The use of methods from the physical sciences to aid in the study of biological systems.

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122 views

How to quantitatively measure work done by a biological system?

Thermodynamic efficiency can be expressed as the ratio of Work done(W) to Energy invested (Q). Thermodynamic efficiency= W/Q How can one measure work done by a ...
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2answers
333 views

Mechanism behind negative conductance of ion channels

I am struggling to understand negative conductance shown on I-V curves on ion channels. Mechanistically, negative conductance means that inward (or outward) current increases when voltage across ...
4
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1answer
63 views

Do local field potentials (LFP) create waves on the surfaces of nerve cells?

Are waves created by the LFP on the surfaces of neurons cell bodies? Since the cells have a resting potential, do these waves create harmonic oscillation of the membranes at particular frequencies? ...
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25 views

How is green fluorescent protein distributed while inside an organism?

I would like to know a relatively simple thing, but something I wasn't finding the answer to. When fluorescent protein is used in a relatively large, non-transparent animal, like a mouse, or ...
4
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1answer
35 views

Wearing sunglasses during a solar eclipse [closed]

Note: I had asked this on Physics, but it is off-topic there due to being about safety. On the BBC's guide to eclipse-watching, Dr Lucie Green says: Watching an eclipse with normal sunglasses ...
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5k views

Isotropy of sarcomere bands in skeletal muscle cells

As seen under a polarization microscope, the A-Band in skeletal muscle fibres is so named because it is anisotropic in its refractive index which is a characteristic of orderly crystalline structure. ...
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67 views

How can neuronal signals faithfully be reproduced by scalp electrodes?

There is a skull barrier (and possibly other layers too) between the brain and the scalp. I have seen people trying to extract EEG signals from the scalp by connecting electrodes and interface it to ...
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3answers
626 views

What is a good list of unsolved protein structures?

I'm trying to get a list of unique soluble structured proteins that don't have a solved structure. That is, they aren't the usual membrane proteins or some derivative of another protein. Things that ...
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2answers
189 views

How to conceptualize the action potential?

In my AP Biology class, we were taught that action potentials are not electrical impulses in the same way current travels through a wire. Rather, we were taught that action potentials are changing ...
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42 views

Why does the direction of endolymph flow oppose direction of body motion?

In the semicircular canals, the endolymph always flows in a direction that is opposite to the motion of the vestibular apparatus itself. I’m having trouble grasping why this is, and I would greatly ...
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37 views

Which hydrophobicity scales are best for detecting transmembrane regions, and why?

There are many hydrophobicity scales for protein analysis. Broadly, I gather the differences between them are from the experimental method to acquire the data and the normalisation (or lack thereof) ...
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63 views

Determining how much energy a plant takes in?

I asked a question on WorldBuilding.SE, "Are diamond berries possible?". This led to asking a question on Chemistry.SE about the amount of energy required to burn a 1 ct. diamond (−6.527kJ). The ...
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41 views

What is the statistical relationship between radioactivity and mutation rate?

This question tries to narrow down the scope of that question. What is the statistical relationship between radioactivity and mutation rate? By how much would the mutation rate be lowered in a ...
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68 views

Is there any knowledge of physics can be applied in to evolution?

I have asked a similar question in Biology.SE (What physics knowledge can be applied to biology of organisms and ecosystems?), but it just about organisms and ecosystems, not evolution. After watching ...
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1answer
117 views

Structure of RAP Antibodies (Specifically RAP-5)

[EDIT] - Have just found not one but two papers that address my structure problem. However they concern RAP-1A, so I guess my question is now what is the difference in structure and function of ...
3
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2answers
487 views

Bernoulli’s Principle in the Cardiovascular System

Below are graphs which illustrate the cross-sectional area, velocity, and fluid pressure through each vascular segment of the cardiovascular system. It makes sense that velocity and cross-sectional ...
3
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1answer
135 views

Explanation of ECG in MI using an electrostatic model

I found a paper presenting an electrostatic model to explain the ECG recorded in various leads. This model essentially calls for considering the depolarization wavefront to be the major contributing ...
3
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1answer
98 views

Do voltage-gated calcium channels affect neuronal conduction speeds?

We have a hypothesis that a drug may block the voltage-gated calcium channels (VGCC) in annelid worms. We are wondering whether there are any correlations between VGCCs and neuron conduction ...
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1answer
152 views

What biological processes can affect the temperature of the shadow a tree casts?

Assuming two trees have similar shape and leaf coverage, could differences in the biological processes among them lead to differences in the temperature of the shadow they cast? What biological ...
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1answer
205 views

What keeps the resting potential of neurons constant at -70 mV?

I know the sodium-potassium pump pumps out 3 Na+ ions and pumps in 2 K+ ions per reaction so the negative charge in the axon increases. However, once the voltage (difference of charge inside and ...
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1k views

What is the exact principle of capillary isotachophoresis?

I know it's a type of capillary electrophoresis, but I don't get how does the separation happen exactly.
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24 views

Photosynthetic efficiency and light harvesting efficiency

Is there some sort of measure of the light harvesting efficiency (possibly like transfer time) that is directly related to the photosynthetic efficiency in some sort of equation? Also, how important ...
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0answers
61 views

Patch-Clamping Neurons Resources [closed]

Are there any lectures available on Patch-Clamping? Were can I find a mathematical model of Patch-Clamp? (that can be easily implemented in matlab). I have found some step-by-step protocols on ...
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2answers
8k views

How do trees use Adhesion and Cohesion to move water against gravity?

I have an AP Bio class where I have to name 3 properties of water and I chose adhesion and cohesion for one of them. I'm having trouble finding out how exactly trees use adhesion and cohesion to move ...
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1answer
942 views

What is the relationship between UV wavelength and penetration depth into human skin?

Some background - Some recent research has strongly suggested that UVA penetration into the skin is far more dangerous than UVB, a very good example is this paper by Agar et al. (2004). My query is, ...
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80 views

Can geckos climb a wet surface?

We know geckos can climb vertically or even upside down a surface like glass. But can they do that on wet glass?
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1answer
185 views

What does these $\Delta \Delta G$ numbers signify?

I was reading a paper and came across this table showing $ \Delta \Delta G$ numbers of different nucleotide sequences in DNA/RNA. I know that $\Delta G$ is free energy and $ \Delta \Delta G$ is ...
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1answer
98 views

Relationship between turgor pressure and osmotic pressure?

I would like to know if there is a relationship between osmotic pressure (inside and outside of a cell) and turgor pressure. If so, is there a way to formalize it mathematically? Thank you in ...
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1answer
80 views

What governs the distribution of blood vessels?

Whenever someone is sick, doctor places 2 fingers on wrist & observes the heart-beat-rate by feeling pulses of a certain artery. To me it seems the distribution of blood vessels are pretty ...
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1answer
101 views

How to determine whether the energy of a stem-loop fold is significant or not?

If I have a predicted RNA stem-loop of energy -0.30 kcal/mol, and another of -4.9 kcal/mol, how do I tell whether such a structure is a significantly stable structure or not? Our two competing ...
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1answer
41 views

What is the biding site code recognized by the parts of the spliceosome

Another question about another Youtube video. At 0:50, the splicing process begins to remove the non-coding section of the DNA (intron), so the different parts of the spliceosome attach to the borders ...
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1answer
364 views

Are Bovine serum albumin, Avidin, Ficoll-70 and Dextran-70 positively charged or negatively charged? [closed]

Bovine serum albumin, Avidin, Ficoll-70 and Dextran-70,are they positively charged or negatively charged ? And which other solvents can be used as a substitute to water for preparing solutions in each ...
2
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1answer
95 views

Dwell time equations for ATP-sythase?

I have read that every 120 degree rotation of the F1 complex of ATP-synthase can be split into a 30 degree rotation and a 90 degree rotation. In between these two are dwell times, the one before the ...
2
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1answer
89 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 ...
2
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1answer
1k views

What is the difference between rheobase and threshold?

Neuronal tissues can be excited by electrical stimulation. Two commonly encountered characteristics for electrically stimulating nerve cells is the threshold and the rheobase. My question is what the ...
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1answer
45 views

Kinesin-5 / cytoplasmic dynein spatial density distribution in neurons

Is there some way to experimentally determine the density distribution of Kinesin and Dynein in a Neuron? Fluorescence labeling would be impossible(?) as GFP markers would probably alter the motor ...
2
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1answer
63 views

Muscle force/energy relationship

I found the Hill muscle model, which helps relate the force a muscle can generate to its change in length over time (its "contraction velocity"). Is there a similar model to get an idea of the energy ...
2
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1answer
40 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 ...
2
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1answer
44 views

What's the best way to measure/calculate the size of a light beam at the sample of a microscope?

I am using a microscope with an LED derived light through the epi-fluorescent port of a microscope. I know that the "field of view" for a given objective is equal to the field number/magnification ...
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11 views

What are necessary parameters for a tissue scaffold to be biodegradable?`

I am a mechanical engineer with little biological experience, but I have recently been looking at tissue scaffoldings. My current understanding is as follows, but may be flawed. I would appreciate ...
2
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2answers
53 views

Is there a way to know how many sodium channels are active (conducting) at a given time in the brain?

I was doing some reading about anti-epileptic sodium channel blockers, then wondered how many sodium channels are actually conducting (actively passing ions) at any given time, that is, in an ...
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39 views

Infrared emitting diode eye safety

I'm thinking of creating my own laser tag system and am a bit concerned about the eye safety aspect. Most of the homebrew system I've seen use the TSAL 6100 ...
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0answers
43 views

How to get a pdb file of a single atom?

I am trying to get a pdb file that contains a single atom, it doesn't matter if it's Hydrogen or another atom. How can I obtain this? Are there any pdb files with just a single atom available to ...
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3answers
243 views

Action Potential Distribution On Synapses

This is a biology+physics question. Since there is no biology section, I am asking here. In brain, when a neuron reaches to threshold value, it fires an action potential. In most graphics, that is ...
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1answer
136 views

How to estimate the DNA density in human sperm head? [closed]

I have got an estimate of sperm head volume from internet.Like consider it as a disk of order 4-5µm. Now I wanted to find the DNA density in the sperm head. How to find that?
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58 views

Useful physical information of a protein

Beside energy and heat, I don't know any useful physical information of a protein. Can you help me list some of it. Somethings like Fourier-transform infrared spectroscopy to provide protein structure ...
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2answers
69 views

Which types of hydrogen bonds are known to exist in RNA secondary structures?

I'm programming an implementation of an algorithm for pattern matching in RNA structures. The algorithm assumes the following types of base pairs: Plain: No base pairs (just the primary structure of ...
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1answer
213 views

What is the energy balance of cooking?

If I cook some food, I get apparently several energetic advantages: thermal : the temperature of the food is closer or superior to the temperature of my body or internal organs, so I do not have to ...
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1answer
131 views

Are there any theories using thermodynamics/statistical mechanics or information theory principles to modelling in ecology?

So far, I've only known one: the MaxEnt theory. It uses the maximum information entropy developed by information theorist, which in turn inspired by the thermodynamics from physics, to predict the ...
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1answer
34 views

Why is stimulation of nerve tissue with a negative pulse called “cathodic” stimulation?

By definition, the cathode is defined as the terminal through which current exits a polarized device. But in the context of neuromodulation, such as spinal cord stimulation, deep brain stimulation, ...