The scientific study of the structure and function of genes at the molecular level, particularly chromosomes and DNA.

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Growing E. coli at room temperature?

If I were to do a blue/white selection of transformed E. coli on LB agar ampicillin plates at room temperature (23⁰C) for about 2 days and 18 hours, will I run into the issue of satellite colonies or ...
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28 views

G>T transversion VS. T>G transversion?

So I'm reading about how mutations in DNA can be caused by oxidative damage. An example of a product of oxidative damage is given: 8-oxo-7-hydrodeoxyguanosine My textbook says that this product ...
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20 views

Can cfDNA testing distinguish results in the case of twins?

A fetus can now be screened for some of the more common genetic diseases and its sex determined from just a whole blood sample from the pregnant mother. Fetal DNA is abundant enough in the systemic ...
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99 views

Comparative cost of RNA-seq vs sequencing full length cDNAs

I am in the process of assembling and annotating the genome of a non-model organism, using almost exclusively short read (paired-end Illumina) data. Throughput is one obvious benefit of these data ...
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23 views

Gibson assembly - primer design with A and T rich regions

I have question about Gibson assembly. I have done it several times and it always worked okay for us, but now I want to assemble together a fragment which has sequence like this: ...
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72 views

At what rate do chromosomal rearrangements occur?

How often does chromosomal rearrangements occur? i.e. what is the rate of chromosomal rearrangements? I am interested about these kind of chromosomal rearrangements that are passed on to the ...
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46 views

Inbreeding Coefficient and Coefficient of Relationship

Wikipedia gives the following formula to calculate a "path of coefficient of relationship" between an ancestor $A$ and an offspring $O$: $$\rho_{AO} = 2^{-n} \left( \frac{1+f_A}{1+f_O} \right)^{1/2} ...
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25 views

Is it reasonable to assume that RNA polymerase would bind preferentially to the promoter of the long allele of the SERT gene?

I'm trying to come up with an idea for a school project (a hypothetical research study). I'm looking at depression and the serotonin transporter gene, which is highly expressed in the human ...
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41 views

Embryo activity during seed dormancy?

What metabolic processes does a dormant embryo in a seed carry out? The newly produced seed will not germinate, either because of a lack of favourable conditions, seed hibernation, or because of a ...
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141 views

What tests can be performed to test the purity and quality of the raw peptide HCG (Human Chorionic Gonadotropin)

What tests could be run to test the purity and type of HCG? We are looking to purchase HCG from China but the purity and quality varies between labs, we are able to receive samples of the raw peptide ...
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171 views

Can Pfx polymerase add only one 3' A overhang?

I am trying to clone a PCR product that was amplified using Pfx polymerase into pGemT vector. I had to A-tail the PCR product using Taq polymerase since Pfx only generates blunt end products. My ...
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35 views

Loss in DNA band size extracted from polyacrylamide gel

I'm using cDNA AFLP teq.. I extracted 670 bp band from polyacrylamide (urea) gel and I have amplified with PCR but on agarose gel it stops at nearly 350 bp.it happened for most of other bands before. ...
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Question about mutation of multiple nuclei?

If an organism with multiple nuclei, such as the slime mold Physarum polycephalum, was to be exposed to a mutagen, such as 5-bromouracil, what would be the effect (besides death)? Especially if ...
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22 views

Linkage disequilibrium D sign

Linkage disequilibrium D equals D=x11−p1⋅q1 where: Haplotype > Frequency A1B1 > x11 A1B2 > x12 A2B1 > x21 A2B2 > x22 and Allele Frequency A1 > ...
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38 views

Assembling DNA fragments with ~10kb overlap in vitro

Let's say I have two fragments of bacterial DNA (~50kb in length each) that overlap on the ends by roughly ~10kb; the overlap sequences are unknown. I would like to assemble these into longer ...
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35 views

Study case of the inheritance system of Oenothera

I've been told some interesting facts about oenothera. Apparently in this species some lineages have been through some translocations and in results to these translocations and in consequence, some ...
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35 views

Transduction with P1 lysate prepared from strain that is proC::Tn10

If I do a transduction with a P1 lysate prepared from a strain that is pro*C*::Tn10 and the recipient is wild type, will all my recombinants be ProC- and Tet resistant since the Tn10 is in the proC ...
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23 views

What log transformation and normalization functions are most commonly used for microarray and how to select them?

Need help on rational approach to choosing log transformation, standartization and normalization functions in microarray experiments. I am using Expander software and it provides Log2 transform and ...
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11 views

What genetic distance model should be used when calculating genetic differences in Arelquin?

I'm using Arelquin to look at the genetic structure between a number of different populations. I want to compare the populations by producing pairwise FST values, however I don't know what model for ...