11
votes
0answers
151 views

paralogue genes in genome-wide association studies?

Has anybody tested if paralogous genes are over-represented among the genes identified by genome-wide association studies (GWAS)? For example, if a GWAS study finds 200 genes associated to the ...
10
votes
0answers
125 views

How reversible is DAT upregulation from long-term ADHD medication use?

A mechanism for ADHD stimulant medication tolerance has now been found. See http://neurosciencenews.com/adhd-medication-patient-brains-adapt-dat/. Here's the thing though: what exactly is the ...
7
votes
0answers
71 views

Using the IMGT/GENE-DB service to find RSS

I'm trying to get the data for the Human and Mouse 12 and 23 Recomination Signal Sequences (RSS), to run a classification algorithm on it. I'm not a biologist, so I apologise in advance for my ...
7
votes
0answers
86 views

Pancretic Acinar Cell - ATP, calcium concentration data

I need to find a decent source of data for concentration of ATP and calcium in the pancreatic acinar cell. So far all I can find is ATP or calcium 'levels' based on fluorescence , which are not ...
6
votes
0answers
60 views

How does Sodium Valproate cause neural plasticity

I have been reading a fascinating paper: Valproate reopens critical-period learning of absolute pitch 18 individuals were given Sodium Valproate (VPA) for a fortnight during which they trained on a ...
6
votes
0answers
74 views

Neuroendocrinal mechanism of parturition

My book reads, "The fetus signals that it is mature by secreting certain hormones that diffuse across the placenta into mother's blood and cause the secretion of oxytocin from her posterior ...
6
votes
0answers
140 views

What is the fastest way to build an alanine scanning library?

For interfacial studies, I would like to build an alanine scanning library for one of my proteins examining 20 sites. I will ultimately express the gene using E.coli cell-free protein synthesis. I ...
5
votes
0answers
47 views

When did CRISPR/Cas9 evolve and what is the likelihood that a superior system for live cell genome editing has already evolved on earth since then?

I've read that CRISPR/Cas9 is currently being implemented and tested for its ability to edit genomes in live cells, and that it is supplanting other genome editing tools in labs, such as TALENs and ...
5
votes
0answers
76 views

Help Needed Identifying Corvids

I'd appreciate some help identifying these three corvids I photographed in Austria during the Summer: I know identifying corvids can be difficult, I'm not an ornithologist, just an amateur bird ...
5
votes
0answers
134 views

Cytoplasmic determinants - protostomes and deuterostomes

Cytoplasmic determinants are spread unevenly in the egg, and so when embryo starts forming (cells start dividing), the determinants are also unequally divided between cell. This unequal distribution ...
5
votes
0answers
231 views

Reason for seeing grid-like patterns when strobing a solid black-white image?

I was trying to do some stimulation for SSVEPs by strobing a solid black square and a solid white square. Weird thing was, I ended up seeing weird grid like patterns that looked like this, always of ...
5
votes
0answers
87 views

Do mammals develop tolerance to anticholinergics?

I know that first generation H1 antagonists, commonly known as antihistamines have anticholinergic effects. Their sedative side effects go away due to tolerance, but as for their anticholinergic side ...
5
votes
0answers
109 views

What temperature should mammalian B-Cells be stored at outside of the incubator?

I'm working with murine B-cells. The general protocol is to keep cells on ice to keep them from dying but I've noticed that it makes these cells aggregate and precipitate out. I've heard suggestions ...
5
votes
0answers
56 views

Providing small molecules to cells on a filter plate

Lets imagine that I have mammalian cells that I've immobilized on a filter. Now I want to keep providing small molecules to these immobilized cells without resolubilizing the cells. The caveat is ...
4
votes
0answers
33 views

Can microdialysis be made in Drosophila melanogaster?

I've asked this before in stack overflow's cognitive science community, and someone recommended me to ask here: I've found a couple of studies using microdialysis on insects, but didn't found any in ...
4
votes
0answers
28 views

Why are recombination rates increasing in mammals?

I have recently become fascinated with an awesome topic in biology and evolution that I feel is rarely covered in biology courses. That is, rates of meiotic recombination, or the the amount that an ...
4
votes
0answers
22 views

How does MSMA kill crabgrass with only minimal damage to lawn grasses?

I use MSMA (Monosodium methyl arsenate) to kill crabgrass in lawns. I am not certain of the mode of action. How does this chemical work? How does it target the annual grassy weeds, without damaging ...
4
votes
0answers
22 views

Why doesn't Clopyralid damage cool season lawn grasses?

I use Clopyralid (3,6-dichloro-2-pyridinecarboxilic acid) to kill broad leaved weeds in lawns. From my understanding, it works by mimicking an auxin which affects plant growth. Naturally this pulls ...
4
votes
0answers
36 views

How does the frequency of a visual stimulus affect the steady-state visually evoked potential?

I want to make a project for EEG signal processing, and in my research I found the concept of SSVEP, which means that if you have a stimulus with low frequency applied to the eye, the electrical ...
4
votes
0answers
100 views

Comment on the introduction to a bioinformatics paper

I've written a paper about DNA sequence analysis. This paper attempts to use Bayesian modelling for a set of DNA sequences. It will probably end up either in a statistics journal, or, more likely, in ...
4
votes
0answers
46 views

Are there specific features of birds that cats/small predators are attracted to?

I've recently heard a podcast, in which a professor describes one of the theories as to why we like abstract art. In his talk, he mentions an experiment with seagull chicks, in which the seagull ...
4
votes
0answers
65 views

Effective population size and overlapping generations

From this book: If generations overlap, then the effective population size $N_e$ does not equal the population size $N$. I know mathematical formulations in order to find the effective population ...
4
votes
0answers
36 views

Linkage disequilibrium with $n_l$ loci $n_a$ alleles

Linkage disequilibrium $\left(D\right)$ for two bi-allelic loci is defined as: $$D=X_{11}X_{22} - X_{12}X_{21}$$ , where $X_{11}$, $X_{12}$, $X_{21}$, X$_{22}$ are the frequencies of the haplotypes ...
4
votes
0answers
120 views

How many loci explain 50%, 80%, 99%, … of the total genetic variance in fitness?

Standard models in population genetics look up at the evolution of few loci which impact fitness. The variance in fitness is determined by the genetic variance and the environmental variance (and the ...
4
votes
0answers
63 views

Counterintuitive action of Vitamin D?

Vitamin D acts in a way which to me is counterintuitive. It functionally supplemets Parathormone. It in the intestinal tract steps up calcium absorption by altering nuclear gene expression and also ...
4
votes
0answers
157 views

Statistical Coupling Analysis (SCA) to identify coevolved residues: use of ICA

We've begun to try out the SCA Matlab toolbox (latest version) downloaded from Dr. Rama Ranganathan's website, and, following the included tutorials, would like to apply it to our protein family. The ...
4
votes
0answers
64 views

Does Lucid Dreaming decrease the regenerative effect of sleep?

After watching this SciShow video on sleep, I wonder about lucid dreaming. Specifically: Does lucid dreaming and associated directed agency within Lucid Dreaming decrease the regenerative effect of ...
4
votes
0answers
47 views

Reformulation of Hamiton's rule

Who (and in which article) was the first to reformulate Hamilton's rule using the letters $B$ and $C$?. See below comments on this reformulation. Hamilton, in his 1964's article gave a mathematical ...
4
votes
0answers
65 views

At which step apply a detection filter when preprocessing microarray data? (Before/After normalization, batch effects removal)

I am trying to understand what is the best practice when preprocessing microarray data using a detection filter (on scanner p-value). Suppose I have a microarray dataset that I have to normalize with ...
4
votes
0answers
135 views

Genetic expression in interspecific hybrids

Referring to interspecific hybrids, I have the following two questions:- Quoting from wikipedia:- The offspring of an interspecific cross are very often sterile; thus, hybrid sterility ...
4
votes
0answers
46 views

Does DHA increase the effects of clarithromycin?

I've read on this publication that every drug that induces CYP3A can reduce the effectiveness of clarithromycin. Clarithromycin inhibits CYP3A. But it does not say anything about the opposite ...
4
votes
0answers
30 views

Are there any online resources one can use to access raw clinical trial data without having to contact those involved in the study?

I want to do some statistical analysis and I have a preference for real data so I was wondering if there's somewhere I can get such data for free without a heap of bother in phoning other those ...
4
votes
0answers
54 views

How significant is RNA degradation with removal of cap/polyA's in eukaryotes, or UTR's in prokaryotes?

Question is rather self-explanatory, but segmented into two parts. I'm attempting to make use of a repression system that employs cleaving RNA at specific areas with ribozymes with the intent of ...
4
votes
0answers
78 views

Model for fluctuating selection

Is there any mathematical model to predict the behaviour and long-term consequence of counter-acting selection at different time scale? For example, let's consider the bi-allelic gene $A$, with ...
4
votes
0answers
36 views

How to search for organisms by criteria such as growth substrate and overflow metabolites?

I'm looking for a database or a systematic way to search for organisms which meet certain criteria. My criteria descending importance are: growth substrate chemolithoautotrophy (on which substrate) ...
4
votes
0answers
42 views

Honeybee decision process: new food, new home, new threat

I have heard that honeybees send out scouts, then based on the scout reports more bees go then come back and report and so they are supposed to be efficient decision makers. Can you give as complete ...
4
votes
0answers
52 views

Does preservation in ethanol alter leaf litter mass?

I have benthic samples that were collected with an Ekman dredge from some small ponds. The samples contain quite a bit of coarse particulate organic matter (CPOM, basically dead leaves). I would ...
4
votes
0answers
76 views

What controls leaf senescence in deciduous tree species, and how can I predict it?

If I want to predict litterfall, what data do I need to collect, and what statistical model might I use? For example, I might use the following coding to record phenological stage every other day, or ...
4
votes
0answers
63 views

What is the frequency of double-hets between parent and child?

Say both parent and child are genotyped for all SNPs. In this setup we are only looking at variant positions between one parent and child - so neither parent nor child are homozygous reference (no ...
4
votes
0answers
170 views

How do the pharmacodynamics of the NSAIDs differ and are there “resistant” COX phenotypes?

I know that the non-steroidal anti-inflammatory drugs (e.g., aspirin, ibuprofen, naproxen) affect the enzymes cyclooxygenase (types I and II). Is there any difference in the degree to which these ...
4
votes
0answers
52 views

Does a mydriatic drug neutralize the action of a miotic?

If a person were administered a mydriatic, would the subsequent application of a miotic neutralize the action of the former? If the sequence were reversed would a mydriatic neutralize the effect of a ...
4
votes
0answers
67 views

effect of background selection on promoter regions compared to distant enhancers?

Has anyone looked at the effect of background selection on the levels of conservation of promoter regions compared to distant enhancers? Do promoter regions have a higher conservation due to ...
4
votes
0answers
49 views

Do you know of any disease where HLA / MHC association discovery has led to better treatment or management?

If we discover an association between a disease and a particular HLA type (MHC class I or class II molecule) then it may provide us with some insight into the disease in a very basic way. However, ...
4
votes
0answers
97 views

Dimensionless number for blood volume

Comments from the question How is the blood volume of a living organism measured without killing it? by @Nico discussed that the time of blood recirculation scales with the size of the organism. I was ...
4
votes
0answers
75 views

What is the distance between the 3' 18s rRNA (the Kozak consensus sequence) and the A-site of eukaryotic ribosomes during protein translation?

Reposted from Quora http://www.quora.com/What-is-the-distance-between-the-3-18s-rRNA-the-Kozak-consensus-sequence-and-the-A-site-of-eukaryotic-ribosomes-during-protein-translation The Kozak sequence ...
4
votes
0answers
37 views

RHEB senses amino acids in order to recruit mTOR. Do we know if RHEB is more sensitive to some amino acids (like methionine) than other amino acids?

See http://www.ncbi.nlm.nih.gov/pubmed/21157483 for the full paper describing the process of how RHEB recruits mTOR. We also discussed this in Matt Kaeberlein's class yesterday and I posed this ...
4
votes
0answers
42 views

Serological assays not detecting native proteins

Is there anyone out there who has done much work with serological assays? We have antiserum for a manufactured viral protein but no luck so far getting it to detect native protein (unless today's ...
4
votes
0answers
106 views

If D1 receptors stimulate adenylate cyclase (through GPCRs) and D2 receptors inhibit it, then why do mutations in both have similar effects?

D1 and D2 both refer to specific types of dopamine receptors. I'm sure it has something to do with the fact that the D1 receptors are in regions different from D2 receptors. I know that adenylate ...
3
votes
0answers
46 views

Hoechst red and blue spectra - what does the red emission tell us?

I understand that the blue spectrum is emitted when Hoechst 33342 binds to nuclear DNA. But what exactly is the red spectrum telling us? I read that the red spectrum can be indicative of apoptosis, ...
3
votes
0answers
32 views

Do I need to use the same WT C57BL individual for back-crossing or can I use a new one for each generation?

I've just received heterozygote C57BL mice from COMP and I need to start back-crossing them. I've read many colony management protocols, but couldn't understand if I need to use the same WT mouse for ...

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