The study of the molecular processes of the nucleus and cell function.

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1answer
54 views

Does copper exacerbate wounds?

There is a three edged stiletto (weapon, not shoe) with a triangular cross-section that is often touted as being "extra dangerous" because of the triangular puncture it makes, and its copper ...
12
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2answers
1k views

Why is there more variation in proteins than genes?

The Genome of a cell or organism is the same as that of the entire organism. However, the proteome of an organism is much greater than that of each cell (unless the organism is unicellular). How do ...
4
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1answer
46 views

A good software for agent based modelling?

Hello i'm gonna start my master degree in systems biology and i'm thinking of working with agent based modelling, but i really don´t know which platform can be the best to simulate interactions ...
2
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2answers
91 views

Why mutations in genes involved in general processes like DNA repair increase the risk of developing specific types of cancer?

For example, mutation in MHS2, which encodes a protein involved in the repair of mismatches that occur during DNA replication, dramatically increases the risk of developing colon cancer. (There are ...
1
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1answer
19 views

When should you use a stringent plasmid

I was wondering if anyone had good examples of when you would want to use a stringent plasmid vs a relaxed plasmid in a research setting. Thanks
0
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0answers
24 views

Do any gaps in DNA during cell division (meiosis in particular) lead to crossover?

I have some gaps in the knowledge abour crossover. I know, that crossover is connected with reparation process. I'd like to know if all gaps in chromosomes lead to crossover (reparation based on 2d ...
1
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1answer
77 views

Goodwin oscillator explained

Hello I have been reading papers about the Goodwin oscillator and I found that the equations are kind of tricky. Specially the part of the hill coefficient. In his paper "An entrainment model for ...
0
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1answer
32 views

Why do RNAi pathway proteins exist in the nematode when they can cause them harm?

When dsRNA is injected in plant, Dicer cuts it and prevents disease. Why would the plant parasite, M. incognita - a nematode, die when dsRNA was injected in it? It should have saved it. Again, to be ...
0
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0answers
24 views

Artificial Synthesis of Animal Cells

If we know the elements with which a certain type of cell is composed of (I am particularly talking about Animals, and Humans more importantly), why aren't we able to make cells on our own then, in a ...
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0answers
23 views

UV light-induced mutagenesis during gel extraction

this is a very short question I did not find the answer for online, neither on this nor other fora. At the beginning of my cloning protocol, I extracted the band with the sequence of interest directly ...
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0answers
17 views

de novo gene synthesis vs cDNA library creation from plant RNA: Pros & Cons

What are the relative pros & cons of the following two approaches when one wants to insert a known, sequenced plant gene into a target host organism: de novo gene synthesis vs plant matter ...
12
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1answer
15k views

Why is ATP the preferred choice for energy carriers?

Why is ATP the most prevalent form of chemical energy storage and utilization in most cells?
1
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1answer
77 views

How the chaotropic agents help in purification of DNA molecule?

Those plants which are rich in secondary metabolites and polysaccharides DNA isolation can be done using certain chaotropic agents? can any one explain how it works?
3
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1answer
48 views

Why does Taq polymerase add 3' adenine overhangs?

Is there a mechanism for the preference of Taq polymerase to add a non-templated 3' adenine (overhang) instead of other bases?
1
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1answer
49 views

What are the problems in using an ssDNA or an mRNA for expression instead of using a plasmid?

Let's say you want to do a gene cloning experiment. You have an empty expression vector (mRNA or DNA) and are looking to clone some gene X into it. Why is it you can only buy X already inside a vector ...
0
votes
1answer
27 views

Synthesis of an additional DNA in Pachytene and Zygotene [closed]

I've read, that in Pachytene and Zygotene additional DNA material is synthesized, about 0,3, 0,1% respectively. Why is it so?
1
vote
1answer
26 views

How RNA primer on leading strand is removed during DNA replication and how the gap is filled? [closed]

Please can you explain me how the gap created by the removal of primer on 5'-3' leading strand is filled.
8
votes
3answers
204 views

How does the body switch between aerobic and anaerobic respiration?

Lets take the case of a person doing heavy exercise. Aerobic respiration is taking place, but oxygen is about to be finished up. Glycolysis occurs, Krebs cycle finishes. Now NADH and FADH enter ...
3
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0answers
31 views

Are all genes transcribed in differentiated cells?

My textbook tells me that it’s specific transcription factors that allow for a different set of genes to be expressed in different cells (differential gene expression). My book gives the example of ...
1
vote
1answer
35 views

does life make or break?

Ok, this question seems like it may be impossible to answer, but would be interesting to see if anyone has an idea. Throughout the course of a human life, do we make more molecular bonds than we ...
7
votes
1answer
114 views

The mechanism of mechanoreception?

I am interested in knowing the molecular mechanism behind mechanoreception/mechanotransduction (i.e. mechanism behind receptor potential generation on mechanical stimulation). I know that most ...
1
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1answer
70 views

An experiment to test if a bacterial resistance gene is on the plasmid or chromosome?

So I have an E.coli strain phenotypicall resistant to the antibiotics ampicillin and rifampicin. How do I test if the AmpR gene is carried on a plasmid and not on the chromosome? In summary, I ...
1
vote
1answer
19 views

Molecules, Targets and Isoforms

I have a question. Given a molecule A and two isoforms of a gene X, Y, and the knowledge that A targets X. Can I infere from this anything about whether A targets Y? As a motivation think about ...
0
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0answers
10 views

Are there in biololy specific QM-phenomena which are necessary for their processes?

Of course QM should be every where, because that is how nature is. But for example if you take the fusionprocess of our sun it appears that the sun wouldn't give any heat and light without making use ...
4
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0answers
28 views

Artificial reduction of NADP into NADPH by means of an electrical current

I've recently been attempting to artificially drive the formation of NADPH via the NADP reduction mechanism utilized by Ferredoxin-NADP Reductase in the Light-Dependent Reactions of Photosynthesis in ...
2
votes
1answer
48 views

Why does protein kinase C activated by different means have different effects?

I could be way off base but I think I remember learning that Protein Kinase C has some effects when activated by one pathway and other effects when activated by another. How does this happen? Is it ...
3
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1answer
68 views

Is a bone marrow transplant limited by sex?

Can a female patient get transplanted with bone marrow of a male donor and vice versa?
10
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1answer
343 views

Restriction enzymes, how are the recognition sequences determined?

How were the recognition sequences (e.g. GAATTC of EcoRI, GGATCC of BamHI) characterised? Text books only list the recognition ...
8
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2answers
72 views

Is there a metabolic pathway that generates methanol?

I've been looking for help topics about methanol in metabolism. Specifically, I wish to know what is a common dietary component that generates methanol following metabolism and comment on its ...
1
vote
1answer
67 views

What is two-start or zigzag model of 30 nm chromatin fibre?

I read some webpages describing the two-start model but could not get it. I'll be obliged if someone helped me understand the topic. The websites I have been through are: ...
4
votes
2answers
101 views

Is it possible to create a restriction map using python? [closed]

I have some fragments of DNA from single and double digests using three different restriction enzymes. I'm trying to construct a restriction map of a linear fragment of DNA. The map needs indicate the ...
3
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0answers
42 views

How can a mutator gene can cause a mutation when it is shut off? [closed]

defination of "Mutator" - a gene that increases the rate of mutation of one or more other genes. However, in the book "Molecular Biology of the Cell" (bruce alberts) it states that when a mutator is ...
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0answers
123 views

Construct a restriction map of a linear fragment of DNA using the following data?

I've attempted to do the single digests, and the double digests, but cannot complete the map.... I've attached what I've done so far DNA Sizes of Fragments (bp) uncut DNA 900 DNA cut with EcoRI ...
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0answers
18 views

Enzyme immobilization: Factors that help or hurt success

Are there any factors to consider that can help / hurt the chance to get a successful immobilized enzyme catalyst? i.e. The relative attractiveness of a live host synthesis vs an immobilized enzyme. ...
1
vote
1answer
44 views

Lookup for transporter locations in humans

I am interested in several transporters and cotransporters (eg SLC12A1/2 and many others), more precicely, in (human) organism that are made of cells containing those transporters. So does anyone know ...
8
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2answers
241 views

How does LCR compare to Assembly PCR

The question pretty much explains itself. How do the two methods compare? I've always used Assembly PCR but the method is prone to mistakes and I'm curious how it compares to Ligase Chain Reaction ...
2
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2answers
37 views

What separates gene loci?

Introns are sections of noncoding DNA that separate exons within a gene locus. However, between different gene loci, I also would assume there to be noncoding regions of DNA. What are these regions ...
2
votes
3answers
172 views

Why don't housekeeping genes have TATA Box regions in their promoter sequences?

Housekeeping genes are genes that are continuously transcribed. Like all other genes they have promoter sequences, but they don't have TATA box sequences that are used to specify from where ...
1
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0answers
22 views

Computer Models of E Coli / Saccharomyces cerevisiae metabolite pathways

Are there mathematical models one can use to predict the expression levels of a foreign gene inserted into a well studied host organism like E Coli or S cerevisiae? I'm not, obviously, looking for ...
1
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0answers
18 views

codon optimization / enzyme active site improvement

Does one necessarily have to use de novo synthesis of DNA when attempting protein expression improvement by codon optimization? Or are there other ways? e.g. Say the gene coding for the enzyme needed ...
0
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2answers
123 views

Definition of Phenotype

I'm not a biologist but, I'm trying to enter molecular biology from a perspective. I have noticed that concept of genotype is quite well defined while ...
2
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1answer
52 views

What is the P in LogP? [closed]

How does this value actually get calculated? Logarithms are usually written as log(base 10) of x So what is the 'P' equivalent of 'base 10'? I know it stands for octanol/water, but what does that ...
2
votes
2answers
38 views

Was there originally a non-ribosomal way of synthesizing proteins?

Proteins are synthesized on ribosomes from mRNA copies of regions of the DNA. But ribosomes themselves are made up of proteins (and RNA). So how could the first ribosomes have arisen? Was there ...
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0answers
20 views
3
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1answer
59 views

How do the major and minor grooves in the DNA helix arise?

I understand that they arise due to the pairing of bases of two opposite stands and are sites through which important proteins needed for replication and transcription of DNA interact. But I don't get ...
1
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0answers
20 views

What is the site on an enzyme that binds either exitatory or inhibitory molecules? [closed]

A site on an enzyme where either exitatory or inhibitory molecules can bind is called a(n): A) electron transport site B) active site C) coenzyme D) metabolic pathway E) allosteric site If you ...
3
votes
1answer
22 views

How can dopamine modulate synaptic strength?

Does dopamine act on G protein coupled receptor, leading to more Ca2+ channels on the postsynaptic knob? Also, how is the specificity of the location (of the brain) that dopamine acts on controlled? ...
1
vote
1answer
39 views

How does cytochrome c oxidase inhibition cause cell death?

I realise the inhibition of cytochrome c oxidase prevents the release of H+ ions into the intermembrane space, and that the ion gradient is required for ATP synthase action. However, I'm not sure how ...
1
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1answer
35 views

BWA-MEM single strand or doublestrand alignment

In whole genome secondary analysis does BWA-MEM use a double stranded fasta reference or are reads aligned to only one, single stranded fasta reference?