iiinova — where your digital self keeps evolving

Please try it and provide your feedback so we can keep on improving.🙌

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Moreover, the errors of the fitted parameters can be easily estimated through leave-one-out or profile likelihood analysis (thank you reviewer #3) 😁

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And fitted (both 330 nm and 350 nm) with a global model to obtain estimates of ΔCp, ΔHm, Tm and the m-value.

Fitted curves provided by Hamborg et al., with CheMelt global model. Global slopes and global intercepts with exponential baselines

Screenshot of CheMelt showing fitted parameters of a global fitting.

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CheMelt expands the work done by Hamborg et al., (2020). Global analysis of protein stability by temperature and chemical denaturation. Analytical biochemistry. For example, they kindly provide an unfolding dataset of the ACBP protein which can be imported in CheMelt:

Unfolding dataset provided by Hamborg et al., 2020. The unfolding curves were monitored at 350 nm and 330 nm.

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Osvaldo Burastero @osvalb.bsky.social · 10/04/2026

Do you want to study the stability of a designed protein that doesn't unfold below 90 ºC 🔥? Combine a denaturant and temperature and then analyse the results with our newest tool: CheMelt 🧪 Online: - spc.embl-hamburg.de/app/chemelt As Docker image (faster): - hub.docker.com/r/emblspc/ch...

Abstract illustration showing several thermal unfolding curves at different denaturant concentrations

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hahaha that was the easiest part 😅

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Osvaldo Burastero @osvalb.bsky.social · 10/04/2026

Thanks a lot Magnus! We're really happy to see that the eSPC software is not only useful for our Facility @spcembl.bsky.social but also for a lot of labs around the world 🙌 🙌

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Osvaldo Burastero @osvalb.bsky.social · 30/03/2026

Interested in protein biophysics?🧪 Sign up for the @springernature.com webinar (08/04) where we will present the MOSBRI project outcomes @mosbri.bsky.social, including the eSPC platform (spc.embl-hamburg.de) and the Molecular Biophysics Database (mbdb-data.org) 🙌 Info here: tinyurl.com/rdfsp4nv

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Osvaldo Burastero @osvalb.bsky.social · 19/02/2026

Do you have to create a scientific poster? 🧪 I have created a basic Figma template for it. Hope it helps 👐: github.com/osvalB/figma...

SPC Facility & Garcia-Alai Lab @spcembl.bsky.social · 29/01/2026

Reposted by Osvaldo Burastero

New protocol out now! 📕🖊️🔍 A practical workflow for analyzing CD thermal unfolding of short RNAs — from SVD decomposition to two-state fitting to extract melting temp and enthalpy with ChiraKit. A must-see if you’re working with RNA structure and CD data. DOI: 10.1007/978-1-0716-5084-4_12

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Reposted by Osvaldo Burastero

SPC Facility & Garcia-Alai Lab @spcembl.bsky.social · 15/09/2025

We’re looking for a GL! Join us at EMBL Hamburg! 🧫🦠🧬 The position will be based at CSSB @cssbhamburg.bsky.social , an interdisciplinary research centre focused on infection biology, and will be integrated into EMBL's research programme. @embl.org Find out more and apply here: lnkd.in/dJU9pee7

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Reposted by Osvaldo Burastero

EMBL @embl.org · 14/08/2025

EMBL-EBI ARISE fellow @melanieschneider.bsky.social & EMBL Grenoble’s Marquez team developed EnsembleFlex 🖥️! It can analyse flexibility, identify protein states, and show drug binding, providing new insights into protein dynamics! doi.org/10.1016/j.st...

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Osvaldo Burastero @osvalb.bsky.social · 13/08/2025

Do you want to analyze mass photometry (MP) count data with Python scripts? Try pyPhotoMol, a package to process, fit, and visualize the MP data 👨‍💻 github.com/osvalB/pypho... pyPhotoMol is derived from PhotoMol, our web tool for MP: spc.embl-hamburg.de/app/photoMol #massphotometry #Python #code

Simulated mass photometry results showing count distributions at a constant concentration of A (150 kDa) and seven different concentrations of B (30 kDa). B free is under the limit of detection (40 kDa). A and B interact with an equilibrium dissociation constant (Kd) of 1 nM.

Screenshot of the pyPhotoMol package repository (https://github.com/osvalB/pyphotomol)

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Osvaldo Burastero @osvalb.bsky.social · 12/06/2025

Happy to present the next tool under development. KinGenie, for binding kinetics. It already supports biolayer interferometry input files. Try it here: spc.embl-hamburg.de 🎉🎉🧪🧪

spc.embl-hamburg.de

eSPC platform

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Osvaldo Burastero @osvalb.bsky.social · 28/04/2025

ChiraKit, our tool for circular dichroism, has been published in NAR 🎉🎉👨‍🔬👨‍🔬. @narjournal.bsky.social

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Reposted by Osvaldo Burastero

Clarissa Czekster @cczekster.bsky.social · 24/04/2025

Just want to say thanks to @spcembl.bsky.social for developing ChiraKit and allowing quick and informative analysis of CD data - more here www.biorxiv.org/content/10.1... best news of the day today as we were stuck with beautiful but hard to analyze data 🙂 #scienceisawesome

biorxiv.org

ChiraKit, an online tool for the analysis of circular dichroism spectroscopy data

Circular dichroism (CD) spectroscopy is an established biophysical technique to study chiral molecules. CD allows investigating conformational changes under varying experimental conditions and has bee...

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Osvaldo Burastero @osvalb.bsky.social · 14/02/2025

Interested in antimicrobial resistance and drug discovery? Attend the talk of my colleague and partner Tania Szal 😊 Monday 17th at 8:30. Platform: protein-small molecule interactions I #BPS2025

Osvaldo Burastero @osvalb.bsky.social · 14/02/2025

Looking forward to making new connections at #BPS2025👨 Meet me at poster B38 on Tuesday 18 Feb 13:45. Session "protein stability folding and chaperones"

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Osvaldo Burastero @osvalb.bsky.social · 11/02/2025

Just finished a science poster (in Figma) and wanted to share the template I used! 🎨 Hope it's useful: github.com/osvalB/figma...

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Reposted by Osvaldo Burastero

EMBL @embl.org · 03/02/2025

Scientists at University of Buenos Aires, EMBL Hamburg, and others mapped yerba mate’s genome, providing surprising facts about its biochemistry and evolution of caffeine biosynthesis. 🧉🧬🧪 Find out more: www.embl.org/news/science... @spcembl.bsky.social

A cup of yerba mate on a wooden surface and some dried yerba mate next to it.

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Curious fact: many researchers normalise the CD signal using the number of residues. Others, use the number of peptide bonds. Still, everyone calls it 'mean residue molar ellipticity/extinction'. The cromophore unit is the peptide bond, so use that. For short peptides, it matters. 👍

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After many months of gathering user feedback and improving our software, we think it's time to share it with the community. Enjoy our latest tool 🥳 , and stay tuned for the next one 😉

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The estimated Kd (micromolar) is 1.3, and we also provide the asymmetric confidence interval: [0.5 - 3.1] (link.springer.com/article/10.1...) The reported Kd by the authors was 1.2. 6. Extra: I scaled the plot to start around 0.

Points: measured MST signal. Line: Fitted curved based on the estimated Kd of 1.3 micromolar.

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4. Go to the '2. Fitting' section. Inside the 'Advanced settings', set the Kd max value to 5 micromolar (to help the fitting algorithm 😄😬 ). 5. Press on 'Run fitting' and voila!

Screenshot of ThermoAffinity showing that the Kd upper bound (for the fitting) is 5 micromolar.

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2. Import the file into our tool ThermoAffinity (spc.embl-hamburg.de/app/thermoAf...) 3. Set the units to 'Nanomolar' and the hot region between 14 - 20 seconds (based on what the authors reported)

Screenshot of ThermoAffinity showing that the selected units are 'Nanomolar', and that the hot region interval goes from 14 to 20 seconds.

Microscale thermophoresis traces of the entry https://mbdb-data.org/mst/5s81t-w6s49

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Molecular Biophysics Database

Hope this makes it easier to reproduce published analyses. A short example (circa 10 minutes): 1. Downloaded the microscale thermophoresis raw data Lys VHH B09 25 nM Lys100uM max_MSTTraceRawData.xlsx, available at mbdb-data.org/mst/5s81t-w6...

mbdb-data.org

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Molecular Biophysics Database

Our colleagues in Prague have released a database for molecular biophysics data - mbdb-data.org! 🌍📊 A great step forwards FAIR data in biophysics. 🙌✨ @mosbri.bsky.social

mbdb-data.org

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Reposted by Osvaldo Burastero

Instruct-ERIC @instruct-eric.bsky.social · 30/01/2025

Instruct now has two R&D calls open - aimed at growing and advancing the global structural biology toolkit! - The pilot award is open to Early Career Researchers, with up to €15,000 available for any topic - The TechDev call in AI research awards up to €30,000 instruct-eric.org/rd-project-a...

instruct-eric.org

R&D project awards - Instruct-ERIC

Instruct-ERIC is a pan-European research infrastructure in structural biology, making high-end technologies and methods available to all European researchers.

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Osvaldo Burastero @osvalb.bsky.social · 29/01/2025

Are you working with circular dichroism (CD)? Check out the latest update to our ChiraKit tool, now with 10 tutorials to get you started! 🚀 Try it here: spc.embl-hamburg.de/app/chirakit

An abstract representation of what happens during a circular dichroism measurement. Left- and right-circularly polarized light passes through the sample. One of the components is more absorbed.

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Reposted by Osvaldo Burastero

Centre for Structural Systems Biology CSSB @cssbhamburg.bsky.social · 09/01/2025

The Sondermann group and collaborators @univofmaryland.bsky.social have identified a new family of bacterial enzymes termed diDNases. The research received a Breakthrough Article designation from Nucleic Acids Research. Find out more: t1p.de/i07ua

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Osvaldo Burastero @osvalb.bsky.social · 15/12/2024

Journalist friend: you pay to publish your work? 😶 Me: yes, and we also review for free, and pay to read Friend: are scientists okay? Idk 😅

Osvaldo Burastero @osvalb.bsky.social · 06/12/2024

Apply now to learn about binding kinetics at the Institut Pasteur (April 2025) 🧪😁

Kate Michie @kmichie.bsky.social · 17/11/2024

Reposted by Osvaldo Burastero

So many people added to pack 1 this weekend we had to make pack 2. Makes sure you refresh for followers on pack one to see them all! 🧶🧬 go.bsky.app/DDetSBp

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Osvaldo Burastero @osvalb.bsky.social · 22/11/2024

Anyone looking for a postdoc position? Apply to join our group in EMBL Hamburg 😊🧪

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Osvaldo Burastero @osvalb.bsky.social · 20/11/2024

We've developed some tools to analyse dsf data. Please check them out and don't doubt to contact us 😁 spc.embl-hamburg.de

spc.embl-hamburg.de

SPC Webserver

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Reposted by Osvaldo Burastero

EMBL-EBI @ebi.embl.org · 19/11/2024

Not enough bioinformatics in your Bluesky feed? We’ve got you covered. Follow us for our latest news, exciting life science research, updates from our data resources, new tools and training resources. Haven't heard of EMBL-EBI? Take a look at what we’re working on. www.ebi.ac.uk/about/our-im...

ebi.ac.uk

Our impact

We provide open data that helps scientists understand life and that informs solutions to real-world problems, such as infectious diseases, climate change and food security.

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Osvaldo Burastero @osvalb.bsky.social · 18/11/2024

Nice work! Wish I had this tool some years ago. Would like to know if there is any special reason why correlations are converted into distances using -ln(corr). E.g. one could use (1 - corr), etc.

Osvaldo Burastero @osvalb.bsky.social · 18/11/2024

Just out! 🥳🥳 Great work done at the @spcembl.bsky.social to understand clathrin-mediated endocytosis. We investigated how clathrin and adaptor proteins interact in vitro and in vivo. Kudos to the 1st author @lucasdefelipe.bsky.social! www.nature.com/articles/s41... www.embl.org/news/science...

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Assisted to a meeting about FAIR (Findable, accessible, interoperable and reusable, or Foundational AI ready, depending who you ask😅) data. Main takeaway: FAIR is far in biophysics

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More starter packs. This time for biophysics 🧪

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Ty! I'd also like to be included 😁