work alongside other groups pioneering complementary approaches, together showing that mass-spec-based single-cell proteomics was feasible & promising. The proof-of-concept set the field in motion. 2/ www.nature.com/articles/d41...
nature.com
Probing the proteome at cellular scale
Rapid technological advances are allowing researchers to identify thousands of proteins in individual cells, revealing the hidden mechanisms underlying development and disease.
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Nikolai Slavov @slavov-n.bsky.social · 09/09/2026
Nature just published a tech feature on single-cell proteomics. It highlights our journey from skepticism to robust technology and biological discoveries. I love that the feature starts with a biological discovery enabled by the technology: www.cell.com/cell/fulltex... 1/
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Nikolai Slavov @slavov-n.bsky.social · 07/09/2026
By regulating protein stability, liver cells set protein accumulation rates and thus spatial abundance. Any tissue with a spatial gradient could be using this mechanism. Could this be a general mechanism for sculpting spatial protein gradients ? nikolaislavov.substack.com/p/sculpting-...
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Nikolai Slavov @slavov-n.bsky.social · 01/09/2026
These results bode well for the feasibility of massively scaling up single-cell proteomics while preserving and increasing the depth of coverage and quantitative accuracy. 1/
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Nikolai Slavov @slavov-n.bsky.social · 01/09/2026
We designed it as an open-source platform that the community can use to invent new acquisition strategies, experiment with creative designs, and develop the next generation of quantitative proteomics. 4/ 🔗 www.parallelsq.org/JMod
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Nikolai Slavov @slavov-n.bsky.social · 01/09/2026
Accurately quantifying over 700K precursors in a single 9-plexDIA set of 20ng proteomes is a new milestone. JMod achieves high quantitative accuracy over a 32-fold dynamic range of proteome spiked-in ratios across single-cell and bulk sample sizes. 1/ doi.org/10.1101/2025...
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Nikolai Slavov @slavov-n.bsky.social · 13/08/2026
Save the date: The 10th Single Cell Proteomics Conference (SCP2027) will be on July 12 - 14, 2027 single-cell.net/proteomics/s...
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Nikolai Slavov @slavov-n.bsky.social · 08/08/2026
Developing treatments for Alzheimer’s and Parkinson’s diseases is limited by the incomplete understanding of the molecular processes underlying them. Single-cell proteomics is opening a new window into these diseases: - It allows for a different type of analysis, different in kind. 1/
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Nikolai Slavov @slavov-n.bsky.social · 05/08/2026
We're looking for mass spectrometry enthusiasts who thrive on quantitative rigor, innovation and enjoy challenges: - Colleagues eager to propel biological discoveries by inventing the technologies of the future.
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Parallel Squared Technology Institute @parallelsq.bsky.social · 27/07/2026
Twenty-four researchers gathered at PTI for a full day of hands-on learning, collaboration, and discovery at the 2026 Single-Cell Proteomics Workshop. Thank you to everyone who joined us and helped make the workshop a success! www.parallelsq.org/blog/2026-si...
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Nikolai Slavov @slavov-n.bsky.social · 22/07/2026
My Biemann Medal lecture is now available on YouTube. In it, I trace the exhilarating journey of developing single-cell proteomics, beginning on Christmas Day in 2010, when, as a PhD student, I became convinced that understanding biology would require measuring proteins. youtu.be/z0dIhG4C3qI?...
youtu.be
Biemann Medal Lecture: An exhilarating journey towards single-cell proteomics
YouTube video by Nikolai Slavov
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Nikolai Slavov @slavov-n.bsky.social · 24/06/2026
Since the 1960s, the genetic code has been used to predict protein sequences from DNA and mRNA sequences. Our @nature.com article demonstrates that these predictions miss thousands of protein sequences present in human tissues. www.nature.com/articles/s41... 1/
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Nikolai Slavov @slavov-n.bsky.social · 25/06/2026
As usually, the Single-Cell Proteomics Conference aims to maximize accessibility. Thus, #SCP2026 will enable virtual attendance via Zoom. It's free but requires registration at single-cell.net Only presentations by speakers who consent to Zoom broadcast will be included in the virtual program.
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Nikolai Slavov @slavov-n.bsky.social · 15/06/2026
What are the biggest opportunities in biology today? Understanding the proteome is a huge one. It motivated us to launch @parallelsq.bsky.social: > To increase the sensitivity, scale and resolution for exploring one of biology's most exciting frontiers: youtu.be/9Gz6km1J9Wo?...
youtu.be
The Proteome: Biology's Next Frontier
YouTube video by Nikolai Slavov
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Nikolai Slavov @slavov-n.bsky.social · 09/06/2026
The program for #SCP2026 is online. The talks span diverse technologies and biological questions. Join the discussions, flash talks, and hands-on workshop. 🗓️ July 14-16, 2026 | Boston, USA 🔗 Check out the full program: single-cell.net/proteomics/s...
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Nikolai Slavov @slavov-n.bsky.social · 05/06/2026
It's wonderful sharing the journey with a collaborative and thoughtful community. I'm deeply grateful to all who have contributed to the research recognized by the Biemann medal, a very special distinction for research that is gaining momentum. Let's opens new perspectives and explore together !
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Nikolai Slavov @slavov-n.bsky.social · 05/06/2026
The annual meeting of the American Society For Mass Spectrometry (@asms.org) has been very special for me as the Biemann Medal recognized our contributions to developing single-cell proteomic technologies and using them to open new perspectives.
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Nikolai Slavov @slavov-n.bsky.social · 12/05/2026
The final version of our @annualreviews.bsky.social article is now published OA: www.annualreviews.org/content/jour...
annualreviews.org
Single-Cell Proteomic Technologies: Tools in the Quest for Principles
Over the last decade, proteomics analysis of single cells by mass spectrometry transitioned from an uncertain possibility to a set of robust and rapidly advancing technologies supporting the accurate ...
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Nikolai Slavov @slavov-n.bsky.social · 09/05/2026
These numbers are key to understanding RNA and protein analysis. The different counting statistics fundamentally shape technological challenges and opportunities. www.nature.com/articles/s41...
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ASMS @asms.org · 08/05/2026
Congratulations to Nikolai Slavov, recipient of the 2026 ASMS Biemann Medal! This award recognizes significant early-career achievement and highlights emerging leaders shaping the future of #massspectrometry. #TeamMassSpec
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Nikolai Slavov @slavov-n.bsky.social · 29/04/2026
I am deeply honored to have been selected to receive the Biemann Medal by the American Society For Mass Spectrometry (@asms.org). While this award is presented to an individual, it reflects the collective contributions of exceptional teams at @slavovlab.bsky.social and @parallelsq.bsky.social.
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Parallel Squared Technology Institute @parallelsq.bsky.social · 03/04/2026
With years of research at its foundation, Nikolai and Harrison highlight the inspiration supporting PTI's own moonshot to make single cell proteomics scalable and accessible for researchers worldwide. Thanks @cowboybearninja.bsky.social for the video! youtu.be/9NNvkJYa43c
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Unfolding PTI's Origin Story with Nikolai Slavov and Harrison Specht
YouTube video by Parallel Squared Technology Institute
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Nikolai Slavov @slavov-n.bsky.social · 31/03/2026
This July 14 - 15, the 9th Single-Cell Proteomics Conference (single-cell.net) brings together a community that is redefining what’s possible: Robust methods enable scalable proteoform measurements from single cells without sacrificing depth or quantitative accuracy. 1/3
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Nikolai Slavov @slavov-n.bsky.social · 04/02/2026
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. 2/2 jobs.lever.co/convergentre...
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Nikolai Slavov @slavov-n.bsky.social · 04/02/2026
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. 1/2
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Nikolai Slavov @slavov-n.bsky.social · 02/02/2026
We’re 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. 👇 jobs.lever.co/convergentre...
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Nikolai Slavov @slavov-n.bsky.social · 02/02/2026
🔥 We’re hiring! A rare opportunity to rethink neurodegeneration: 🟦 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. 1/2
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IonOpticks @ionopticks.com · 12/01/2026
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
bit.ly
From patient donations to cellular insights: Mahlon Collins on single-neuron proteomics and the future of Alzheimer’s research
Mahlon Collins leads neurodegenerative disease research at the Parallel Squared Technology Institute (PTI). A neurobiologist by training, he has witnessed firsthand the tremendous burden these disease...
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Nikolai Slavov @slavov-n.bsky.social · 20/01/2026
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...
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Parallel Squared Technology Institute @parallelsq.bsky.social · 13/01/2026
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...
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Parallel Squared Technology Institute @parallelsq.bsky.social · 06/01/2026
The focussed research organizations enabled by @convergentresearch.bsky.social are driving forward an ambitious agenda ! youtu.be/L5W-lV1K_xQ?...
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Convergent Research: A mission control for frontier technology
YouTube video by Convergent Research
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Nikolai Slavov @slavov-n.bsky.social · 06/01/2026
Biology’s 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...
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Parallel Squared Technology Institute @parallelsq.bsky.social · 08/12/2025
Single-cell proteomics enables discoveries! It illuminates the frontiers of biomedical research.
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Nikolai Slavov @slavov-n.bsky.social · 08/12/2025
Among all proteome changes in Alzheimer’s disease (AD), 20S proteasomes stand out. ⬛️ 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...
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Parallel Squared Technology Institute @parallelsq.bsky.social · 01/12/2025
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.
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Parallel Squared Technology Institute @parallelsq.bsky.social · 26/11/2025
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
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Panel Discussion with Nikolai Slavov, Harrison Specht, Sarah Sipe, and Kevin McDonnell
YouTube video by Parallel Squared Technology Institute
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Parallel Squared Technology Institute @parallelsq.bsky.social · 20/11/2025
The multiplexing approaches that we are developing allow scaling up such rate measurements. timePlex, PSMtags, and JMod can all support increased throughput for 𝑖𝑛 𝑣𝑖𝑣𝑜 metabolic pulse experiments, and thus make dynamic protein analysis more scalable. Quote
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🎶Jaaane says... 🎶 🇨🇦 @cportgrrl.bsky.social · 19/11/2025
More excellent work from @parallelsq.bsky.social ! So proud to be part of this team #TeamMassSpec #proteomics
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Parallel Squared Technology Institute @parallelsq.bsky.social · 13/11/2025
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...
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Parallel Squared Technology Institute @parallelsq.bsky.social · 08/11/2025
Proteoforms matter: Protein functions change due to sequence variants and diverse modifications regulating their activities. 𝐓𝐨 𝐬𝐞𝐞 𝐛𝐢𝐨𝐥𝐨𝐠𝐲 (𝐚𝐧𝐝 𝐝𝐢𝐬𝐞𝐚𝐬𝐞) 𝐜𝐥𝐞𝐚𝐫𝐥𝐲, 𝐰𝐞 𝐧𝐞𝐞𝐝 𝐩𝐫𝐨𝐭𝐞𝐨𝐟𝐨𝐫𝐦-𝐥𝐞𝐯𝐞𝐥 𝐪𝐮𝐚𝐧𝐭𝐢𝐟𝐢𝐜𝐚𝐭𝐢𝐨𝐧 𝐚𝐭 𝐬𝐜𝐚𝐥𝐞. 1/2
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Nikolai Slavov @slavov-n.bsky.social · 01/11/2025
𝐶𝑜𝑚𝑏𝑖𝑛𝑎𝑡𝑜𝑟𝑖𝑎𝑙 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. 1/n
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Nikolai Slavov @slavov-n.bsky.social · 01/11/2025
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?...
youtu.be
Increasing Mass spectrometry throughput using time encoded sample multiplexing | Jason Derks
YouTube video by Parallel Squared Technology Institute
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Parallel Squared Technology Institute @parallelsq.bsky.social · 31/10/2025
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
youtu.be
Discovering Alzheimers disease protein dysfunctions with high throughput proteomics | Mahlon Collins
YouTube video by Parallel Squared Technology Institute
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Parallel Squared Technology Institute @parallelsq.bsky.social · 23/10/2025
@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...
youtube.com
Increasing Mass spectrometry throughput using time encoded sample multiplexing | Jason Derks
YouTube video by Parallel Squared Technology Institute
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Parallel Squared Technology Institute @parallelsq.bsky.social · 16/10/2025
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...
youtu.be
Jmod: Joint modeling of mass spectra for empowering mulitplexed DIA proteomics | Kevin McDonnell
YouTube video by Parallel Squared Technology Institute
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Parallel Squared Technology Institute @parallelsq.bsky.social · 09/10/2025
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...
youtube.com
Tags for improving peptide sequencing and throughput in sensitive proteomics | Maddy Yeh, Mark Adamo
YouTube video by Parallel Squared Technology Institute
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