How to extract the gene symbols, names and unigene IDs from clariomdhumancdf annotation environment using R bioconductor package?

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Negative colony pcr for the colonies on patch plate?

I am transforming A. rhizogenes with the plasmid. After transformation colony pcr works with a single sharp band at the expected size. But when I perform PCR for the same colonies on replica/patch...

08 December 2021 8,433 3 View

Can anybody more elaborate the concept of Minor allele frequency?

I am looking for explanation in the context of NGS variant calling pipeline

27 May 2020 1,105 1 View

Total how many number of cell lines are present for ovarian cancer?

From total number of ovarian cancer cell lines present, for how many cell lines, sequencing data is available?

04 May 2020 3,955 2 View

What different kind of bioinformatics analysis can be carried out on mutation data?

I have generated a lot of annotated cancer mutation data by NGS data analysis. What different kind of bioinformatics analysis can be carried out on that annotated mutation data to get some useful...

09 April 2020 1,504 0 View

How to get Consurf analysis result?

Consurf server gives output in number of different ways. But I want result in following format, displayed in image? How to get this?

03 March 2020 3,284 1 View

How to predict 3D model of protein with maximum sequence coverage?

I have used Swissmodel, MODELLER, Phyre, Robetta and I-TASSER for modelling my protein, but in the modelled structure, amino acid is not observed at a specific position to which I want to induce a...

16 January 2020 4,140 1 View

Has anyone tried subcellular fractionation using NE-PER thermofisher kit or ambion PARIS kit?

I used to get pure fractions using the NE-PER kit but lately I have been getting a lot of tubulin in my nuclear fractions even after washing the nuclear pellet thoroughly using PBS or cytoplasmic...

04 August 2019 3,635 0 View

How to visualize binding site residues of docked complex in Pymol?

I have created docked complex.pdbqt file using Autodock and I have uploaded that file in Pymol and visualized formed hydrogen bonds between ligand and protein, but the binding site residues of...

27 March 2019 1,780 11 View

In molecular docking, why the energy value of docked complex should be minimum and negative only?

Can anybody elaborate the energy concept of docked complex? and physics behind it?

18 March 2019 4,922 4 View

Getting error in cuffmerge step of RNA Seq analysis.How to solve this error?

After running cufflink for two samples of RNA-Seq data, I used cuffmerge and executed the following command cuffmerge -o -g -s assemblies.txt Where assemblies.txt contains the...

11 March 2019 717 3 View

Is this website real?

Is this website real? https://isar.org.in/event/registration.php?id=2434532

08 August 2024 484 1 View

Posthoc test lettering in JAMOVI?

Does anyone know of a module for the JAMOVI software that is capable of generating mean separations using the classic letters based on post hoc results (e.g., Tukey test)? If, as I believe, such...

31 July 2024 3,333 4 View

Are you looking for research collaboration ?

we have few papers ready for submission, and we need one co-author for each article who can pay article fee. Interested authors may text here or contact me on my following email id [email protected]

29 July 2024 6,626 0 View

Could you try using PeptiCloud and see if it's a useful tool for biology research?

PeptiCloud (www.pepticloud.com) is a bioinformatic platform that allows researchers to organize and share their data for their projects as well as collaborate with others in one place. Through...

28 July 2024 4,762 2 View

How do I access .vcf files without an R statistical package?

I am currently working on a mendelian randomization study, and I have downloaded the datasets needed from the ieu opengwas project (mrcieu.ac.uk) in .vcf format. I do not have access to an R...

19 July 2024 2,342 5 View

How to fix install package meta in R?

> library(meta) Error: package or namespace load failed for ‘meta’ in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]): there is no package called ‘numDeriv’

18 July 2024 3,536 0 View

How to decide whether the refinement is correct or not, based on Rwp and Rexp factors by Fullprof?

One of the papers I read by Toby, where (title of the paper was "R factors in Rietveld analysis: How good is good enough?"), he tells us that to get good chi square value, you must have low Rwp,...

17 July 2024 9,668 4 View

How to create parameter and coordinate files for ligand in amber when FATAL error (maybe due to duplicate bond specifications) happens?

Hello, I'm trying to create parameter and coordinate files for a drug (PRG-A01) found on the following page: http://www.probechem.com/products_PRG-A01.html I used the guide made by Michael...

17 July 2024 3,472 3 View

Why does our stiff biochemical ODE model in R produce unreasonable results (negative values, NAM) despite using solvers like lsoda, vode, and rk4)?

We have developed an ODE model comprising 25 interrelated equations with common coefficients. This biochemical model, applied in wastewater treatment, is characterized by stiffness. Utilizing the...

06 July 2024 7,077 4 View

What are the reasons why we need to practice proper post-harvest handling including packaging, after harvesting fruits and vegetables?

02 July 2024 9,999 2 View

Chinedu A. Anene

Did you try the biomart package?

https://bioconductor.org/packages/release/bioc/html/biomaRt.html

Rucha Wadapurkar

But how to extract using biomart package?

We can do this analysis for ArrayExpress data only?

I want to identify differentially expressed genes from data (.CEL files) retrieved from GEO database.