How to calculate concentration in nM from ng/ul qubit concentration and size base pairs after bioanalyser results in ChiP sequencing?

More Manjul Rana's questions See All

How to do pca analysis of c-alpha atom of the protein?

i m interested in pca analysis of c-alpha atoms in gromacs for that i used the following gmx_mpi covar -s mdca.tpr -f mdca.xtc -o eigenvalca.xvg -v eigenvecca.trr -av average.pdb -n index.ndx but...

30 July 2024 1,607 1 View

Getting this error : gmx_mpi': corrupted size vs. prev_size: 0x0000000001d1b320 ***?

i am using the trjconv command in gromacs gmx_mpi -debug trjconv -s md.gro -f md.xtc -o utr.xtc -fit rot+trans and after few steps i got the error gmx_mpi': corrupted size vs. prev_size:...

17 July 2024 6,216 1 View

How i figuer out the weight of curcumin powder?

I am trying to load curcumin emulsion in 4% chitosan gel but i don not know how many mg powder is needed ?

10 July 2024 2,462 1 View

Any suggestions to enhance the wettability and adhesion of fluorosilanes?

I am facing a difficulty to prepare the thin film which contains fluorine contained silica monomer, as we know F is highly reactive with low surface energy and it could be the reason of low...

09 July 2024 6,017 3 View

Why is the mouse intestinal organoid not forming ?

I am isolating the crypt from mouse small intestine the following several modification of EDTA concentration, 3mM (30 min), 5mM (30 min), 20mM (25 min) at 4 degree. For all the EDTA...

09 May 2024 9,005 2 View

What correction is used when 95%aCI is overlap ?

How we make 95% CI (lower and upper) far, when overlap in analysis, whether we can use effect size to make difference in lower and upper interval

03 May 2024 1,846 2 View

Is Pluriselect a good company to buy kits for cell separation?

I am recently buying kits from Pluriselect to take out (deplete) NK cells and CD4 cells from blood. The main reason me using this is cheap and do not require accessory equipment. But in Pubmed...

02 May 2024 5,861 1 View

WARNING: FENE bond too long: 1 7 8 32968539.141547877 (src/MOLECULE/bond_fene.cpp:83) ERROR on proc 0: Bad FENE bond (src/MOLECULE/bond_fene.cpp:85)?

# Polymer chain simulation with FENE and LJ potential in NVT ensemble # Initialization units lj # Use LJ units atom_style bond # Atoms and bonds boundary p p...

16 April 2024 5,828 0 View

Bond broken in fene potential?

i simulating a single chain polymer with 10 particle with fene and lj but if i increase the no of particle my bonds are being broken . im using parameters as below 20 50000.0 0.1 1000.0 1.0...

15 April 2024 2,748 0 View

How to calculate the center of mass coordinate of the protein in gromacs?

i want to find center of mass coordinate of the protein,for that i using the following command gmx_mpi traj -f md_noPBC.xtc -s md.tpr -com -ox com.xvg -pbc but i m not getting satisfactory...

04 March 2024 814 4 View

Can I base on reverse DNA sequences to perform alignment, convert to amino acids and GenBank submission?

I have reverse sequences (AB1 format), can I base on reverse DNA sequences to perform nucleotide alignment, convert nucleotides to amino acids and deposit the sequence in GenBank database?

11 August 2024 5,138 1 View

How to confirm the site-directed mutagenesis result without performing NGS?

I'm cloning a fragment of 3200 nts into plasmid. The cloning was successful, however, 02 amino acids were mutated. Now I want to fix these 02 aa by site-directed mutagenesis technique using...

08 August 2024 4,645 2 View

I can't see the ssDNA band after performing asymmetric PCR. Is there any way to do this?

After performing symmetric PCR, PCR purification was performed. Afterwards, asymmetric PCR was performed using the PCR purification product as a template, but no ssDNA band was confirmed in the...

08 August 2024 1,668 3 View

Does crude extraction using NaOH and Tris work well with Fungi?

I'm trying to find a DNA extraction method for fungi that does not require equipment and heating. Is there anyone who can suggest an alternative option? Thank you

08 August 2024 4,733 2 View

Separation of organic acids-HPLC?

Hello What should be done to separate and identify organic acids in HPC when their RetTime is the same?Like oxalic acid with Propanoic Acid.or acids that have a very close RetTime.

07 August 2024 8,782 3 View

How much total RNA concentration to be extracted from sorted plasma cells from bone marrow of C57BL/6 mice for RT-PCR ?

i have sorted anti-NP specific plasma cells from bone marrow of C57BL/6 mice at certain times after immunization with variable counts and isolated total RNA using TRIZOL method for RT-PCR using...

05 August 2024 8,835 1 View

The aqueous fraction of the hydroethanolic extract is showing the presence of palmitic acid. What is the mechanism responsible ?

Palmitic acid presence in aqueous fraction

05 August 2024 8,624 4 View

Why after performing site directed mutagenesis ,I don't see any colony after transformation?

I want to introduce a point mutation (change in one nucleotide) into my gene of interest (DNA binding domain) I have designed primers as recommended on the Data sheet of the kit : -Both primers...

05 August 2024 9,059 3 View

Do you have good tips for seaweed tissue preservation in the field for post RNA extraction?

I will be with my students collecting seaweed samples in a marine farm and later we will process this tissue for RNA isolation and further sequencing. Does anyone have tips on how to collect the...

04 August 2024 501 2 View

How to isolate lymphocytes from mouse spleen?

I have tried several times to isolate lymphocytes from mouse spleen, but all attempts have been unsuccessful. I tried most available protocols. I used different dissociation media (HBSS with Ca...

04 August 2024 9,913 7 View

Jochen Wilhelm

You can assume an average molar mass of 660 g per bp.

Manjul Rana

Thanks

Alaa Youssef Farag

@jochen did you mean that we divide the conc (ng/ul) per 660 ? Or should we consider also the no. of base pairs of the plasmid?

I am sorry but I am very confused.

If my linearized plasmid (7350bp) concentration is 100ng/ul, so the equation is like the following;

(100÷ (660* 7350) )* 10^6 = conc.(nM) ?

Is that right?

You don't just divide by 660. You divide by 660 g/mol bp. Mind the unit. If you take care about the units, it will be clear what's right and what's wrong. This should help you to resolve your confusion.