@davidasivak.bsky.social
📤 115
📥 96
📝 33
Professor & Canada Research Chair @SFUPhysics Nonequilibrium statistical biophysics
reposted by
Cell - a Cell Press journal
6 days ago
Now online! D-SPIN constructs regulatory network models from scRNA-seq that reveal organizing principles of perturbation response
loading . . .
D-SPIN constructs regulatory network models from scRNA-seq that reveal organizing principles of perturbation response
D-SPIN is a computational framework for constructing mechanistically interpretable, generative models of cellular regulatory networks from single-cell mRNA-seq data. The framework models how perturbations change cell states by reconfiguring the underlying regulatory interactions, revealing global organization and key regulators of perturbation responses, as well as mechanisms of combinatorial drug responses.
http://dlvr.it/TSVts8
0
2
1
Hiring a postdoc! Join us in heavenly Vancouver to develop nonequilibrium statistical mechanics, thermodynamics, and information theory to understand free-energy transduction in biomolecular machines, in close collaboration with experimentalists. Details:
sfu.ca/physics/siva...
loading . . .
Postdoc Ad
https://sfu.ca/physics/sivakgroup/postdocad.html
18 days ago
0
3
3
Reminder: online Workshop on Stochastic Thermodynamics May 18-22 Registration deadline May 17 Detailed schedule now available:
wostmeeting.org/programme/
add a skeleton here at some point
21 days ago
0
3
2
Reminder of the upcoming abstract deadline (March 7) for the Workshop on Stochastic Thermodynamics!
add a skeleton here at some point
3 months ago
0
1
1
reposted by
3 months ago
Out today in
@physrevresearch.bsky.social
: "Information Thermodynamics of Cellular Ion Pumps", led by Julián Jiménez-Paz (
@cornelluniversity.bsky.social
), with
@davidasivak.bsky.social
(
@sfuphysics.bsky.social
)!
1
9
2
Out in
@physrevlett.bsky.social
:
@sfuphysics.bsky.social
postdoc Antonio PatrĂłn Castro (in tight collaboration with my colleague John Bechhoefer) pushes our information engine to higher dimensions!
doi.org/10.1103/xwjd...
loading . . .
Harnessing Higher-Dimensional Fluctuations in an Information Engine
We study the optimal performance of an information engine consisting of an overdamped Brownian bead confined in a controllable, $d$-dimensional harmonic trap and additionally subjected to gravity. The...
https://doi.org/10.1103/xwjd-qxfg
4 months ago
1
6
4
The seventh annual Workshop on Stochastic Thermodynamics (WOST VII) will be held May 18-22, 2026. This workshop is entirely online and free to attend. 10-minute lightning talks will be chosen from 1-page abstracts, with priority given to early-career researchers.
4 months ago
1
5
4
Kudos
@mleighton.bsky.social
add a skeleton here at some point
4 months ago
0
1
0
Out in
@physrevresearch.bsky.social
: beautiful and fundamental theory from
@sfuphysics.bsky.social
PhD student
@jrsawchuk.bsky.social
doi.org/10.1103/j59j...
loading . . .
Global thermodynamic manifold for conservative control of stochastic systems
Optimal control of stochastic systems plays a central role in nonequilibrium physics, with applications in the study of biological molecular motors and the design of single-molecule experiments. While...
https://doi.org/10.1103/j59j-q88v
4 months ago
1
3
2
Interested in the intersection of nonequilibrium thermodynamics and biophysics? Think Canada might be a nice place for your PhD/postdoc? Talk to me! Brand-new funding opportunity has quick deadline (so likely undersubscribed).
nserc-crsng.canada.ca/en/news/laun...
SFU internal deadline Feb 11
loading . . .
Launch of new Canada Impact+ Research Training Awards
As announced in Budget 2025 -
https://nserc-crsng.canada.ca/en/news/launch-new-canada-impact-research-training-awards
4 months ago
1
6
4
Come be my colleague @SFU ! Call is out for Canada Impact+ Research Chairs (Assoc Prof/Prof stage)
www.sfu.ca/vpacademic/a...
Rolling review of initial applications begins Jan 19
loading . . .
Canada Impact+ Research Chairs
https://www.sfu.ca/vpacademic/academic-careers/current-canada-research-chair-opportunities/canada-impact--research-chairs.html
5 months ago
0
3
2
We’re hiring! The Department of Physics
@sfuphysics.bsky.social
at Simon Fraser U (in beautiful and vibrant Vancouver) seeks applications for an Assistant or Associate Professor in Experimental Biophysics, encompassing all scales of life from molecules to ecosystems.
@sfuscience.bsky.social
5 months ago
1
15
9
Out in
@physreve.bsky.social
:
@sfuphysics.bsky.social
MSc student Sara Iranbakhsh reveals how symmetry mismatch between the components of nanoscale rotary motors affects their performance
doi.org/10.1103/k85p...
@sfuscience.bsky.social
loading . . .
https://doi.org/10.1103/k85p-zsqm
6 months ago
0
7
2
Is it more efficient to push a molecular motor with a constant force, or at a constant velocity? See our collaborative paper in
@physrevlett.bsky.social
doi.org/10.1103/b24h...
and the Focus article
physics.aps.org/articles/v18...
to learn the winner and the why (it’s all about the fluctuations).
loading . . .
Efficiently Driving ${\mathrm{F}}_{1}$ Molecular Motor in Experiment by Suppressing Nonequilibrium Variation
Turning a biologically important molecular motor at a constant rate saves energy, according to experiments.
https://doi.org/10.1103/b24h-v7by
7 months ago
1
4
3
reposted by
FQxI
8 months ago
Johann du Buisson, Jannik Ehrich,
mleighton.bsky.social
,
davidasivak.bsky.social
, and John Bechhoefer introduce a one-coordinate test that infers heat flow to flag “demonic” operation. In kinesin simulations tuned to experiments, the motor grows more demon-like as active fluctuations rise.
1
2
2
Still accepting postdoc applications!
add a skeleton here at some point
11 months ago
0
3
3
reposted by
11 months ago
New preprint out today: “Information Thermodynamics of Cellular Ion Pumps”. Led by talented undergraduate student Julián Jiménez-Paz, and working with
@davidasivak.bsky.social
, we explore the thermodynamics of cellular ion pumps like the sodium-potassium pump.
arxiv.org/abs/2506.11248
1
2
2
Fun new paper by Callum
@sfuphysics.bsky.social
, on energetically efficient multi-parameter driving of our favorite molecular motor (shout out F1!).
doi.org/10.1103/bm3d...
loading . . .
Multiparameter optimal control of ${\mathrm{F}}_{1}$-ATPase
Biological molecular machines convert free energy between different forms in cells, often at high efficiency. Optimal control theory provides a framework to elucidate design principles governing energ...
https://doi.org/10.1103/bm3d-c67v
11 months ago
0
3
2
Congratulations to Matt on his Convocation Medal!
add a skeleton here at some point
11 months ago
0
5
0
Canada Excellence Research Chairs offer $4-8M over eight years to build a world-class research focus.
11 months ago
1
1
1
Postdoc opportunity! Join us in heavenly Vancouver (Canada) to develop fundamental nonequilibrium stat mech, thermo, and info theory applied to biomolecular machines and in close collaboration with experiment. Details:
www.sfu.ca/physics/siva...
loading . . .
Postdoc Ad
https://www.sfu.ca/physics/sivakgroup/postdocad.html
12 months ago
0
4
6
Kudos to Matt for his complete leadership from start to finish on this review, which was invited as a result of his compelling, cohesive, and ground-breaking graduate research!
add a skeleton here at some point
about 1 year ago
0
2
1
Check out the CUNY-ITS/Princeton-CPBF symposium tomorrow on Information and Irreversibility
itsatcuny.org/calendar/202...
featuring
@fakhrilab.bsky.social
, my colleague John Bechhoefer, and yours truly!
loading . . .
Information and Irreversibility — Initiative for the Theoretical Sciences
Friday, 18 April, 2025 10:30 AM - 5:30 PM Skylight room
https://itsatcuny.org/calendar/2025/4/18/information-and-irreversibility
about 1 year ago
1
3
2
I have openings for graduate students in
@sfuphysics.bsky.social
, Chemistry, or MBB. Check out
davidsivak.com
for our research interests!
add a skeleton here at some point
about 1 year ago
0
8
7
The sixth annual Workshop on Stochastic Thermodynamics (WOST VI) will be held May 12-16, 2025. This workshop is entirely online and free to attend. 10-minute lightning talks will be chosen from 1-page abstracts, with priority given to early-career researchers.
over 1 year ago
1
1
2
you reached the end!!
feeds!
log in