Brian Ratnasinghe
@brianrat.bsky.social
Post-Doc(2029): 👀
PhD(2027): University of Copenhagen - NBI Commic Group
Biophysics Researcher(2024): Medical College of Wisconsin - Mellows Center for Genomic Science and Precision Medicine
Masters(2021): Virginia Tech - Lemkul Lab
PhD(2027): University of Copenhagen - NBI Commic Group
Biophysics Researcher(2024): Medical College of Wisconsin - Mellows Center for Genomic Science and Precision Medicine
Masters(2021): Virginia Tech - Lemkul Lab
Reposted by Brian Ratnasinghe
In 2017 I co-organized a BPS thematic meeting on Conformational Ensembles from Experimental Data and Computer Simulations
We're back in Berlin Aug 2027 with
Biomolecular Dynamics: Integrating Experiments and Computation
with a great line-up (to be revealed soon)
www.biophysics.org/upcoming-the...
We're back in Berlin Aug 2027 with
Biomolecular Dynamics: Integrating Experiments and Computation
with a great line-up (to be revealed soon)
www.biophysics.org/upcoming-the...
September 8, 2026 at 7:52 PM
In 2017 I co-organized a BPS thematic meeting on Conformational Ensembles from Experimental Data and Computer Simulations
We're back in Berlin Aug 2027 with
Biomolecular Dynamics: Integrating Experiments and Computation
with a great line-up (to be revealed soon)
www.biophysics.org/upcoming-the...
We're back in Berlin Aug 2027 with
Biomolecular Dynamics: Integrating Experiments and Computation
with a great line-up (to be revealed soon)
www.biophysics.org/upcoming-the...
Reposted by Brian Ratnasinghe
Why is it so difficult to predict accurate mutational effects on protein stability?
We explored the contribution from changes in native state configurational entropy in this paper, which also happens to be the last from my PhD.
A short thread of why this matters. 1/n
doi.org/10.48550/arX...
We explored the contribution from changes in native state configurational entropy in this paper, which also happens to be the last from my PhD.
A short thread of why this matters. 1/n
doi.org/10.48550/arX...
May 15, 2026 at 1:11 PM
Why is it so difficult to predict accurate mutational effects on protein stability?
We explored the contribution from changes in native state configurational entropy in this paper, which also happens to be the last from my PhD.
A short thread of why this matters. 1/n
doi.org/10.48550/arX...
We explored the contribution from changes in native state configurational entropy in this paper, which also happens to be the last from my PhD.
A short thread of why this matters. 1/n
doi.org/10.48550/arX...
Reposted by Brian Ratnasinghe
Proud and honoured to receive the Novo Nordisk Foundation’s Prize for Natural Science Teachers together with Birthe Kragelund and Karen Skriver
Teaching takes a village, and I owe many many thanks to amazing colleagues, students, and collaborators over the years
science.ku.dk/english/pres...
Teaching takes a village, and I owe many many thanks to amazing colleagues, students, and collaborators over the years
science.ku.dk/english/pres...
BIO team receives Novo Nordisk Foundation Prize
Birthe B. Kragelund, Karen Skriver, and Kresten Lindorff-Larsen has worked to strengthen the natural science teaching for years. They're now being awarded The Novo Nordisk Foundation’s Prize for Natur...
science.ku.dk
March 18, 2026 at 3:04 PM
Proud and honoured to receive the Novo Nordisk Foundation’s Prize for Natural Science Teachers together with Birthe Kragelund and Karen Skriver
Teaching takes a village, and I owe many many thanks to amazing colleagues, students, and collaborators over the years
science.ku.dk/english/pres...
Teaching takes a village, and I owe many many thanks to amazing colleagues, students, and collaborators over the years
science.ku.dk/english/pres...
Reposted by Brian Ratnasinghe
We are hiring a postdoc in computational biophysics and machine learning studies of intrinsically disordered proteins
We aim to study the function of IDPs by combining CG MD, ML and bioinformatics in collaboration with @tanjamittag.bsky.social & @rhp-lab.bsky.social
tinyurl.com/REWIRE-PD
We aim to study the function of IDPs by combining CG MD, ML and bioinformatics in collaboration with @tanjamittag.bsky.social & @rhp-lab.bsky.social
tinyurl.com/REWIRE-PD
March 16, 2026 at 7:26 PM
We are hiring a postdoc in computational biophysics and machine learning studies of intrinsically disordered proteins
We aim to study the function of IDPs by combining CG MD, ML and bioinformatics in collaboration with @tanjamittag.bsky.social & @rhp-lab.bsky.social
tinyurl.com/REWIRE-PD
We aim to study the function of IDPs by combining CG MD, ML and bioinformatics in collaboration with @tanjamittag.bsky.social & @rhp-lab.bsky.social
tinyurl.com/REWIRE-PD
Reposted by Brian Ratnasinghe
Our latest paper in which we use multiple force fields to recover various conformations of the ribose transporter from E. coli. The work of DPhil student Nikolai Juraschko and postdoc Florencia Klein Rocha
pubs.acs.org/doi/full/10....
pubs.acs.org/doi/full/10....
Characterizing the Conformational Dynamics of the Ribose Transporter B Protein in Escherichia coli: Enhanced Sampling via Multiple Force Fields
We present a molecular dynamics simulation study of the E. coli ribose transporter protein B (RbsB), a conformationally labile protein found in the periplasm of the bacterium. The ribose transporter e...
pubs.acs.org
March 10, 2026 at 4:33 PM
Our latest paper in which we use multiple force fields to recover various conformations of the ribose transporter from E. coli. The work of DPhil student Nikolai Juraschko and postdoc Florencia Klein Rocha
pubs.acs.org/doi/full/10....
pubs.acs.org/doi/full/10....
Reposted by Brian Ratnasinghe
We had a great time at BPS 2026! Sad to conclude my time on the Theory & Comp subgroup committee but I enjoyed that service and made new friends along the way. Until Philly in 2027!
February 26, 2026 at 5:10 PM
We had a great time at BPS 2026! Sad to conclude my time on the Theory & Comp subgroup committee but I enjoyed that service and made new friends along the way. Until Philly in 2027!
Reposted by Brian Ratnasinghe
February 14, 2026 at 3:02 PM
Why did my airbnb host throw out my meal prep? I am now hangry trying to analyze MD simulations -_-
February 12, 2026 at 9:38 AM
Why did my airbnb host throw out my meal prep? I am now hangry trying to analyze MD simulations -_-
Reposted by Brian Ratnasinghe
Our recent paper has been published in ACS Nano. Congratulations to my PhD student, Beatrice Geiger.
# FreeDTS #mesoscale #simualtions # biomembranes
pubs.acs.org/doi/10.1021/...
# FreeDTS #mesoscale #simualtions # biomembranes
pubs.acs.org/doi/10.1021/...
Bimodal Mechanical Response of Membrane Necks: Implications for the Nuclear Envelope
Among the fascinating shapes that biomembranes exhibit are stomatocytes with multiple membrane necks, found for example in nuclear membranes and open autophagosomes. These morphologies, characterized ...
pubs.acs.org
December 25, 2025 at 7:05 AM
Our recent paper has been published in ACS Nano. Congratulations to my PhD student, Beatrice Geiger.
# FreeDTS #mesoscale #simualtions # biomembranes
pubs.acs.org/doi/10.1021/...
# FreeDTS #mesoscale #simualtions # biomembranes
pubs.acs.org/doi/10.1021/...
Reposted by Brian Ratnasinghe
The Martini globe. The lipids of the globe are coloured by their continent based on the tectonic plates. The Kingdom of Denmark is coloured dark red.
By @fabianschuhmann.bsky.social @cg-martini.bsky.social @weria-lab.bsky.social et al in doi.org/10.1021/acs....
By @fabianschuhmann.bsky.social @cg-martini.bsky.social @weria-lab.bsky.social et al in doi.org/10.1021/acs....
December 17, 2025 at 7:28 AM
The Martini globe. The lipids of the globe are coloured by their continent based on the tectonic plates. The Kingdom of Denmark is coloured dark red.
By @fabianschuhmann.bsky.social @cg-martini.bsky.social @weria-lab.bsky.social et al in doi.org/10.1021/acs....
By @fabianschuhmann.bsky.social @cg-martini.bsky.social @weria-lab.bsky.social et al in doi.org/10.1021/acs....
Hello EMBO attendees, y'all should come check out my poster on Wednesday at position 157. This time my poster will be about my primary PhD project wherein I am parameterizing a meso scale force field for plant cell walls. It's a fun project and I'm looking forward to talking to y'all about it.
December 2, 2025 at 3:51 PM
Hello EMBO attendees, y'all should come check out my poster on Wednesday at position 157. This time my poster will be about my primary PhD project wherein I am parameterizing a meso scale force field for plant cell walls. It's a fun project and I'm looking forward to talking to y'all about it.
Reposted by Brian Ratnasinghe
Are you a postdoc stuck in the US?! Is your research stalled or are you in any way affected by the whims of that unfettered madman? Interested in MD simulations of large biomolecules?!
Consider joining me at the University of Freiburg!
uni-freiburg.de/frias/call-f...
Consider joining me at the University of Freiburg!
uni-freiburg.de/frias/call-f...
Call for Applications: Early Career Rescue Fellowship – Freiburg Institute for Advanced Studies
uni-freiburg.de
November 17, 2025 at 8:51 AM
Are you a postdoc stuck in the US?! Is your research stalled or are you in any way affected by the whims of that unfettered madman? Interested in MD simulations of large biomolecules?!
Consider joining me at the University of Freiburg!
uni-freiburg.de/frias/call-f...
Consider joining me at the University of Freiburg!
uni-freiburg.de/frias/call-f...
Reposted by Brian Ratnasinghe
Excited to share a new update to the Drude polarizable force field - phosphorylated amino acids! A long-term project that took quite a bit of effort. Great work with PhD student Laura Gil Pineda, former undergrad Candace Miller, and @alexmackerell.bsky.social
authors.elsevier.com/a/1m2md1SPTB...
authors.elsevier.com/a/1m2md1SPTB...
November 6, 2025 at 1:27 PM
Excited to share a new update to the Drude polarizable force field - phosphorylated amino acids! A long-term project that took quite a bit of effort. Great work with PhD student Laura Gil Pineda, former undergrad Candace Miller, and @alexmackerell.bsky.social
authors.elsevier.com/a/1m2md1SPTB...
authors.elsevier.com/a/1m2md1SPTB...
Reposted by Brian Ratnasinghe
the Martini Pumpkin by my PhD student Isabell Lindahl.
Too much fat though!
TS2CG, Martini3, Martini
@cg-martini.bsky.social
Too much fat though!
TS2CG, Martini3, Martini
@cg-martini.bsky.social
October 27, 2025 at 2:49 PM
the Martini Pumpkin by my PhD student Isabell Lindahl.
Too much fat though!
TS2CG, Martini3, Martini
@cg-martini.bsky.social
Too much fat though!
TS2CG, Martini3, Martini
@cg-martini.bsky.social
Reposted by Brian Ratnasinghe
Registration now open for the '3rd Annual Danish Workshop on Advanced Molecular Simulation'
Join us in beautiful Aarhus for a 2-day workshop on biomolecular simulations!
9-10 December 2025
Link for registration: aias.au.dk/events/show/...
Join us in beautiful Aarhus for a 2-day workshop on biomolecular simulations!
9-10 December 2025
Link for registration: aias.au.dk/events/show/...
October 15, 2025 at 2:41 PM
Registration now open for the '3rd Annual Danish Workshop on Advanced Molecular Simulation'
Join us in beautiful Aarhus for a 2-day workshop on biomolecular simulations!
9-10 December 2025
Link for registration: aias.au.dk/events/show/...
Join us in beautiful Aarhus for a 2-day workshop on biomolecular simulations!
9-10 December 2025
Link for registration: aias.au.dk/events/show/...
Reposted by Brian Ratnasinghe
The 3rd Annual Danish Workshop on Advanced Molecular Simulation. This time in Aarhus
Registration now open for the '3rd Annual Danish Workshop on Advanced Molecular Simulation'
Join us in beautiful Aarhus for a 2-day workshop on biomolecular simulations!
9-10 December 2025
Link for registration: aias.au.dk/events/show/...
Join us in beautiful Aarhus for a 2-day workshop on biomolecular simulations!
9-10 December 2025
Link for registration: aias.au.dk/events/show/...
October 15, 2025 at 7:53 PM
The 3rd Annual Danish Workshop on Advanced Molecular Simulation. This time in Aarhus
Reposted by Brian Ratnasinghe
A new preprint from my group by my PhD student Adria:
No attraction between proteins, they do not induce curvature, but they cluster on membranes.
One of the reasons why mesoscale modeling matters.
www.biorxiv.org/content/10.1...
No attraction between proteins, they do not induce curvature, but they cluster on membranes.
One of the reasons why mesoscale modeling matters.
www.biorxiv.org/content/10.1...
September 18, 2025 at 8:21 AM
A new preprint from my group by my PhD student Adria:
No attraction between proteins, they do not induce curvature, but they cluster on membranes.
One of the reasons why mesoscale modeling matters.
www.biorxiv.org/content/10.1...
No attraction between proteins, they do not induce curvature, but they cluster on membranes.
One of the reasons why mesoscale modeling matters.
www.biorxiv.org/content/10.1...
Reposted by Brian Ratnasinghe
If you’re interested in learning more about protein folding and misfolding, I’ve created a convenient reading list with a few essential papers:
scholar.google.com/citations?us...
scholar.google.com/citations?us...
scholar.google.com/citations?us...
scholar.google.com/citations?us...
August 6, 2025 at 7:01 PM
If you’re interested in learning more about protein folding and misfolding, I’ve created a convenient reading list with a few essential papers:
scholar.google.com/citations?us...
scholar.google.com/citations?us...
scholar.google.com/citations?us...
scholar.google.com/citations?us...
Hey y'all, If any of you are at EBSA this year come check out my poster. You can find my poster at position 332 on Thursday.
This year my poster is about the parameterization of meso scale force field for wood cell wall simulations. It's a fun topic, so def swing by if you're interested.
This year my poster is about the parameterization of meso scale force field for wood cell wall simulations. It's a fun topic, so def swing by if you're interested.
July 1, 2025 at 6:39 AM
Hey y'all, If any of you are at EBSA this year come check out my poster. You can find my poster at position 332 on Thursday.
This year my poster is about the parameterization of meso scale force field for wood cell wall simulations. It's a fun topic, so def swing by if you're interested.
This year my poster is about the parameterization of meso scale force field for wood cell wall simulations. It's a fun topic, so def swing by if you're interested.
Reposted by Brian Ratnasinghe
New €94M research centre for protein design will open at the University of Copenhagen and be led by Dek Woolfson
Funded by the Novo Nordisk Foundation, the centre will operate across the Departments of Biology and & Drug Design and Pharmacology
novonordiskfonden.dk/en/news/new-...
Funded by the Novo Nordisk Foundation, the centre will operate across the Departments of Biology and & Drug Design and Pharmacology
novonordiskfonden.dk/en/news/new-...
New Danish research centre to make designed proteins with vast potential - Novo Nordisk Fonden
novonordiskfonden.dk
June 25, 2025 at 6:53 AM
New €94M research centre for protein design will open at the University of Copenhagen and be led by Dek Woolfson
Funded by the Novo Nordisk Foundation, the centre will operate across the Departments of Biology and & Drug Design and Pharmacology
novonordiskfonden.dk/en/news/new-...
Funded by the Novo Nordisk Foundation, the centre will operate across the Departments of Biology and & Drug Design and Pharmacology
novonordiskfonden.dk/en/news/new-...
Bobo bleps when she sleeps, but doesn't realize she's blepping when she wakes up. It's amazing
May 28, 2025 at 5:50 PM
Bobo bleps when she sleeps, but doesn't realize she's blepping when she wakes up. It's amazing
Reposted by Brian Ratnasinghe
This EO is a lot of words for a rule that basically says, political appointees will overrule scientists in deciding what the government considers factual information.
Restoring Gold Standard Science
By the authority vested in me as President by the Constitution and the laws of the United States of America, including section 7301 of title 5, United
www.whitehouse.gov
May 24, 2025 at 12:58 PM
This EO is a lot of words for a rule that basically says, political appointees will overrule scientists in deciding what the government considers factual information.
Reposted by Brian Ratnasinghe
As of yesterday using publicly available data via Grant Watch grant-watch.us/nih-data.html:
05/24/2025 word cloud depicting 165 unique words or phrases, flagged 10904 times, within 2118 terminated NIH grants.
@standupforscience.bsky.social
@altnih4science.bsky.social
05/24/2025 word cloud depicting 165 unique words or phrases, flagged 10904 times, within 2118 terminated NIH grants.
@standupforscience.bsky.social
@altnih4science.bsky.social
May 25, 2025 at 1:03 PM
As of yesterday using publicly available data via Grant Watch grant-watch.us/nih-data.html:
05/24/2025 word cloud depicting 165 unique words or phrases, flagged 10904 times, within 2118 terminated NIH grants.
@standupforscience.bsky.social
@altnih4science.bsky.social
05/24/2025 word cloud depicting 165 unique words or phrases, flagged 10904 times, within 2118 terminated NIH grants.
@standupforscience.bsky.social
@altnih4science.bsky.social
Reposted by Brian Ratnasinghe
🚨URGENT RESPONSE CALL🚨
🌪️23 LIVES WERE LOST OVERNIGHT AS TORNADOS HIT KY.
KY has one of several regions in the US without 24/7 National Weather Service coverage, due to DOGE cuts. W/out overnight monitoring, ppl don't receive weather warnings.
THIS is how science cuts cost lives.
shorturl.at/JgTjU
🌪️23 LIVES WERE LOST OVERNIGHT AS TORNADOS HIT KY.
KY has one of several regions in the US without 24/7 National Weather Service coverage, due to DOGE cuts. W/out overnight monitoring, ppl don't receive weather warnings.
THIS is how science cuts cost lives.
shorturl.at/JgTjU
Multiple deaths reported in Somerset and London due to late night tornadoes UPDATED
The towns of Somerset and London have been hit particularly hard with many homes and buildings damaged in the early morning hours.
www.weku.org
May 17, 2025 at 4:38 PM
🚨URGENT RESPONSE CALL🚨
🌪️23 LIVES WERE LOST OVERNIGHT AS TORNADOS HIT KY.
KY has one of several regions in the US without 24/7 National Weather Service coverage, due to DOGE cuts. W/out overnight monitoring, ppl don't receive weather warnings.
THIS is how science cuts cost lives.
shorturl.at/JgTjU
🌪️23 LIVES WERE LOST OVERNIGHT AS TORNADOS HIT KY.
KY has one of several regions in the US without 24/7 National Weather Service coverage, due to DOGE cuts. W/out overnight monitoring, ppl don't receive weather warnings.
THIS is how science cuts cost lives.
shorturl.at/JgTjU
Reposted by Brian Ratnasinghe
"Women are PIs on 58% of the canceled grants, although they are PIs on only 34% of all active NSF grants.
Similarly, Blacks are PIs on 17% of the terminated grants, although they make only 4% of the total pool. Hispanic PIs and those with disabilities were twice as likely to lose a grant."
Similarly, Blacks are PIs on 17% of the terminated grants, although they make only 4% of the total pool. Hispanic PIs and those with disabilities were twice as likely to lose a grant."
Another scoop from Jeff Mervis (@policyhound.bsky.social): NSF's ~1400 grant terminations have disproportionately affected PIs from groups underrepresented in science: women, racial & ethnic minorities, & those with disabilities. 1/3
www.science.org/content/arti...
www.science.org/content/arti...
Trump officials take steps toward a radically different NSF
Efforts to shrink staff, budget, and focus have alarmed members of Congress
www.science.org
May 13, 2025 at 10:09 PM
"Women are PIs on 58% of the canceled grants, although they are PIs on only 34% of all active NSF grants.
Similarly, Blacks are PIs on 17% of the terminated grants, although they make only 4% of the total pool. Hispanic PIs and those with disabilities were twice as likely to lose a grant."
Similarly, Blacks are PIs on 17% of the terminated grants, although they make only 4% of the total pool. Hispanic PIs and those with disabilities were twice as likely to lose a grant."