Questions tagged [molecular-biology]

The study of the molecular processes underlying life.

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Histone Deacetylase Inhibition

So I am trying to brush up on my knowledge of HATs and HDACs. I am reading the just the 1st paragraph of the background of this study I remember learning that HATs turn things on on, and HDACs turn ...
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If a cell has two different GPCRs, how does the cell differentiate between the phosphorylation cascade caused by each?

In my biochem course, we learned that GPCR receptors trigger a phosphorylation cascade, with the end result being a large amplification of the signal in the form of cAMP. We never studied any ...
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Doubt related to nerve impulse transmission

Naturally, the extracellular fluid has more sodium ions and the axoplasm has more potassium ions. Since there are more potassium leakage channels than sodium leakage channels on axoplasm, it is more ...
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Why does insertion of transmembrane domains occur in the rough ER?

To elaborate on that question, why in the secretory pathway does the insertion of transmembrane domains into the membrane occur in the rough ER as the protein is translated and threaded across the ER ...
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How is energy stored in the cotransport of molecules down to its electrochemical gradient?

I am talking about symporters and antiporters, that transport usually an amino acid against its concentration gradient while at the same time transport another molecule down its electrochemical or ...
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“challenges associated with drug design” What does it mean?

I was reading the news here: https://www.drugtargetreview.com/article/60516/developing-immunotherapies-for-hard-to-treat-cancers/ And then I saw "challenges associated with drug design" in this ...
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When purifying plasmid DNA after cloning, do you get endogenous plasmid in addition to your vector of interest?

Since bacteria naturally contain plasmids, when you do a cloning experiment and purify the plasmids at the end, do you get plasmid naturally present in that bacteria in addition to your vector? The ...
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Can DNA rings, i.e. plasmids, form as Möbius strips?

I know that plasmids can be present in a coiled form, which keeps the DNA strands together when they degenerate, by forming catenases. I was wondering, however, whether it has been documented to ...
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Analysis of post transplantation lineage tags

I'm having some trouble understanding some bits of a study, mostly about the Sleeping Beauty system and TARIS model, from this paper: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4408613/ I ...
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How does lipoid pneumonia lead to acute respiratory distress syndrome (ARDS)?

How does lipoid pneumonia lead to acute respiratory distress syndrome (ARDS)? The vaping illnesses that have been happening on the news in the United States are being caused by the federal ...
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Do we consume DNA and proteins of other organisms?

When we eat raw meat, e.g. chicken or fish, we are actually consuming the DNA, proteins etc. which are present in their cells. Wouldn't this affect our cell functions as this DNA might enter our ...
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What causes the overactivity of keratin production and expression in the cells of the nail bed/ nail matrix after some traumata?

What is the cellular mechanism of traumatic(sterile) onychodystrophy(hypertrophy)? I.e one hits his toenail and has it removed twice( once after the first trauma and then again 3 years after the first ...
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Localization of B and T cell

What does localization of B-Cell mean?? "Localization of B and T cell in allergens may not coincide". What does this statement mean? (I have not studied biology since last 8 years and now I am going ...
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Cloning using pET28a and Protein Expression in DH5alpha and BL21

Can someone please direct me to an e-resource or a book that will help a newbie like me learn in depth about Cloning using pET28a and Protein Expression in DH5alpha and BL21. Though I have done ...
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Can the activity of a specific gene in a cell artficially be increased?

While there are many gene regulation mechanisms from the cell itself, I was wondering whether it is possible to increase the gene activity in a living cell permanently (so that the protein that it ...
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A little help understanding DNA supercoiling

I am studying molecular biology from Lewin's Genes XII and got confused in the supercoiling topic. Since then I read from several other sources and so far understood the following. However, I can't ...
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32 views

Humic Acid and PCR

Quite a few papers claim humic acid is an inhibitor of PCR reactions. I understand this is true when working with soil microbes, but how does it qualify to be a PCR inhibitor in general (i.e when not ...
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Are there any known consequences of the right-handedness of the DNA double helix?

In this article it is suggested (without evidence) that the right-handedness of DNA may be the cause that "kick[s] off asymmetry in the early embryo [of snails]". On the one hand we know that ...
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Does the brain absorb heme and non-heme iron differently?

I know that for the brain to absorb iron, the iron must first pass through the blood brain barrier. Is this absorption different for heme and nonheme iron?
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Protein half-life regulating gene expression

Are there any instances in real life of protein half-life regulating gene expression? For example, in a cell, Gene A produces a starting population of protein P, after which the expression of the gene ...
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64 views

Testing the viscosity of honey?

I am carrying an experiment where I will be measuring the viscosity of honey using Zahn cup but I don't know what is the optimal and efficient size and the size of the opening to purchase if you can ...
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3answers
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Do proteins contain phosphorous? If its true then how alfred hershey and martha chase used the statement that proteins do not contain phosphorous?

I hv heard about phosphorus that it is a constituent of certain protein, although we know that no amino acids have phosphorus... and if its true then how Alfred hershey and Martha chase experiment got ...
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Design rules for DNA linkers

I want to use double stranded DNA linkers to physically bind two "things" together, by grafting ssDNA on each one of them and using DNA hybridization as the locking mechanism. I do not expect the ...
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Eukaryotic DNA polymerase in Leading and Lagging Strand

Different books say a different specifications on which eukaryotic DNA polymerase work in leading strand and which DNA polymerase work in lagging strand. TL,DR: Which one is reality? and if there ...
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What are the uses of Helical Wheel Projections in Structural Biology?

I have seen helical wheel projections used to illustrate amphipathic helices in proteins. Are there any other uses for these models?
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What is an acceptable qPCR efficiency when adjust using the Pfaffl equation?

I have efficiencies of 76% and 85%. THis is clearly below what is normally acceptable. But the pfaffl equation corrects this, doesnt it? However is it acceptable to publish this data?
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Markers of lung microvascular endothelial sub-populations and lung smooth muscles?

Can someone please help me with information where I can find a publication on the distribution of various markers on lung endothelial cell sub-populations and lung smooth muscle cells? Particularly ...
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Testing the affects of electro magnetic resonance on bacteria and viruses

I'm a student interested in testing the effects of electromagnetic resonance on bacteria and viruses (as a personal project). Specifically, if EMF induced resonance can be used to kill bacteria and ...
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Is there an evidence of structural biology study that megalarge protein synthesize functional large protein?

We know that many synthase proteins can produce particular metabolites i.e. ATP synthase or synthase in natural product biosynthesis. I was thinking if there is a structural biology research study or ...
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Does depolymerisation take place at the minus end of microtubule?

Wikipedia says that Dynamic instability refers to the coexistence of assembly and disassembly at the 'ends' of a microtubule. but Karp's Cell Biology, 7th edition says Dynamic instability is ...
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731 views

What is meant by “complexity of carbon sources”?

My biology book states "life on earth depends upon carbon based molecules, most of these food sources are also carbon based. Depending upon the complexity of these carbon sources, different ...
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What is 'noise'?

In both my psychology, biology and neuroscience classes, professors are constantly talking about 'noise'. For instance, our perception is limited due to 'sensory noise' in our neurons. I am utterly ...
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Is there any other sources of hydrogen carriers for the Electron Transport Chain other than the 3 main metabolic pathways?

I am learning about the 4 main metabolic pathways for cellular respiration. I learned that NADH and FADH2 hydrogen carriers are essential in the Electron Transport Chain, because they deposit their ...
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Recommend any Molecular lab LIMS (Laboratory Information Management System) [closed]

We are looking to develop or customize a LIMS for our molecular lab. Do you know of a LIMS that you've used in a molecular lab before, or one that could be used. Thanks for the help (Edit) Some of ...
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Problem with joining the gene of interest into the open plasmid when their lengths are not the same

Before the recombinant plasmid is obtained in recombinant DNA, the gene of interest is inserted into a linearized plasmid by DNA ligase. What happens if the length of the gene of interest is not the ...
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111 views

What causes the localization of myoglobin in turkey to regions of muscle tissue?

I've read that myoglobin localization is responsible for the darker colour of leg muscles in turkeys. Why does this localization occur in terms of any of cell biology, molecular biology, or ...
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67 views

Do plants take in the same amount of CO2 as they release?

There are many claims in the media that trees remove more carbon dioxide form the atmosphere than they release back into the atmosphere. By what chemical pathway can this occur? The law that matter is ...
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Are there any organisms that do not perform glycolysis (or anything similar)?

To clarify I know that there are alternative pathways similar to glycolysis, what I mean is are there any organisms that perform a different pathway that is radically different from glycolysis, but ...
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Insertion Confirmation Cloning Strategy

So I am in a bit of a time constraint. Essentially, I inserted a DNA fragment via molecular cloning which contains a unique RE site. I need to confirm whether my colony has or does not have the ...
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75 views

How can I improve efficiency of Ecoli transformation?

I am an intern in biology institute. I have a 17.3kbp plasmid need to transform to Ecoli. But I have tried many time but have no or very few colony on LB plate. I know large plasmid have less ...
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How can I get started in molecular biology? [closed]

I have a background in computer science and math and am interested in learning molecular / synthetic biology - what resources do people recommend?
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Does RNA polymerase move around DNA or does DNA rotate beneath the polymerase?

I'm thinking of the human genome specifically, but more general answers are welcome. As RNA polymerase moves along the DNA helix it follows a single strand. The two DNA strands are unwound locally ...
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How can you band wheat chromosomes using Giemsa dye?

I am working with wheat chromosomes and trying to stain the chromosomes. However, during staining with Giemsa dye chromosomes appear totally dark. I'm not sure why this might be. Anyone have any ideas?...
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How much of the genotype-phenotype map do we understand in HIV?

From what I understand, viruses have very small genomes relative to those of standard model organisms used in biological research. For example, according to Wikipedia, "the HIV genome contains nine ...
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What is the typical choice of the RAPD primer set?

Random Amplification of Polymorphic DNA (RAPD) is a widespread method to identify species or strains that are otherwise difficult to tell apart (microorganisms, tiny insects and the like). It includes ...
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Why there is no ELISA for SARS-CoV-2?

As far as I know, SARS-CoV-2 tests currently used worldwide are real-time RT-PCR. Why there is no ELISA for SARS-CoV-2? Compared to PCRs, ELISA is: Way cheaper; Way faster; Does not require trained ...
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Why are proteins considered Informational macromolecules?

I can understand somewhat why DNA and RNA are considered Informational macromolecules, because they contain genetic information. But why are proteins considered Informational macromolecules?
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Relationship of RNA-binding proteins to peptidyl-prolyl cis-trans isomerase [closed]

I am studying a Plasmodium gene, known to encode an RNA-binding protein. However a BLAST search brings up mainly peptidyl-prolyl cis-trans isomerases from other species. Why would this be so?
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packaging of influenza RNA segments

How can the influenza A virus package its 8 different RNA segments? Is there is a special mechanism to ensure each virus particle gets the eight different segments? I doubt it is done at random ...
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How to recalibrate qpCR reading when incorrect qty of solution is added during DNA elution step?

I have 20 viral DNA samples collected for 6 time points. The DNA content varies over time My DNA extraction protocol step suggests that in the last step of the protocol during elution I had 100uL of ...

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