What is the best approach for E. coli phylogenetics?

Andres Felipe Cuspoca Orduz @Andres_Cuspoca_Orduz

01 January 2020 1 5K Report

I have four whole genomes sequencing of E. coli isolates , and I wanna to classify in phylogenetics groups.

Whats is the best ways?

Thanks.

Sunaullah Bhat

dendrogram is best

Badges
Science topic

More Andres Felipe Cuspoca Orduz's questions See All

Does any one have idea about mmpbsa for change the temperature?

I need calculate MM/PBSA with MMPBSA.py but in output file "MMPBSA_info" the temperature is marked for default in -INPUT['temp'] = 298.15 and y need run that analysis in 310 k, I looking in...

07 August 2019 9,953 2 View

Where can find the complete information associated with a Series Matrix Files in an Gene Expression Omnibus?

Where can find the complete information (normalization, samples and any previous analysis) associated with a Series Matrix Files in an Gene Expression Omnibus accession ?

10 November 2018 8,013 0 View

How can I perform a consensus tree from results of the same BEAST file ran on different computers?

- I have several .tree files derived from the same BEAST file ran on different computers but I need to perform a consensus on those trees, is there a program for that?

08 September 2018 4,512 4 View

Create a SDF file for molecular docking?

What program or server, can i utilized for construct a peptide for molecular docking in silico? the output must be in SDF file.

06 July 2018 2,429 6 View

What is the best server or software to design peptides to perform docking?

What is the best server or software to design peptides to perform docking? I refer acuracity terms.

05 June 2018 7,330 3 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

Can we block unwanted images during the x-ray prediction?

i am try to classify the x-ray images. During classification , can i block unwanted images (except x-ray image).

03 March 2021 7,100 1 View

How to increase a model accuracy ?

dear community, my model is based feature extraction from non stationary signals using discrete Wavelet Transform and then using statistical features then machine learning classifiers in order to...

03 March 2021 6,994 5 View

How to find the mode of classified ocean colour images?

Hello, I have classified 10 S3 OLCI images from the same area (althouth not the same size and/or quadrant) and I would like to do a final image using the mode of the pixel of these 10 images. I...

01 March 2021 9,874 3 View

Is it possible for two human neuronal cell lines to have different gene sequence for the same protein?

I am looking at the ATP1A2 (Sodium/Potassium ATPase alpha subunit 2) in two human neuronal cell lines. Expression levels of this protein seems to be almost equal when detected by one antibody....

01 March 2021 3,607 3 View

How to classify strictly upper triangular matrices by similarity?

Let F be a field. Consider U, the set of n times n strictly upper triangular matrices in F. For X, Y in U, we call them similar if there exists some S, which is non-degenerate and upper...

01 March 2021 2,957 8 View

Runs of nucleotides in Sanger sequencing?

I performed site directed mutagenesis, transformation, and then I sent out plasmids for Sanger sequencing and found out that there is extension of DNA just before the stop codon. I am not sure...

27 February 2021 547 3 View

Has anyone used the Illumina ITS1 primer sets?

Hi everyone, Illumina provides a list of primers to amplify with high taxonomic coverage the ITS1 region for further fungal sequencing, but I cannot find the exact amount necessary of each...

25 February 2021 6,969 3 View

Errors in DNA sequences?

I am trying to better understand the scope of DNA replication and sequencing errors, e.g. 1. I have seen similar error rates of 10e4 to 10e5 for cell & instrumental DNA replication,...

24 February 2021 4,397 3 View

Is it efficient to do liquid biopsy to investigate the gene expressions of the tumor?

To do liquid biopsy and look for specific gene expressions there are so many published papers. Thera are different protocols and procedures used to isolate circulating cell free RNA or mRNA from...

23 February 2021 7,326 5 View