Biplab Bose
@biplabbose.bsky.social
Biologist | Bookworm | Cycloholic | Birder | Trying to understand the design principles of Life using Mathematics and Physics |
https://youtube.com/@sysbio
https://fac.iitg.ac.in/biplabbose
https://youtube.com/@sysbio
https://fac.iitg.ac.in/biplabbose
In Julia, function composition isn’t just notation… it's executable math
> f(x) = x^2 + 1
> g = f ∘ sin
> g(pi/2) # gives 2
#julialang #joyofcomputing #computing
> f(x) = x^2 + 1
> g = f ∘ sin
> g(pi/2) # gives 2
#julialang #joyofcomputing #computing
December 10, 2025 at 8:49 AM
In Julia, function composition isn’t just notation… it's executable math
> f(x) = x^2 + 1
> g = f ∘ sin
> g(pi/2) # gives 2
#julialang #joyofcomputing #computing
> f(x) = x^2 + 1
> g = f ∘ sin
> g(pi/2) # gives 2
#julialang #joyofcomputing #computing
A university is closing its Department of Statistics due to financial constraints. Really? In this age, where mathematics, computing, and AI/ML dominate every industry, closing a Statistics Department doesn’t seem like a good business decision. #justsaying nebraskaexaminer.com/2025/12/05/t...
‘This hurts’: NU regents back shuttering four academic programs at UNL • Nebraska Examiner
The University of Nebraska Board of Regents voted to eliminate four academic programs at the University of Nebraska-Lincoln.
nebraskaexaminer.com
December 7, 2025 at 3:51 PM
A university is closing its Department of Statistics due to financial constraints. Really? In this age, where mathematics, computing, and AI/ML dominate every industry, closing a Statistics Department doesn’t seem like a good business decision. #justsaying nebraskaexaminer.com/2025/12/05/t...
To what extent can the foundations of thermodynamics & stat physics be built purely from combinatorics and probability—without relying on the usual concepts like work, heat, and energy? Are there any textbooks that develop the theory primarily from a probabilistic perspective only?
December 5, 2025 at 7:39 AM
To what extent can the foundations of thermodynamics & stat physics be built purely from combinatorics and probability—without relying on the usual concepts like work, heat, and energy? Are there any textbooks that develop the theory primarily from a probabilistic perspective only?
Don't be clueless! Better, understand how Julia thinks:
@code_lowered 2 + 3
@code_lowered 2 + 3.0
@code_lowered 2.0 + 3.0
Code better. Code smarter.
#JuliaLang #computing #sysbio #systemsbiology #qbio
@code_lowered 2 + 3
@code_lowered 2 + 3.0
@code_lowered 2.0 + 3.0
Code better. Code smarter.
#JuliaLang #computing #sysbio #systemsbiology #qbio
December 4, 2025 at 9:26 AM
Don't be clueless! Better, understand how Julia thinks:
@code_lowered 2 + 3
@code_lowered 2 + 3.0
@code_lowered 2.0 + 3.0
Code better. Code smarter.
#JuliaLang #computing #sysbio #systemsbiology #qbio
@code_lowered 2 + 3
@code_lowered 2 + 3.0
@code_lowered 2.0 + 3.0
Code better. Code smarter.
#JuliaLang #computing #sysbio #systemsbiology #qbio
High-throughput omics studies > lots of data transformations > 5,000 correlations to be tested through experiments.
Toy models with few parameters > the design principles behind the complexity of Life.
True Systems Biology: fewer spreadsheets, more ‘Aha!’ moments. #sysbio #mathbio #physicsoflife
Toy models with few parameters > the design principles behind the complexity of Life.
True Systems Biology: fewer spreadsheets, more ‘Aha!’ moments. #sysbio #mathbio #physicsoflife
December 3, 2025 at 10:56 AM
High-throughput omics studies > lots of data transformations > 5,000 correlations to be tested through experiments.
Toy models with few parameters > the design principles behind the complexity of Life.
True Systems Biology: fewer spreadsheets, more ‘Aha!’ moments. #sysbio #mathbio #physicsoflife
Toy models with few parameters > the design principles behind the complexity of Life.
True Systems Biology: fewer spreadsheets, more ‘Aha!’ moments. #sysbio #mathbio #physicsoflife
Why burden memory? Take a sneaky peek and get the job done!
A = rand(5,5)
W = @view A[2:4,2:4] # take a peek, no copying
@views W[1:2, 1:2] .= 0 # sneakily mutate
A # check the mutation
#julialang #computing
A = rand(5,5)
W = @view A[2:4,2:4] # take a peek, no copying
@views W[1:2, 1:2] .= 0 # sneakily mutate
A # check the mutation
#julialang #computing
December 2, 2025 at 5:27 AM
Why burden memory? Take a sneaky peek and get the job done!
A = rand(5,5)
W = @view A[2:4,2:4] # take a peek, no copying
@views W[1:2, 1:2] .= 0 # sneakily mutate
A # check the mutation
#julialang #computing
A = rand(5,5)
W = @view A[2:4,2:4] # take a peek, no copying
@views W[1:2, 1:2] .= 0 # sneakily mutate
A # check the mutation
#julialang #computing
Explaining non-equilibrium systems to students: ‘Imagine a system that refuses to relax.' Students: ‘Like us?’
#justforfun #teaching #physicsoflife #physicsoflivingmatter
#justforfun #teaching #physicsoflife #physicsoflivingmatter
December 1, 2025 at 6:58 AM
Explaining non-equilibrium systems to students: ‘Imagine a system that refuses to relax.' Students: ‘Like us?’
#justforfun #teaching #physicsoflife #physicsoflivingmatter
#justforfun #teaching #physicsoflife #physicsoflivingmatter
Schrödinger’s cat called. It is live and it wants a break. It didn’t sign up to explain superposition to every social media users. Enough!
November 30, 2025 at 9:54 AM
Schrödinger’s cat called. It is live and it wants a break. It didn’t sign up to explain superposition to every social media users. Enough!
Using ± in Julia code? Yes, because real models don’t come with exact parameters.
using DifferentialEquations, MonteCarloMeasurements
k = 1.0 ± 0.1
u0 = 1.0 ± 0
prob = ODEProblem((u,p,t)->-k*u, u0, (0,5))
sol = solve(prob)
mean(sol[end])
#JuliaLang #computing
using DifferentialEquations, MonteCarloMeasurements
k = 1.0 ± 0.1
u0 = 1.0 ± 0
prob = ODEProblem((u,p,t)->-k*u, u0, (0,5))
sol = solve(prob)
mean(sol[end])
#JuliaLang #computing
November 29, 2025 at 7:07 AM
Using ± in Julia code? Yes, because real models don’t come with exact parameters.
using DifferentialEquations, MonteCarloMeasurements
k = 1.0 ± 0.1
u0 = 1.0 ± 0
prob = ODEProblem((u,p,t)->-k*u, u0, (0,5))
sol = solve(prob)
mean(sol[end])
#JuliaLang #computing
using DifferentialEquations, MonteCarloMeasurements
k = 1.0 ± 0.1
u0 = 1.0 ± 0
prob = ODEProblem((u,p,t)->-k*u, u0, (0,5))
sol = solve(prob)
mean(sol[end])
#JuliaLang #computing
Temperature is not just a thermometer thing. Physicists, chemists, biologists, economists, and data analysts all use it differently. Maybe one day we'll find a single rule that links them all. Until then, temp keeps its cool by being complicated.
November 27, 2025 at 4:51 AM
Temperature is not just a thermometer thing. Physicists, chemists, biologists, economists, and data analysts all use it differently. Maybe one day we'll find a single rule that links them all. Until then, temp keeps its cool by being complicated.
Another review article worth bookmarking: Signed Networks: theory, methods, and applications."
arxiv.org/abs/2511.17247
Perfect for my Systems Biology course.
#sysbio #complexsystem #graph #network #compbio #mathbio
arxiv.org/abs/2511.17247
Perfect for my Systems Biology course.
#sysbio #complexsystem #graph #network #compbio #mathbio
Signed Networks: theory, methods, and applications
Signed networks provide a principled framework for representing systems in which interactions are not merely present or absent but qualitatively distinct: friendly or antagonistic, supportive or confl...
arxiv.org
November 25, 2025 at 5:03 AM
Another review article worth bookmarking: Signed Networks: theory, methods, and applications."
arxiv.org/abs/2511.17247
Perfect for my Systems Biology course.
#sysbio #complexsystem #graph #network #compbio #mathbio
arxiv.org/abs/2511.17247
Perfect for my Systems Biology course.
#sysbio #complexsystem #graph #network #compbio #mathbio
Many bugs don't scream. They whisper in wrong units. Using units in your code can save you. Again, Julia helps in that.
using Unitful
D = 0.01u"mm^2/s" # 0.01 mm^2 s^-1
t = 100u"s" # 100 s
√(2D*t) # 1.4142 mm
#julialang #computing #sysbio #systemsbiology
using Unitful
D = 0.01u"mm^2/s" # 0.01 mm^2 s^-1
t = 100u"s" # 100 s
√(2D*t) # 1.4142 mm
#julialang #computing #sysbio #systemsbiology
November 24, 2025 at 7:20 AM
Many bugs don't scream. They whisper in wrong units. Using units in your code can save you. Again, Julia helps in that.
using Unitful
D = 0.01u"mm^2/s" # 0.01 mm^2 s^-1
t = 100u"s" # 100 s
√(2D*t) # 1.4142 mm
#julialang #computing #sysbio #systemsbiology
using Unitful
D = 0.01u"mm^2/s" # 0.01 mm^2 s^-1
t = 100u"s" # 100 s
√(2D*t) # 1.4142 mm
#julialang #computing #sysbio #systemsbiology
Identical genome. Same environment. Totally different life choices. Turns out even cells have an identity crisis. #sysbio #physicsoflife
November 23, 2025 at 12:28 PM
Identical genome. Same environment. Totally different life choices. Turns out even cells have an identity crisis. #sysbio #physicsoflife
I get confused when philosophers and scientists debate “reality.”
If I slap someone, they feel pain and may hit back. That’s real.
So clearly, I’m missing something much deeper. #justsaying
If I slap someone, they feel pain and may hit back. That’s real.
So clearly, I’m missing something much deeper. #justsaying
November 22, 2025 at 12:09 PM
I get confused when philosophers and scientists debate “reality.”
If I slap someone, they feel pain and may hit back. That’s real.
So clearly, I’m missing something much deeper. #justsaying
If I slap someone, they feel pain and may hit back. That’s real.
So clearly, I’m missing something much deeper. #justsaying
In biology, we’re still busy naming T cells and debating EMT or autophagy — a bit like arguing over bird names while the real wonder lies in understanding how they fly.
#complexsystem #PhysicsOfLife #sysbio
#complexsystem #PhysicsOfLife #sysbio
November 21, 2025 at 3:48 AM
In biology, we’re still busy naming T cells and debating EMT or autophagy — a bit like arguing over bird names while the real wonder lies in understanding how they fly.
#complexsystem #PhysicsOfLife #sysbio
#complexsystem #PhysicsOfLife #sysbio
Dear developmental biologists, Julia comes with a Zygote that auto-differentiates. 😀
using Zygote
f(x) = x^2 + 3x + sin(x)
f'(2.0) # returns 6.58385
#Julialang #mathbio #qBio #compbio #sysbio #systemsbiology
using Zygote
f(x) = x^2 + 3x + sin(x)
f'(2.0) # returns 6.58385
#Julialang #mathbio #qBio #compbio #sysbio #systemsbiology
November 20, 2025 at 4:42 AM
Dear developmental biologists, Julia comes with a Zygote that auto-differentiates. 😀
using Zygote
f(x) = x^2 + 3x + sin(x)
f'(2.0) # returns 6.58385
#Julialang #mathbio #qBio #compbio #sysbio #systemsbiology
using Zygote
f(x) = x^2 + 3x + sin(x)
f'(2.0) # returns 6.58385
#Julialang #mathbio #qBio #compbio #sysbio #systemsbiology
At the beginning of this year, Active Matter researchers published a 'review of reviews' — yes, a meta-meta study. When your field grows so fast, you need a map of the maps. Worth bookmarking.
link.springer.com/article/10.1... #activematter #physicsoflife #physicalbiology #complexity
link.springer.com/article/10.1... #activematter #physicsoflife #physicalbiology #complexity
Metareview: a survey of active matter reviews - The European Physical Journal E
Abstract In the past years, the amount of research on active matter has grown extremely rapidly, a fact that is reflected in particular by the existence of more than 1000 reviews on this topic. Moreov...
link.springer.com
November 19, 2025 at 7:56 AM
At the beginning of this year, Active Matter researchers published a 'review of reviews' — yes, a meta-meta study. When your field grows so fast, you need a map of the maps. Worth bookmarking.
link.springer.com/article/10.1... #activematter #physicsoflife #physicalbiology #complexity
link.springer.com/article/10.1... #activematter #physicsoflife #physicalbiology #complexity
Is it weird that I prefer old biology papers—the ones with two figures, zero rainbow plots, and actual ideas? Or am I just allergic to 100-page supplements that explain nothing?
November 17, 2025 at 8:17 AM
Is it weird that I prefer old biology papers—the ones with two figures, zero rainbow plots, and actual ideas? Or am I just allergic to 100-page supplements that explain nothing?
Every time I get overwhelmed, I remember- a lot of statistical physics is basically fancy bookkeeping for balls in boxes.
November 16, 2025 at 11:31 AM
Every time I get overwhelmed, I remember- a lot of statistical physics is basically fancy bookkeeping for balls in boxes.
When science books cost a fortune, only publishers win. Open sharing—GitHub, arXiv—helps every learner. Isn’t it time to free ourselves from the 'medieval' prestige of being ‘published by a reputed publisher’? #scicom #edu #doingsciencd
November 15, 2025 at 7:18 AM
When science books cost a fortune, only publishers win. Open sharing—GitHub, arXiv—helps every learner. Isn’t it time to free ourselves from the 'medieval' prestige of being ‘published by a reputed publisher’? #scicom #edu #doingsciencd
Wet lab? Dry lab? I prefer the Symbolic lab.
Math-Bio isn't just HPC runs— derivations & proofs matter too. As always, Julia helps.
using Symbolics
@variables x y a b c d m n
f = [a/(1+y^n)-b*x, c/(1+x^m)-d*y]
J = Symbolics.jacobian(f,[x,y])
#Julialang #mathbio #computaionalbiology #sysbio
Math-Bio isn't just HPC runs— derivations & proofs matter too. As always, Julia helps.
using Symbolics
@variables x y a b c d m n
f = [a/(1+y^n)-b*x, c/(1+x^m)-d*y]
J = Symbolics.jacobian(f,[x,y])
#Julialang #mathbio #computaionalbiology #sysbio
November 14, 2025 at 6:03 AM
Wet lab? Dry lab? I prefer the Symbolic lab.
Math-Bio isn't just HPC runs— derivations & proofs matter too. As always, Julia helps.
using Symbolics
@variables x y a b c d m n
f = [a/(1+y^n)-b*x, c/(1+x^m)-d*y]
J = Symbolics.jacobian(f,[x,y])
#Julialang #mathbio #computaionalbiology #sysbio
Math-Bio isn't just HPC runs— derivations & proofs matter too. As always, Julia helps.
using Symbolics
@variables x y a b c d m n
f = [a/(1+y^n)-b*x, c/(1+x^m)-d*y]
J = Symbolics.jacobian(f,[x,y])
#Julialang #mathbio #computaionalbiology #sysbio
Calling any large, well-organised dataset "Systems Biology" is a bit like calling a census "social theory." Essential, powerful, and impressive — yes. But the explanations, through generalised theories/models, still have to be earned. #systemsbiology #sysbio #physicsoflife
November 13, 2025 at 4:21 AM
Calling any large, well-organised dataset "Systems Biology" is a bit like calling a census "social theory." Essential, powerful, and impressive — yes. But the explanations, through generalised theories/models, still have to be earned. #systemsbiology #sysbio #physicsoflife
PhD defense (Dramatized based on real events):
You (examiner): That statistics & conclusion are wrong. Needs correction for repeated tests.
Candidate: 🤔 (flustered).
Supervisor: No issues! 😡 This work is already published.
How often do you face such a situation?
#worldofbiologists #bio
You (examiner): That statistics & conclusion are wrong. Needs correction for repeated tests.
Candidate: 🤔 (flustered).
Supervisor: No issues! 😡 This work is already published.
How often do you face such a situation?
#worldofbiologists #bio
November 12, 2025 at 6:06 AM
PhD defense (Dramatized based on real events):
You (examiner): That statistics & conclusion are wrong. Needs correction for repeated tests.
Candidate: 🤔 (flustered).
Supervisor: No issues! 😡 This work is already published.
How often do you face such a situation?
#worldofbiologists #bio
You (examiner): That statistics & conclusion are wrong. Needs correction for repeated tests.
Candidate: 🤔 (flustered).
Supervisor: No issues! 😡 This work is already published.
How often do you face such a situation?
#worldofbiologists #bio
My physicist friends love universality — until the system starts voting, reproducing, or trading stocks 🤪
#complexsystem #physicsoflife #physicsoflivingmatter #systemsbiology
#complexsystem #physicsoflife #physicsoflivingmatter #systemsbiology
November 11, 2025 at 7:47 AM
My physicist friends love universality — until the system starts voting, reproducing, or trading stocks 🤪
#complexsystem #physicsoflife #physicsoflivingmatter #systemsbiology
#complexsystem #physicsoflife #physicsoflivingmatter #systemsbiology
A = [1, 2, 3]
B = [3, 4, 5]
x = 9
x ∈ A ∪ B # -> false
Writing code using symbols in Julia feels like scribbling in a math notebook — except this one actually runs. It takes some time to get habituated, but then you get hooked.
#julialang #computing
B = [3, 4, 5]
x = 9
x ∈ A ∪ B # -> false
Writing code using symbols in Julia feels like scribbling in a math notebook — except this one actually runs. It takes some time to get habituated, but then you get hooked.
#julialang #computing
November 10, 2025 at 4:58 AM
A = [1, 2, 3]
B = [3, 4, 5]
x = 9
x ∈ A ∪ B # -> false
Writing code using symbols in Julia feels like scribbling in a math notebook — except this one actually runs. It takes some time to get habituated, but then you get hooked.
#julialang #computing
B = [3, 4, 5]
x = 9
x ∈ A ∪ B # -> false
Writing code using symbols in Julia feels like scribbling in a math notebook — except this one actually runs. It takes some time to get habituated, but then you get hooked.
#julialang #computing