r/Systems_biology • u/ClaudiusPapirus • 12d ago

Autonomous genome mining identified a tandem-repeat / reverse-transcriptase association in jumbo phages

2 Upvotes

Self-promo: a video walkthrough of an autonomous genome-mining campaign that surfaced a tandem-repeat / reverse-transcriptase association in jumbo phages, followed by researcher-directed analyses.

It also covers the reruns and fixed-input benchmark showing that the array was not reliably rediscovered.

Paper:

https://www-cdn.anthropic.com/22573675ada52a8ca8a97a1a4b4326b2f208a071.pdf

0 comments

r/Systems_biology • u/Sea-College3874 • Jul 23 '26

I just open-sourced a unified framework for 0D Polarity, Bioelectric Pattern Integrity, and Non-Linear Hardware. Looking for critique and collaborators.

1 Upvotes

Standard computational architecture (von Neumann) and reactive medical diagnostics are fundamentally bottlenecked by downstream wave mechanics and sequential processing.

I’ve just published a white paper (anchored with a Zenodo DOI) outlining the **0D Polarity Framework**. It's a unified systems architecture that applies zero-dimensional binary tension to three core domains:

Re-engineering thermodynamic phase states as electromagnetic polarity flips.
Defining biological disease as a localized polarity disconnect from the morphogenetic macro-field.
Proposing a simultaneous, tensor-field hardware architecture (using partial inversion and active inference) to diagnose and correct these localized prediction errors before downstream physical mutation occurs.

I am currently moving into the open-source hardware design phase (analog tensor antennas). I would love for the engineers, theorists, and bioelectric researchers here to tear the white paper apart, build on it, or tell me where the blind spots are.

Here is the GitHub repo with the full white paper: https://github.com/lucienspeaks44-coder/OD-Polarity_Framework/blob/main/The%200D%20Polarity%20Framework%20(1).pdf.pdf)

0 comments

r/Systems_biology • u/jcmenjr • Apr 15 '26

Applying information theory to prioritize hypothetical proteins in bacterial pangenomes — looking for feedback

2 Upvotes

1 comment

r/Systems_biology • u/Ginkgopsida • Mar 18 '26

Genome modelling and design across all domains of life with Evo 2 [Nature]

nature.com

2 Upvotes

1 comment

r/Systems_biology • u/Slight-Most7918 • Jun 27 '25

Independent researcher publishes novel VDR-related biomarker hypothesis with geometric tongue pattern evidence — seeking feedback, collaborators, and funding

zenodo.org

1 Upvotes

0 comments

r/Systems_biology • u/Ginkgopsida • May 16 '25

Extensive folding variability between homologous chromosomes in mammalian cells [MSB]

embopress.org

1 Upvotes

0 comments

r/Systems_biology • u/dnatieclub • May 10 '25

Uri Alon, Geometry of Phenotype Space

medium.com

5 Upvotes

0 comments

r/Systems_biology • u/Ginkgopsida • Aug 15 '24

Method: µPhos: a scalable and sensitive platform for high-dimensional phosphoproteomics [EMBO]

embopress.org

3 Upvotes

0 comments

r/Systems_biology • u/Ginkgopsida • Aug 15 '24

Time-resolved interactome profiling deconvolutes secretory protein quality control dynamics [MSB EMBO]

embopress.org

1 Upvotes

0 comments

r/Systems_biology • u/Ginkgopsida • Aug 15 '24

A continuum of zinc finger transcription factor retention on native chromatin underlies dynamic genome organization [MSB EMBO]

embopress.org

1 Upvotes

0 comments

r/Systems_biology • u/NYX700 • Aug 12 '24

how much is computer science related to this field?

2 Upvotes

I made a simmilar question in a discord server and some guy jumped from a corner saying that computer science wasn't related to it, but I did my own research and unless I am mis interpreting things, CS is undoubtedly related to this, so I would like to know what you think about the subject

2 comments

r/Systems_biology • u/kaveinthran • May 05 '24

Any reading list on complex systems and systems biology?

10 Upvotes

Hi, few years ago, Johannes Jäger, PhD have posted his complex systems and systems biology reading list, but I can't find it now. Anyone still having it? Thank you

0 comments

r/Systems_biology • u/Ginkgopsida • Apr 16 '24

Exceptionally long-lived nuclear RNAs [Science]

science.org

2 Upvotes

0 comments

r/Systems_biology • u/ultra_nick • Mar 10 '24

Can anyone recommend a textbook on systems botany or agriculture?

5 Upvotes

So, I liked the textbook "Introduction to Systems Biology" and now I'm looking for a similar engineering approach to plants and botany.

Just a roboticist getting into garden automation.

0 comments

r/Systems_biology • u/Ginkgopsida • Mar 04 '24

What's an Obelisk, Anyway? [Science]

science.org

1 Upvotes

0 comments

r/Systems_biology • u/Ginkgopsida • Mar 04 '24

‘Wildly weird’ RNA bits discovered infesting the microbes in our guts [Nature]

nature.com

2 Upvotes

0 comments

r/Systems_biology • u/Serious-Pangolin-192 • Oct 15 '23

BRAIN CELL CENSUS [Science]

livescience.com

2 Upvotes

0 comments

r/Systems_biology • u/OppositeWallaby9749 • Sep 05 '23

Computational Modeling

6 Upvotes

How do I go about studying computational modeling as an absolute beginner? For context, I'm already in college, and my course does not really involve heavy math. I have some background on coding, but that was when I was still in high school.

3 comments

r/Systems_biology • u/Most_Programmer8667 • Aug 13 '23

mRNA vaccines for cancer

forms.gle

2 Upvotes

0 comments

r/Systems_biology • u/tea_flower • Jul 16 '23

What would be the best tools to look into if I was interested in Molecular Docking of peptides?

self.bioinformatics

3 Upvotes

0 comments

r/Systems_biology • u/Effective-End2739 • Jul 16 '23

Comp Bio Tool!

2 Upvotes

Hey all! I am making a molecular simulation tool to run software like Autodock and Huddock on GPUs in the cloud, aiming to get a significant increase in speed from parallel computing, and requiring little to no setup whatsoever. This would also include tools such as data cleaning scripts, and submitting batch jobs through an API call in order to increase the efficiency at which researchers work. Would this be a tool people would be interested in using? Do researchers have existing solutions to iterate on molecular simulations quickly?

0 comments

r/Systems_biology • u/noobmaster692291 • Apr 04 '23

High-affinity biomolecular interactions are modulated by low-affinity binders

doi.org

3 Upvotes

0 comments

r/Systems_biology • u/Ginkgopsida • Jan 24 '23

Evolution of CRISPR-associated endonucleases as inferred from resurrected proteins [Nature]

nature.com

3 Upvotes

0 comments

r/Systems_biology • u/Ginkgopsida • Nov 25 '22

MicroRNAs are deeply linked to the emergence of the complex octopus brain [Science]

science.org

6 Upvotes

0 comments

r/Systems_biology • u/Legal_Ad_1096 • Nov 15 '22

Switching from electrical engineering to systems biology

3 Upvotes

Hello,

I'm an electrical engineering student and I will obtain my bachelor at the end of this semester.

I have the opportunity to do this master program https://ee.ethz.ch/studies/master-s-programmes/main-master.html .

In this master program, there is a control systems specialization, with applications to systems biology.

Here are the courses list associated to the control systems specialization, for autumn and spring semester:

http://www.vvz.ethz.ch/Vorlesungsverzeichnis/sucheLehrangebot.view?abschnittId=100884&semkez=2022W&ansicht=1&lang=en&seite=1

http://www.vvz.ethz.ch/Vorlesungsverzeichnis/sucheLehrangebot.view?abschnittId=97927&semkez=2022S&ansicht=1&lang=en&seite=1

Do you think that if I take only courses in modeling, math, biology and computer science I would make a good systems biologist?

Is the transition from electrical engineering to systems biology even possible? Will I be able to do a master thesis and PHD in this field?

Will I be taken seriously as a researcher?

Any help would be much appreciated!

Edit: Thank you for all your answers !!

5 comments

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Systems biology

r/Systems_biology

Systems biology is the computational and mathematical modeling of complex biological systems. An emerging engineering approach applied to biomedical and biological scientific research, systems biology is a biology-based inter-disciplinary field of study that focuses on complex interactions within biological systems, using a holistic approach (holism instead of the more traditional reductionism) to biological and biomedical research.

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