How to set spring constant for umbrella sampling in GROMACS?

Hello everyone, I'm new to gromacs and also new to umbrella sampling, so I'm following Justin's tutorial http://www.mdtutorials.com/gmx/umbrella/index.html ; On the umbrella sampling stage, I'm...

20 February 2020 1,781 3 View

VMD selection (by position) isnt considering whole molecules?

Hi all, I've been trying to select a small water slab from my sistem (.pdb file containing a POPC bilayer in water) and moving it, but when I do it I notice some of the water molecules of the...

05 December 2019 4,159 4 View

Minimum distance between ITRs in AAV for efficient transgene expression?

I'm just trying to express a very small transgene by transfecting cells with a plasmid coding for the recombinant genome of AAV2. I have different constructs with different promoters, and there is...

17 July 2018 5,903 6 View

Hi, could anyone give me some advice to clean the glassware from the excess of polymer urea-formaldehyde ? Thanks

The cleaning of the glassware after the synthesis of PUF particles is very difficult and almost impossible to remove completely the polymer attached to the walls, neither with acids, neither NaOH...

14 May 2017 5,577 3 View

No title

Hi, Some weeks ago I sent some paraffin blocks and sections (mouse tissues from a very important experiment) to another lab and just today I was informed that the person who received the package...

03 January 2017 6,247 6 View

Comparison of goodness-of-fit measures between MPLUS and LISREL. Why does the value of CFI, using a CFA, vary from LISREL to MPLUS?

16 November 2015 2,137 5 View

Should we use a 5 or 7 point Likert scale? What's better and why?

As researchers do not agree with the appropriate number of point Likert scale (5, 7...?), I would like to know the main contributions or papers to support both options.

19 January 2015 9,253 42 View

Can anyone share a key for identification of species of Heliothinae moths using genitalia?

Helicoverpa zea , armigera, gelotopoeon, bractae..

15 January 2015 5,888 5 View

Does anyone have experience with blue transfer buffer?

I've been doing western blot the last two years and I have never had a problem like this. When the transference is finished, the transfer buffer has turned blue. It seems that the sample buffer...

27 January 2014 3,493 1 View

Enhanced Yellow Fluorescent Protein (Aequorea victoria) DNA sequence?

I am on the lookout for the Enhanced Yellow Fluorescent Protein (Aequorea victoria) DNA sequence. Does anyone know where I can find it? Thank you in advance

03 March 2021 3,568 1 View

I need to image mesoporous silica nanoparticles that are in ~100 nm size and do high resolution TEM to look at mesopores. what grids should I use?

Need to image mesoporous silica nanoparticles using the TEM. Also, need high resolution TEM images to see the mesoporous structure. Kindly suggest what kind of grids to use. Thanks, Shatadru

02 March 2021 1,787 2 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

New Journal, "Integrative Psychological and Behavioral Science" -- do you not know, and have you not seen, this done before?

Question to you and THEM, the New Journal, "Integrative Psychological and Behavioral Science" -- do you not know, and have you not seen, this done before? There appears to be a core problem for...

02 March 2021 3,024 2 View

Shall I skip the measurement model in SmartPLS?

Hello everyone, I had run a mediation model in SmartPLS using questionnaires that were already validated among my statistical population. A professor who edited my paper -though she is not...

01 March 2021 3,052 3 View

Could you please recommend some good journal that accept very long revie papers (approximately 6000+ words) in neurosurgery, cancer biology ?

Could you please recommend some good journal that accept very long revie papers (approximately 6000+ words) in neurosurgery, cancer biology ?

01 March 2021 8,087 3 View

Why might my GFP tag be dissociating from my plasmid after transfection?

I have a set of stably transfected cell lines all transfected with plasmids containing GFP tags on the C terminus. During a western blot using anti-GFP antibody, one of my plasmids has dissociated...

01 March 2021 9,310 4 View

Which fluorescent dye to use for measuring total ROS production?

Is DCFDA appropriate for measuring total ROS production, or can it only detect certain types of ROS? If I want to measure total ROS production, which dye should I use?

01 March 2021 9,447 3 View

Precipitate after adding laemmli buffer to protein solution containing Potassium Acetate?

Hi, I am running a size exclusion chromatography experiment with a buffer containing Potassium Acetate as a salt. I analyse these fractions through SDS-PAGE. After boiling my SEC fractions in...

01 March 2021 2,622 3 View

Is CD44 degraded in lysosome together with hyaluronan after CD44 mediated endocytosis of hyaluronic acid?

Also when RHAMM binds hyaluronic acid, they get internalized, will RHAMM also be degraded? Or both CD44 and RHAMM will be transferred back to the cell membrane? Asking for breast cancer cell line...

01 March 2021 8,169 2 View