What are the best programs and methods to computationally dock RNA onto proteins?

We have used DOT to dock DNA to proteins but increasingly need to examine computational models for RNA docking onto proteins. Would appreciate advice and examples where this has proven successful.

10 November 2019 7,823 4 View

What is the best way to make antibodies against DNA and DNA-RNA hybrids?

We are examining structures of non-B-DNA such as DNA or DNA-RNA G quadruplex and would like to test if these occur in cells using antibodies. I know some G guadruplex antobides exist but we are...

08 September 2018 6,384 7 View

What are rigorous assays to measure the impact of a given enzyme and its inctivation on mutation rates, patterns, and signatures?

I am intersted in measuring the impact of specific enzymes and their inactivating mutations on genome instability and on the mutation burden in human cells and cancers. I want experiment ways to...

06 July 2018 2,257 0 View

Are scientific meetings a net expense that should be limited or do they save research time and money?

Many institutions are limiting travel and meeting attendance with the idea of saving money. Yet, I think meetings always save research money for me. I find that when I attend meetings the...

10 November 2017 2,132 4 View

Given the issues with journal impact factors, would it be helpful to have some type of author-based metrics or impact factors or not?

Since the use of journal impact factors as frequently used to evaluate researh quality has been criticised for many reaons, might it be useful to devise mertics based upon a given author's impact....

11 December 2016 1,925 3 View

'What methods have you found to be effective for increasing your lab's productivity?

07 August 2016 6,071 2 View

What are the best ways to cross-link proteins to DNA?

07 August 2016 1,452 2 View

How can we best teach students to answer questions where they have not learned the answer?

We largely teach students and then ask them questions that we taught them how to answer. In science and many other areas of life, one wishes to address and answer questions where you have not...

06 July 2016 6,509 2 View

What do you see as the major contributions that will come from cry-electron miscopy in the next decade?

11 December 2015 8,615 0 View

What are good ways to efficiently measure methane binding?

We are working on enzyme engineering to convert methane to alcohols. As part of this process we wish to measure methane binding to various enzymes and would benefit from suggestions as to what has...

31 December 2014 9,321 4 View

Can linear DNA be used as template for site-directed mutagenesis?

Is it possible to induce site-directed substitution mutation by quick-change method on linear dsDNA? or it has to be cloned in some vector? If yes, should it be treated with the Dpn1 enzyme...

03 March 2021 401 4 View

Is There Any Feasible Method To Test Fluorescent Compounds Other Than Fluorescence Spectrometers ??

Is There Any Feasible Method To Test The Efficiency Of Fluorescent Compounds Other Than UV Spectrometers ? Suggestions Would Be Appreciated !

02 March 2021 5,785 3 View

Joint behaviour in Abaqus is not captured well?

I am working on roof joint and trying to simulate the behaviour in Abaqus. I am successful in running the model but the final graph does not follow the experimental curve in the negative direction...

01 March 2021 6,661 3 View

How to accurately quantify chitin?

Hi all, I have been working on the quantification of chitin in insect samples and feed for a while but I can notice that the quantification methods (e.g. exposure to HCl, NaOH, and weighing sample...

01 March 2021 1,843 2 View

Can someone suggest a way to prepare slides to observe under confocal microscope for observing fluorescent tagged proteins??

I am growing the cells on coverslips and transfecting the fluorescent tagged protein directly on them. Then i want to observe these cells under confocal microscope. Currently i am just using...

01 March 2021 6,142 3 View

Why does intensity drops as concentration increases?

Is there any reason for decrease in fluorescence emission intensity of HSA,BSA when increase the concentration ?

28 February 2021 3,653 4 View

How to modify Johnson cook equation in ABAQUS?

I wanted to add an extra parameter to the existing Johnson cook equation in the ABAQUS simulation. How to add those extra parameters. Ref: A modified Johnson-Cook material model with strain...

28 February 2021 4,841 3 View

How to find the right number of integration points in second order 3d finite elements?

I am familiar with finite element simulations and numerical schemes like the Gauss Legendre quadrature. I also know that the Gauss integration yields exact values for polynomials up to degree 2n-1...

27 February 2021 6,818 3 View

What could be the reason for not having further low chi square value (better agreement) in my refinement result?

I have tried every combination of parameter changes and after that i have a poor chi square value. I can't get it lower any further. I know there have been a lot of discussion about Rietveld...

26 February 2021 8,480 3 View

Quantifying leaking DNA from bacteria - what's the secret?

Hi, all! I need to determine if my treatment causes membrane damage in bacteria (S. aureus and E. cloacae), but I cannot use a fluorescent probe such as PI and similar ones because my compound is...

24 February 2021 2,006 2 View