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1
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0answers
23 views

Hodgin-Huxley model for a single neuron

I am viewing (through edX ) an introduction course to computational neuroscience. In the second lecture, the Hodgin-Huxley model is considered. I am going over some of the questions and have ...
4
votes
1answer
36 views

Forward versus backward numerical simulations in population genetics

My question is closely related to this post. There are a number of existing platforms to perform numerical individual-based simulation in populations genetics. An almost exhaustive list of such ...
2
votes
1answer
58 views

Has anyone modelled calcium oscillations using Matlab software? [closed]

I have been trying to model calcium oscillations using MatLab, but I cannot obtain the oscillation. I created a function where I put all the equations and used ode15s to call the function. I have ...
18
votes
3answers
1k views

120-year-old gene regulation problem independently solved by a computer. How?

My Background: I'm a mathematics graduate student with a physics background. I have a very little biology knowledge and a little knowledge of machine learning and statistics. Topic: I recently ...
12
votes
2answers
92 views

How can we predict protein folding in silico?

Currently, there is a lot of research focused on solving the folding patterns of proteins using computers (Folding@Home, https://fold.it/portal/, etc.). The question that I have is: How do you know ...
7
votes
1answer
83 views

What is the difference between a mechanistic and a statistical predictive model?

The simplest description of the difference between these two approaches that I have found are on this site who summarise the difference as: Mechanistic model: a hypothesized relationship between the ...
3
votes
0answers
46 views

Neural coupling between Pinsky-Rinzel (reduced Traub) neuron with a Wang-Buzsaki neuron?

I have read two papers related to modeling neurons. The first one is the paper by Pinsky and Rinzel and the second one by Wang and Buzsaki. The first mentioned neuron model is a excitatory neuron ...
4
votes
1answer
47 views

Multistability in the lactose ultization network

Reading the paper here, I'm confused about the production of figure 4d. The method of production is detailed in the supplementary information under the heading "Theoretical phase diagram". ...
2
votes
2answers
100 views

Core Biological concepts explained to a Computer Scientist?

I am a computer scientist delving into Bioinformatics and I need to gain insight in biological phenomena. How would you explain three core concepts as: Evolution, Selection and Variation, to a ...
0
votes
2answers
86 views

Can all biological processes be understood as computations and studied as such? [closed]

Can we understand a cell as an organic computational device? In that case the whole organism can be considered an ensemble of a large number of interacting computational devices? If this is the ...
0
votes
0answers
18 views

How to get chemical structures in PDB format?

I am about to embark on the final step of a research project that involves molecular docking. Specifically, I am planning on docking an alpha(2,6)-linked sialic acid glycan to the influenza ...
-1
votes
1answer
28 views

What is some computer science technology that can help the development of biology? [closed]

What is some computer science technology that can help the development of biology(eg. artificial intelligence, resolution technology) and briefly talks about their potentials?
0
votes
1answer
56 views

Supercomputer and undergraduates [closed]

Is it common for an undergraduate to run their thesis (evolutionary genomics) in a supercomputer? In my country, few supercomputers exist, but I'm not sure how it is for bachelors in the US or Europe. ...
-1
votes
1answer
56 views

Why the name coined for MARKUP LANGUAGE for SBML? [closed]

I'm get the confusion about SYSTEM BIOLOGY filed. SBML is refer to as SYSTEM BIOLOGY MARKUP LANGUAGE why we should called as ...
2
votes
2answers
55 views

Simulating Drug Entry in Protein and binding?

Is there any simulation protocol or paper which can simulate the dynamics of drug entry and interaction with the target protein?
4
votes
1answer
166 views

Start studying mathematical biology from basics

I am really passionate about theoretical and quantitative biology and I would like to build my future career around this topic. I've just got my bachelor's degree in biology (ecology) but scince I've ...
3
votes
0answers
123 views

Human female chest model or data representation?

I am looking for professionally used representation of female chest (I know how it sounds ;). Generally - a model comprehensive enough to effectively represent human chest, with focus on breasts. ...
2
votes
1answer
37 views

Protein Conformation Modeling

I'm interested in learning about computational modeling in biophysics. I have heard some amount about people modeling proteins as a network of ideal springs to examine things like conformation ...
0
votes
1answer
69 views

Hidden Markov Model

I read about the hidden markov model in bioinformatics. I amn't able to understand what it is. Can anyone explain me in brief and in very very simple words what it is ? I have NO background in ...
5
votes
1answer
200 views

Definitions and examples of some math-releated ecology branches

I would like to have an example of application and a brief description/definition (two or three lines) of the following fields. I would like to understand the exact differences between them. Other ...
3
votes
0answers
61 views

The Operation of tuning in the S1 layer of ventral model

According to my previous question in ventral Stream pathway and architecture, I want now to get a brief example about how the S1 layer is constructed. In other words, how all the simple units are ...
3
votes
1answer
241 views

Ventral stream pathway and architecture proposed by Poggio's group

Please can you give me a very brief explanation about all functions in the ventral stream architecture summarized in this figure: This figure is from Serre et al.'s A quantitative theory of ...