CinderBio

Learn about de novo antibody sequencing by mass spec using only one run at poster TP-005 today!

#asms2025 #proteomics

@hecklab.bsky.social @tshamorkina.bsky.social @tkadava.bsky.social @joostsnijder.bsky.social

Thanks to @cinderbio.bsky.social and @sciex.bsky.social for their contribution and support

We are excited to have it out: a combination of archaeal proteases and hybrid fragmentation for antibody de novo sequencing. Poster TP-005 #asms2025 #teammassspec
It was a true team effort @lperezpaneda.bsky.social @tkadava.bsky.social @joostsnijder.bsky.social and @hecklab.bsky.social

Just over a week to go until #ASMS2025 in Baltimore

Come see posters using CinderBio enzymes on the schedule and topics below.

Steven Yannone our Founder and CEO, will be at the conference. Reach out to info@cinderbio.com for more information.

#proteomics #TeamMassSpec

Toward Real-Time Proteomics: Blood to Biomarker Quantitation in under One Hour pubs.acs.org/doi/abs...

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#proteomics #prot-paper

Toward Real-Time Proteomics: Blood to Biomarker Quantitation in under One Hour Multistep multihour tryptic proteolysis has limited the utility of bottom-up proteomics for cases that require immediate quantitative information. The power of proteomics to quantify biomarkers of hea...

Krakatoa doesn't have to just mean violent destruction. Close to real-time proteeomics was achieved via a combined effort between @CedarsSinai and Cinder with their unique hypothermophile enzyme "Krakatoa"

pubs.acs.org/doi/10.1021/...

Toward Real-Time Proteomics: Blood to Biomarker Quantitation in under One Hour Multistep multihour tryptic proteolysis has limited the utility of bottom-up proteomics for cases that require immediate quantitative information. The power of proteomics to quantify biomarkers of hea...

Toward Real-Time Proteomics: Blood to Biomarker Quantitation in under One Hour #AC #MassSpec pubs.acs.org/doi/10.1021/...

Toward Real-Time Proteomics: Blood to Biomarker Quantitation in under One Hour Multistep multihour tryptic proteolysis has limited the utility of bottom-up proteomics for cases that require immediate quantitative information. The power of proteomics to quantify biomarkers of hea...

pubs.acs.org/doi/10.1021/...
A super collaboration trying to solve a bottleneck in diagnostic medicine.

Toward Real-Time Proteomics: Blood to Biomarker Quantitation in under One Hour Multistep multihour tryptic proteolysis has limited the utility of bottom-up proteomics for cases that require immediate quantitative information. The power of proteomics to quantify biomarkers of health status cannot practically assist in clinical care if the dynamics of disease outpaces the turnaround of analysis. The recently available hyperthermoacidic archaeal (HTA) protease “Krakatoa” digests samples in a single 5 to 30 min step at pH 3 and >80 °C in conditions that disrupt most cells and tissues, denature proteins, and block disulfide reformation thereby dramatically expediting and simplifying sample preparation. The combination of quick single-step proteolysis with high-throughput dual-trapping single analytical column (DTSC) liquid chromatography–mass spectrometry (LC–MS) returns actionable data in less than 1 h from collection of unprocessed biofluid. The systematic evaluation of this methodology finds that over 160 proteins are quantified in less than 1 h from 1 μL of whole blood. Furthermore, labile Angiotensin I and II bioactive peptides along with a panel of protein species can be measured at 8 min intervals with a 20 min initial lag using targeted MS. With these methods, we analyzed serum and plasma from 53 individuals and quantified Angiotensin I and II and over 150 proteins including at least 46 that were not detected with trypsin. We discuss some of the implications of real-time proteomics including the immediate potential to advance several clinical and research applications.

Awesome paper, where we present and evaluate the methodology that will someday enable real-time monitoring of circulating biomarkers. pubs.acs.org/doi/full/10....

At US HUPO, CinderBio technologies were featured in a platform presentation and two posters. Researchers highlighted how the simple sample preparation workflows led to complete and deep sequence reads for mAbs and de novo sequencing for new proteins.

cinderbio.com

#Proteomics #TeamMassSpec

Thank you!

@ucdproteomics.bsky.social , @benneely.com - any plans to restart radio hour?

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‎Create a christmas carol talking about mass spectrometers and proteomics Created with Bard.

Someone wants to go to a baseball game? Not sure I get the reference. Anyway, here is our ai-enabled contribution to the Christmas carols - enjoy! g.co/bard/share/b...

@ucdproteomics.bsky.social, @benneely.com - radio hour this week or no?

We want to give a public "Thank You!” to early adopters of CinderBio's initial HTA-Proteases. We are thrilled to contribute to experiments in clinical proteomics, epigenetics, immunotherapies, cancer drug discovery and more. We enjoy being this kind of busy. Thanks to all of you - Team CinderBio

@hartl.bsky.social do your numbers match on the $ side as well? If I understood correctly, Michael is saying ~$500 in labor per sample (including lab-performed data analysis) and ~$50 in depreciation and consumables. How do you think the labor breaks out in terms of activities?

Thanks, next step to address @cashwood.bsky.social original question is how much labor does it take to run 4000 samples/year or roughly 16 samples a wkg day. To make things simple let's assume fractional people are a possibility

How much of that $50 is depreciation which is dependent on the amount of activity on the LC and MS?

What’s a reasonable estimate for labor required to do everything

@lkpino.bsky.social , @scienthusiast.bsky.social Why do you think mass spec has underdelivered? What was missing then and is it here now or at least on the horizon? If not, who is working on it?

VENNY VENN IS DOWN! Okay.  I'm not going to panic, but VENNY doesn't work.  If you aren't familiar, the VENNY website by Juan Carlos Oliveros (2007) was the fir...

Venny has moved! After reading this blog post by @proteomicsnews.bsky.social I did a little digging and found this page: bioinfogp.cnb.csic.es where it says the site is down for maintenance. However, Venny is temporarily available here csbg.cnb.csic.es/BioinfoGP/ve... Happy Venning!

#proteomics

@ucdproteomics.bsky.social can you clarify the time? Eastern and Pacific seemed to be switched above and they are only 3 hours apart - not 4.

(2/2)

- Olink’s proven and transformative innovation is highly complementary to our leading mass spectrometry and life sciences platforms.

- [Olink will] meaningfully accelerate discovery and scientific breakthroughs

It’s a lot for sure. ~15x projected 2024 revenue for something expected to grow revenue in the “mid-teens” in 2025/6.

From the press release on the rationale:

- proteomics is having a profound impact on life science research and precision medicine.

1/2

Breaking news: Thermo buys Olink.

#massspec #proteomics

Is this it? I looked through Phil's mastodon posts and came across this thread started by Ron Beavis.

mastodon.social/@RonBeavis/1...

Hi Tonya, HTA Proteases get reasonable coverage without reduction. With reduction, coverage improves. IAA is not required at pH3. Happy to answer other questions. Please contact us on the website. cinderbio.com

Our enzymes are strange and fun!

#proteomics #massspec #archaea

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