Questions tagged [experimental-design]

Questions on how to plan an experiment to gain the best results. Also suitable for questions on why other researchers followed a certain procedure.

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Why are drug dosages so high in some mice studies?

On reading through some research on the effects of certain drugs I often come across staggeringly high dosages such as in this paper: Römer, B., Pfeiffer, N., Lewicka, S., Ben-Abdallah, N., Vogt, M. ...
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2 votes
0 answers
18 views

Vegetation density estimation from distance method: random sampling or along the grid?

I am planning to sample the tree regeneration (new ones and advance regeneration, > 2m). I am planning to use small circular points to estimate the counts per area (= density of young trees). I ...
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39 views

I am conducting an experiment with oil eating bacteria. However, I am struggling to find a method to check how much oil they cleaned?

I am experimenting to determine the optimum conditions for microbes to break down motor oil. The conditions I am going to test are different pH levels to resemble freshwater pH and saltwater pH. I ...
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0 votes
1 answer
35 views

Would it be possible to genetically modify a plant to produce usable antibodies? And if eaten would they be used?

I am thinking of a project where i would Gene edit a plants cells to produce anti bodies that humans could use. Does anyone know A. what genes to modify? B. Would the antibodies be usable after ...
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1 vote
1 answer
47 views

What is a (preferably) flying carnivorous insect that hunts adult fruit flies at a rate that doesn't threaten extinction?

I am forming an experiment, where I will be forcing evolution on Fruit Flies (Thanks rogue ant) The experiment goes a bit like this; I will be forming an ecosystem where every abiotic factor is ...
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1 vote
1 answer
40 views

What insect/invertebrate species evolves fastest?

I am starting an experiment in which I will be forcing evolution in a moderately complex species of insect or invertebrate. I am prepared for the possible longevity of this experiment, but i have no ...
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1 vote
1 answer
241 views

how to extract garlic fructan?

can anyone tell me a not complicated way to extract fructans from garlic (i have access to highschool lab). I need this to be able to make an experiment on garlic extract and just fructan from garlic ...
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0 answers
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Is there a way to use presence-absence data to inform a sampling design for a more specific survey?

I am currently in the process of designing a spatial survey to assess the abundance/density of woody debris across an ecosystem with multiple defined habitats (i.e. I am interested in not only the ...
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1 vote
2 answers
83 views

Ensuring all individuals are genetically identical before experiments

I am a beginner in experiment design so please correct me if I made any mistakes. If we want to study the behavioral changes after a particular mutation of a gene, it seems to be a must for all ...
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0 votes
1 answer
139 views

How do peroxisomes work?

I have this question from my book: A child is diagnosed with an enzyme deficiency that prevents the production of hydrogen peroxide. What would the likely outcome be of such deficiency? H2O2 is ...
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0 answers
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Relationship between BMI and age?

I'm trying to study how age as a confounder may affect the relationship between commute mode and BMI (and design a research proposal). To explain age as a potential confounder, I compared age to ...
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-1 votes
1 answer
29 views

Antimicrobial susceptibility testing

To learn the Kirby-Bauer method, I've been looking at youtube videos where a bacteria's susceptibility is tested. In this video, the researcher places the discs (containing antibiotics) right after ...
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0 votes
1 answer
50 views

Can I imbibe seeds before sterilization?

For an experiment I want to germinate lettuce seeds. For logistical reasons it would be convenient to imbibe the seeds by placing them in the cold for 2 days, afterwards I would sterilize the seeds ...
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2 votes
0 answers
13 views

Most optically transparent muscle phantom?

I am trying to use Schlieren imaging techniques to visualize how a sound wave propagates through muscle tissue. In the past, when needing to experiment with muscle we would use an agar based muscle ...
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0 votes
1 answer
64 views

What material is permeable for plant roots, but "impermeable" for fungi & bacteria?

I'm designing an experiment where the roots of the plant will grow in a sterile environment while the shoot will grow in a non-sterile grow room. For this reason the environments of the shoot and the ...
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2 votes
1 answer
98 views

Question in gel chromatography experiment

Here I am trying to do gel chromatography to separate vitamin B12 and Bovine Serum Albumin (BSA) in this experiment, I am using sephacryl s-100 HR gel column my question is can I use Phosphate ...
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0 answers
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Problem with epoxy silane (Random results in glass silanization). What are crucial points to look at?

I`m trying to immobilize an antibody onto the glass surface by means of GPTOMS (glycidoxypropyl trimetoxy silane). Using the same protocol (silanization in toluene or acidified ethanol (see below)) I ...
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2 votes
2 answers
80 views

How would one track a mineral nutrient in a plant in order to determine if the nutrient has been remobilized?

Before abscission, senescence of a plant’s structural components that contain mineral nutrients (E.g. Magnesium, Potassium...) are re-mobilized from the senescent tissue and used in other plant tissue ...
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3 votes
2 answers
59 views

Finding total concentration of enzymes

Sorry if my question is very basic for biology majors because I am not. I am trying to build a mathematical model of a particular pathway using systems of differential equations and in order to reduce ...
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0 votes
1 answer
84 views

Is there anyway from which we can measure the viscosity of honey using a refractometer?

Is it possible to use a refractometer to measure the viscosity of honey because as we know, a refractometer is used to measure moisture and therefore water influences the viscosity of honey so is ...
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2 votes
2 answers
64 views

Monitoring fish growth

I am new to experimental design and would like to perform the following experiment but I am not sure if my setup is correct or not so far. My idea is below. Let's say you want to optimise the growth ...
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4 votes
1 answer
84 views

Selection marker for a cytoplasmic vector that works at low expression levels?

I need to express a selection marker on a plasmid in human cells (e.g. HEK293). However, I am using a cytoplasmic vector derived from a non-human virus with its own mechanism for transcriptional ...
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0 votes
1 answer
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What slope do I need to prove a hypothesis? [closed]

I am conducting an experiment for school in which I am measuring people's heart rates as music plays at different tempos. My hypothesis is that as the tempo of the music increases, so will the subject'...
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0 answers
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Ideas for microbiology lab. Antimicrobial properties of cutting boards

I am an undergraduate student in Biology and I am trying to design a microbiology lab that will takes 3 weeks to carry out (1-2 day each week). I am going to examine the antimicrobial properties of ...
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3 votes
1 answer
49 views

Is there an adhesive that could used for larval fish?

I am currently working on an experimental design that requires a larval fish (~ 4mm long) to be affixed on a metal wire tip on its dorsal side. Now, I was thinking of a glue or adhesive to do the job, ...
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3 votes
2 answers
255 views

Will amylase inhibitors affect the colorigenic reaction between starch and iodine?

I'm doing an experiment for my IB bio EE involving colorimetry. I'm not experienced at all with colorimetry, so I'm having some trouble planning it. The experiment is on enzyme kinetics, and I'm ...
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0 votes
1 answer
82 views

Why didn't these scientists restore electrical activity in this pig's brain?

This experiment was published in Nature Magazine: Pig brains kept alive outside body for hours after death. The researchers used a system called BrainEx to revive certain metabolic and physiological ...
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Why don't materials and methods describe culture media in volume?

After reading several materials and methods sections of cell culture experiments, I have not seen the recipe for culture media ever described in terms of volume. Human adipose tissue was obtained ...
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0 votes
1 answer
30 views

Computational approaches for making hypotheses about the effects of genetic engineering? Experiment planning methods?

Let's assume that I am searching for gene editing candidates for curing human adiposis. Are there computational frameworks that can allow me to select the best candidate-genes for editing via some ...
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-1 votes
1 answer
87 views

How can I estimate the total number of yeast cell in a medium?

So I want to run an experiment with yeast. I want to monitor the population as close as possibly in regards to its size. I am aware I could use a colorimeter or such, but I can only get a microscope. ...
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1 vote
1 answer
95 views

What would "N" and "V" stand for in DNA barcoding?

I'm currently looking protocol for PAT-seq, and when it talks about the barcoding that's utilized, the documentation mentions there being an "N" and "NN" in the sequence, as well as a "V". For example:...
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1 vote
1 answer
2k views

How can I measure the population growth of yeast?

I will soon have to carry out an experiment. I want to estimate the rate of growth of a population of yeast, although I don't know if it is possible to at least estimate the number of yeast bacteria ...
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0 votes
1 answer
202 views

How does the OD correlate with the number of algae cells?

My research team and I are using a spectrometer to measure the OD of an algae sample. We are trying to answer the question "Is there a correlation between OD and the number of algae cells?" What ...
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10 votes
3 answers
2k views

Why did scientists think humans had 100,000 genes (before the Human Genome Project)?

One of the major results of the Human Genome Project (HGP) was that humans have far fewer separate genes than previously thought. From a 2004 article about the HGP: Francis S. Collins, director of ...
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-1 votes
1 answer
45 views

Are there situations where in vivo results work better than in vitro results would have shown?

Basically, if I have poor in vitro cell line results but decided to test them in vivo in a mouse anyway what are the possibilities of having better results in the in vivo live mouse model that I would ...
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1 vote
1 answer
27 views

What does $g_0$ mean for a centrifuge?

I'm about to make some Graphene Oxide and in the paper for Tour's Method it uses a centrifuge to isolate the solution. However it requires $319g_0$. What does this mean, and will a centrifuge with ...
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2 votes
1 answer
88 views

How can enzymes be immobilised on glass?

I’m studying a hypothetical model for urease activity, which involves fluorescence measurement, hence the need for an optical window to which the enzyme urease is immobilised. From my previous ...
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2 votes
1 answer
225 views

Is this experiment to check enzyme reaction rate according to substrate concentration correct?

We just had an experiment to check enzyme reaction rate according to it's substrate concentration. In the experiment, we used a varying amount of substrate and the same amount of enzyme: (1.5mm enz, ...
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3 votes
1 answer
671 views

How is the gradient in density gradient centrifugation made?

From the literature I read, I came to understand the following. Please correct me if wrong. In CsCl gradient centrifugation, the gradient is achieved by centrifuging the CsCl solution at high rpm, ...
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2 votes
2 answers
3k views

Growing bacterial culture on gelatin

I'm very new to experimental biology and don't know much about it. So, i was looking to grow some bacteria in petri dishes and looked up how to do it. Unfortunately, I'm finding it difficult to get my ...
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0 votes
0 answers
80 views

Electrical field stimulation of neurons: what are commonly used stimulation protocols and which are physiological?

I am doing a labproject with primary mouse nerve cultures (hippocampus and midbrain) and part of the experiments involve performing electrical field stimulation on these neurons. For now we have ...
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2 votes
1 answer
105 views

How does radiolabeling work?

Protein turnover can be measured by calculating the "decay" or loss of radio-labeled proteins in the blood, for example, but I am confused at how this calculation works. Wouldn't the radioactive ...
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2 votes
0 answers
70 views

Criticism of the significance of fMRI studies [closed]

On the german Wikipedia page on fMRI I read the following "There is some critisism of the basic assumptions and possible insights gained from fMRI studies which is based on a constructive ...
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1 vote
1 answer
58 views

How are fMRI responses to auditory stimuli measured?

How can fMRI experiments be conducted which measure the response to auditory stimuli (e.g. music) when the apparatus makes such loud, nasty, and distracting noises? Are there quieter MRI tomographs in ...
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0 votes
1 answer
60 views

Is my RNA-seq experimental design correct to use it for SNP calling?

I am a newbie here and would highly appreciate your advice about one particular experimental design. We have data from RNAseq experiment which was originally designed to assess differential ...
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4 votes
2 answers
2k views

Measuring the Rate of Photosynthesis

Update: I have just received a grant to pursue this research. However, I must still perform the preliminary experiment described below before dipping into my very limited funds. Thank you for any ...
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4 votes
1 answer
552 views

Quantifying DNA in a band on gel electrophoresis

I am a first year science undergraduate and I am just asking this as a more theoretical question rather than for carrying out a protocol, so I would appreciate if answers do not involve lots of ...
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1 vote
0 answers
34 views

Does vegetable oil allow methane to pass through? [closed]

I'm doing an experiment investigating how temperature affects the rate of methanogenesis. I'm using a peat sample that will be kept in a conical flask connected to a gas syringe with a layer of Janus ...
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1 vote
1 answer
313 views

What is sequential passaging?

I have read a journal that describes sequential passaging with the purpose of measuring resistance development in bacteria. I would like to know more about how the method works ie. what does "passage" ...
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3 votes
1 answer
99 views

Webtool to design guide RNA (gRNA) for use with CRISPR-AsCpf1?

My goals are to use a free webtool to: Identify guide RNAs (direct-repeat sequence followed by the targeting sequence) appropriate for use with AsCpf1 in order to target a specific segment of genomic ...
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