How do I distinguish between released bacterial membrane vesicles and those formed from the cell debris?

An interesting point was raised during MV discussion. We do know that bacteria produce membrane vesicles which can be isolated from the supernatant by ultracentrifugation and gradient...

03 April 2015 9,113 10 View

How can I prepare Western blot samples from vesicles?

11 December 2014 7,811 2 View

How can I analyse qPCR data with different efficiencies?

10 November 2014 7,205 9 View

Are bacterial cells fixed in 4 % PFA still alive?

I'm going to view localization of certain fluorescent protein in Enterococuccus. As they tend to form chains, and for analysis I need to use single cells images, I wonder if I can fix in first...

01 February 2014 3,849 2 View

Automatic threshold for qPCR analysis?

Do we need to adjust threshold to certain value or select specific one and use it throughout the experiments? Such as if we compare two samples treated/untreated we set same threshold (will it be...

31 December 2013 1,319 5 View

Will primer optimization help with qPCR amplification in negative control after Ct30?

I'm optimizing assay: 7 genes, efficiency 93-103%. For 3 of these genes I have consistent amplification in Negative (NFW) control. I'm using SYBR, so it might be due to dimers formation? When...

11 December 2013 5,020 5 View

Can I use both gyrase A subunit and gyrase B subunit as housekeeping genes for qPCR?

For downstream analysis in gene expression, it is recommended to have at least 2-3 housekeeping genes. May I use gyrA and gyrB as well as a third gene, or as they encode for same enzyme but...

11 December 2013 6,728 2 View

2-Steps RT-PCR, cDNA concentration and quality

If I do cDNA synthesis with SuperscriptIII using 2 mg of total RNA in 20 ul reaction, do I need to quantify cDNA by nanodrop and optimize concentration for RT-PCR, or can I just use 0.5 ul of cDNA...

10 November 2013 181 9 View

MD MOE RMSD

How to calculate the RMSD values for a MD simulation using MOE?

07 August 2021 0 0 View

MD MOE RMSD

How to calculate the RMSD values for a MD simulation using MOE?

07 August 2021 0 0 View

fatal error

When I tried to energy minimization my system, I got fatal error as below. Fatal error: Atomtype opls_116 not found Although I've already added this line: ; include water #include "oplsaa.ff/spc.itp" to [molecultype] directive in my topology.

16 June 2021 0 0 View

fatal error

When I tried to energy minimization my system, I got fatal error as below. Fatal error: Atomtype opls_116 not found Although I've already added this line: ; include water #include "oplsaa.ff/spc.itp" to [molecultype] directive in my topology.

16 June 2021 0 0 View

fatal error

When I tried to energy minimization my system, I got fatal error as below. Fatal error: Atomtype opls_116 not found Although I've already added this line: ; include water #include "oplsaa.ff/spc.itp" to [molecultype] directive in my topology.

16 June 2021 0 0 View

fatal error

When I tried to energy minimization my system, I got fatal error as below. Fatal error: Atomtype opls_116 not found Although I've already added this line: ; include water #include "oplsaa.ff/spc.itp" to [molecultype] directive in my topology.

16 June 2021 0 0 View

What kind of fluid could I use for a pitfall trap that also does not invalidate molecular testing?

Hi, I want to start testing pitfall trap to obtain ants samples, but I need to conduct molecular analysis on those insects. So, what kind of fluid can I use? Ethanol expires too early and I need...

03 March 2021 5,978 5 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

How do I increase the yield of my PCR product?

Hello, We would like to increase the yield of our PCR product. We are running a series of PCR reactions that is targeting ~1.1kb sequence. We begin each reaction with ~400pg of template DNA...

02 March 2021 4,029 3 View

How to normalise data on OPM package from R Studio ?

Good afternoon, I recently used OmniLog from BIOLOG for my experimentations : I tested the metabolism of different strains on 2 types of plates. I have 16 strains of 3 different groups...

02 March 2021 3,584 1 View