Author | Lightnews

Biplab Bose @biplabbose.bsky.social · 10h

Julia keeps it rational.

1//3 + 1//6 == 1//2

Exact math. No floating-point drama.

#JuliaLang #lovingJulia #sillyposts

1

Biplab Bose @biplabbose.bsky.social · 1d

Statistical physics was built to understand gases.
Now we use it to understand flocks, tissues, and tumors. Same mathematics, new meanings—order out of interaction. Perhaps we should develop new thermodynamic variables beyond V, P, and T that are more suitable for living systems. #complexsystems

1

Biplab Bose @biplabbose.bsky.social · 2d

Between the animate and the inanimate lies a missing theory — not of matter, but of matter becoming intention. Or the concept of teleonomy is just another trap? Possibly! #complexity #physicsoflife

1

Biplab Bose @biplabbose.bsky.social · 3d

Physicists see the forest, mathematicians see the pattern, & biologists... name every tree, catalog leaf shapes, & write three papers on bark texture before asking why forests exist. Wish my friends from the Biology community would read and re-read the old classic: sciencedirect.com/science/arti...

Can a biologist fix a radio?—Or, what I learned while studying apoptosis

sciencedirect.com

Biplab Bose @biplabbose.bsky.social · 4d

If I want to teach undergraduate students about driven non-equilibrium systems, which two toy models should I choose? The mathematics must be intuitive, and the simulations must be easy. What do you suggest? #statmech #physics #complexsystem #systemsbiology

Biplab Bose @biplabbose.bsky.social · 5d

In #Julia, even the script evolves with time (without mutation) 😃

julia> @time sum(rand(10^7))
[0.086688 seconds, 57.81% gc time]

julia> @time sum(rand(10^7))
[0.026221 seconds, 29.82% gc time]
.
.
julia> @time sum(rand(10^7))
[0.017704 seconds, 2.34% gc time]

#Julialang #computing

1 1

Biplab Bose @biplabbose.bsky.social · 6d

Gradient systems give you landscapes. Non-gradient systems give you the weather. That's why cellular fate feels more like climate chaos than a downhill stroll on Waddington's landscape. #systemsbiology #dynamicalsystems #complexsystems

Reposted by Biplab Bose

Ricard Solé @ricardsole.bsky.social · 7d

How can we design complex computational systems using synthetic biology? Check our paper, where we use space as a computational element, dramatically reducing communication requirements while allowing modularity, reusability, scalability & minimal cell engineering.
journals.plos.org/ploscompbiol...

8 34

Biplab Bose @biplabbose.bsky.social · 7d

Embryonic development is robust but fluctuations and variations are inevitable. Nature smartly sells those variations as features not bug.
#systemsbiology #complexsystems

Biplab Bose @biplabbose.bsky.social · 8d

LLMs don’t live—yet they learn, adapt, and hallucinate. Strange! Is not it? Biologists need to rethink the key ideas of Life. #physicsoflife #mathbio #complexity #systemsbiology

2

Biplab Bose @biplabbose.bsky.social · 9d

Does a cell have a 'mind' - say a proto-mind or basal cognition? Although it was once a fringe idea, recent experimental and mathematical works are accumulating in its support. Here is an interesting recent work: www.biorxiv.org/content/10.1... #complexsystem #systemsbiology #sysbio

Engineering Basal Cognition: Minimal Genetic Circuits for Habituation, Sensitization, and Massed–Spaced Learning

Cognition is often associated with complex brains, yet many forms of learning—such as habituation, sensitization, and even spacing effects—have been observed in single cells and aneural organisms. The...

www.biorxiv.org

3 3

Reposted by Biplab Bose

NSF-Simons NITMB @nitmb.bsky.social · 9d

Data-driven modeling of complex biological systems

Thank you for joining us at today's NITMB Seminar with Cody FitzGerald, James S. McDonnell Foundation Postdoctoral Fellow at Northwestern University!

📽️ Watch the seminar recording - www.youtube.com/watch?v=B2Y9...

1 1

Biplab Bose @biplabbose.bsky.social · 10d

If you have to design a 40 hr UG course on Computational Biology, what topics will you include in the syllabus? As I see across institutes, this course is heavily biased to protein structure, molecular dynamics simulations and drug design. #compbio #qbio

Biplab Bose @biplabbose.bsky.social · 11d

f(x::Int, y::Int) = x + y
f(x::String, y::String) = x * y
# In Julia, even functions believe in pluralism.

#JuliaLang #FunInComputing #computingjokes #computing

2

Biplab Bose @biplabbose.bsky.social · 12d

Is it only me or for everyone- the feeds in the Bluesky Android app updates only when I use certain networks (ISPs) that too with lag.

#bluesky
#bsky

Biplab Bose @biplabbose.bsky.social · 12d

Switched to Julia 3 years ago. Still can’t uninstall MATLAB — held hostage by the interactive GUIs of dfield, pplane, and matcont.

#JuliaLang #computing #dynamicalsystems

2

Biplab Bose @biplabbose.bsky.social · 13d

Reciprocity is overrated. Ask any cell. #NonReciprocal #ActiveMatter #Physicsoflife

Biplab Bose @biplabbose.bsky.social · 14d

Teaching Gillespie algorithm in the Systems Biology class and it reminds that Life is a process with long stretches of exponential calm punctuated by bursts of stochastic drama.

#stochastic
#random
#mathbio
#systemsbiology
#sysbio

Biplab Bose @biplabbose.bsky.social · 15d

Just updated my Vicsek model Julia code. Still amazes me how a bunch of clueless particles manage better collective behaviour than most meetings I've attended.

#SelfOrganization #ComplexSystems
#havefun

1

Biplab Bose @biplabbose.bsky.social · 16d

Missing an Easter-egg function in Julia? Try my WhyJulia. Every time you call why(), it prints a random witty statement — sometimes profound, often nonsensical, but always entertaining.

github.com/biplabbose/W...

#JuliaLang #JuliaLanguage
#JustKidding #fun
#computing

2

Biplab Bose @biplabbose.bsky.social · 17d

Some people have midlife crises. Dynamical systems have pitchfork bifurcations.

#justkidding #dynamicalsystems #mathbio

2

Biplab Bose @biplabbose.bsky.social · 18d

cat = rand(Bool)
println(cat ? "😺 Alive!" : "💀 Dead!")

Even Schrödinger’s cat deserves Julia.
#JuliaLang #codingbasics

1

Biplab Bose @biplabbose.bsky.social · 19d

If a phenomenon is mathematically possible, then we may observe it in reality, but a mathematically impossible one can never be real.

#math #mathmodel #mathbio

Biplab Bose @biplabbose.bsky.social · 20d

We study living matter because dead matter got boring after Newton.

#physicsoflivingmatter
#systemsbiology
#complexsystems
#physicsoflife

Biplab Bose @biplabbose.bsky.social · 21d

I left wet-lab experiments 'cause those are damn slow! Equations are better; they evolve faster than organisms. 🙂#mathbio #systemsbiology #sysbio #qbio #computaionalbiology