How to calculate Moreau-Broto autocorrelation, Moran autocorrelation, Geary autocorrelation for protein/gene sequences?

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From a hosts point of view, which comes first, effect of toxins on pathways or identification of toxins?

From a pure biology perspective, when a pathogen affects a host, what comes first, the effect of the toxin (effector protein) on the pathways or identification of the structure of the toxin by the...

01 February 2020 8,453 6 View

How do you apply statistical testing when predicting effector proteins?

Being a computer science student, I don't know much about statistical testing. However, recently, a lot of work has reported statistical validation of their result. In machine learning-based...

10 November 2019 6,264 2 View

How to download from NCBI the FASTA of all sequences for a particular search term?

After a search term is entered, on the top right there is an option called Send to. Then click File, and click FASTA under format tab. There they show you how many entries/sequences to be...

05 June 2019 6,191 2 View

Someone help me to find one gram-positive non-pathogenic bacteria residing in human gut along with a reference claiming the same?

I want to know the names of a few species of gram-positive bacteria which are non-pathogenic and and lives in the human gut....

04 May 2019 9,236 2 View

Where can i get all the proteins (amino acid sequence) and their corresponding nucleotide sequence of Bacillus subtilis?

I want a list of all the peptide and their corresponding nucleotide sequences of Bacillus subtilis In the fasta format.

04 May 2019 4,431 3 View

What is the example of a gram-positive non-pathogenic bacteria?

I want to know the names of a few gram-positive non-pathogenic bacteria

04 May 2019 8,244 2 View

How do I get the corresponding nucleotide sequence of a given peptide sequence?

Suppose, I have a peptide sequence, and I want to find out the corresponding nucleotide sequence of that peptide sequence. Is there any tool that finds this out?

03 April 2019 1,752 3 View

In order to establish a new metric for quantifying something, what are the prerequisites?

Suppose I want to establish a new metric for a certain bioinformatics problem. What are the mathematical prerequisites for establishing this metric? Are lemma's and theorems required for...

01 February 2019 1,953 2 View

How does binding between 2 proteins occur?

Suppose 2 genes produce 2 proteins which would be binding. After the genes are turned on and the proteins are produced, then genes can be turned off and the proteins produced can bind with each...

01 February 2019 8,742 6 View

When a protein binds to the dna or a particular gene, does the gene need to be activated in order to bind?

So proteins bind to DNA or genes all the time. I wanted to know whether before binding with a protein, the gene needs to be activated or not. If there is a research article backing your claim,...

31 December 2018 1,180 3 View

Why does blocking with my immunogenic peptide cause nuclear fluorescence in ICC?

Hi all, I am validating a polyclonal antibody raised against human ANT4, through WB and ICC. In most of my controls, the antibody shows very little off-target binding, but when I pre-incubate the...

03 March 2021 5,999 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

How to repeat an operation on an atom selection for multiple times in PyMol?

Hi, I am trying to construct a multi-layer fibril structure from a single layer in PyMol by translating the layer along the fibril axis. For now, I am able to use the Translate command in PyMol...

02 March 2021 4,569 4 View

How to define and get results (stresses) for certain points of a model in abaqus, using python? When the size of the model changes?

I want to do a parameter study of a aixsymmetric cylinder in Abaqus. I want to create several jobs where I get the stresses for 3 different points in my model. These points are defined. I wrote a...

01 March 2021 10,078 1 View

Which is suitable for use with Python? MySQL or SQL Server?

Which is suitable for use with Python? MySQL or SQL Server? What is your suggestion?

01 March 2021 3,422 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

Anybody with an idea on how do design specific primers for detecting tomato resistance genes tm-1, TM-2 and Tm2^2?

I am trying to identify these 3 genes among some tomato cultivar collections and after aligning some sequences from NCBI, I couldn't find unique sequences to target for specific primers. There...

28 February 2021 606 3 View

Genome-wide gene identification protocol ?

Is there any book chapter/book, webpage or research article available to understand genome-wide gene identification?

28 February 2021 8,095 1 View

Can anyone provide the Support vector regression code structure of LIBSVM MATLAB or python ?

Please, if Gaussian Parameter optimization is possible in this code structure

28 February 2021 278 3 View

How to modify Johnson cook equation in ABAQUS?

I wanted to add an extra parameter to the existing Johnson cook equation in the ABAQUS simulation. How to add those extra parameters. Ref: A modified Johnson-Cook material model with strain...

28 February 2021 4,841 3 View

Fadhil Jawad Altu'ma

Iam waiting the true responses

Ajit kumar Roy

The link may be helpful to you

http://pybiomed.readthedocs.io/en/latest/reference/Autocorrelation.html

Somnath Tagore

This is an old paper, but can be well used to understand the concepts.

Article Efficacy of different protein descriptors in predicting prot...