How to shortlist sequences for phylogenetic tree?

I want to construct a phylogenetic tree using almost 2000 sequences from prokaryotes as well as eukaryotes. To simply the tree, I would like to shortlist the sequences. What is the best way...

06 July 2017 3,856 5 View

How can we check chemical modifications in DNA or RNA?

What are the methods to check chemical modifications in DNA or RNA? By chemical modifications I mean formation of some other compounds on reaction with other metabolites, or some external...

04 May 2016 4,839 4 View

Positive controls for qPCR for Ca2+ and MAPK signaling in plants?

09 October 2015 1,433 1 View

What's the best way to crush plant leaves for genomic DNA isolation using Qiagen DNeasy kit?

03 April 2015 5,858 14 View

Can someone please distinguish between ML, NJ, ME and MP?

MEGA software gives different options for tree construction. Can someone please explain when to use which tree? I read literature but couldn't understand clearly. Please suggest some literature...

03 April 2015 9,870 0 View

Transcript is more for GUS gene, whereas GUS protein level is low in Real-time data. Do you have any explanation?

In my real-time experiments, transcripts for GUS assay is more, whereas the GUS protein level is less. The quantification was done by fluorometry. What can be the reason?

03 April 2015 6,304 1 View

How do I PCR amplify AT-rich sequence from genomic DNA?

02 March 2015 6,445 7 View

Buffer to disrupt platelet alpha granules for PF4 quantification?

Hello! I want to quantify by ELISA the secreted (from platelets poor plasma) and the non-secreted (from platelet lysate) PF4 before and after TRAP stimulation. I will use the ELISA from R&D...

03 March 2021 1,499 2 View

Does the pressure(-600 mmHg) affects pH?

When I conducted the degassing experiment using decompression under anaerobic condition(and I used ferrous based chelating agent), the oxidized ferric were observerd. So, could you tell me the...

03 March 2021 4,892 5 View

Buffer Exchange using column packed with sephadex G-25 effect on protein concentration?

Hello, If i am doing a buffer exchange for an antibody of 1mg/mL, does the elution lose protein in the process of buffer exchange? For example, if i flow through 500 uL of 1mg/mL sample, and...

03 March 2021 6,299 3 View

How optimize the Size Exclusion Chromatography?

Hello! I'll do a size exclusion chromatography, but I only have an open column, and I'll perform the peptide extraction from yeast, using buffer lysis (sodium phosphate 50 mM/NaCl 30 mM/DNAse and...

01 March 2021 2,215 2 View

Why are my bands weird in this Agarose gel?

Can someone please give me some possible things that could go wrong? Here is my recipe: 0.5g Agarose 50 mL of TAE 1x 1 uL ethyl bromide. Gel was run at 100V for 1 hour. The buffer used is also TAE.

01 March 2021 9,952 3 View

What do I do with DLS peaks that are from the buffer?

I'm looking at the aggregation of my protein sample using DLS. Unfortunately, my buffer (20mM HEPES) also results in a set of peaks. These are at approximately 1 and 1000 d.nm. The lowest peak...

01 March 2021 9,015 2 View

Which database would give me this list of chemical components?

Dear colleagues: I would like to know if anyone knows of a database that gives me the parameters pH, K, K, Mg, P, C, N, Zn, Cu, Ni and Cd of common foods. I find a lot of information of proteins,...

26 February 2021 5,525 3 View

What is the most suitable resuspension buffer for TCA/acetone precipitated protein?

I need to extract protein from fermented carbon sources for Bradford assay. Most researchers experiencing insolubility of pellet in resuspension buffer. Please assist me to select most suitable...

26 February 2021 7,129 3 View

What urea buffer can i use for biotagged protein extraction from streptavidin beads?

Hi all, I have been doing research on biotagged LDB1 proteins in Mel cells. I purify the proteins using M280 streptavidin beads. The yield is very low so I've been trying to optimize it by...

24 February 2021 5,749 3 View

Why is NH4OH added in heavy metals limit test?

The limit test I'm referring to is USP method II. In this procedure you need to dropwise add 6N of NH4OH to the sample until it the pH is alkali. After that you need to dilute and add HOAc until...

23 February 2021 2,049 3 View