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Questions related to Bioinformatics
hi every one I choose a virus to do bioinformatic for it. it has a lot of protein. how should i choose one of them to do docking and MD for? how should i understand which protein is better than...
13 March 2021 5,049 6 View
Hi everybody In the ped format for genotype, alleles of any SNP are represented by two columns (one for each allele, separated by a space). Is a column sufficient for the haplotype to...
28 February 2021 2,227 1 View
I am currently working on gene clustering based on co-expression pattern in mouse brain. The problem is I do not have some solid way to test my result. Are there any suggestions for databases...
23 February 2021 4,636 3 View
Hi everyone, I am working with data obtained from the Geo (NCBI). This data is gene expression found with the Affymetrix Human Genome U133A Array and is analysed to get a log2 from the raw data...
23 February 2021 9,118 3 View
Hi Dear researchers In ensemble-based architectural design Which algorithms are more useful for classification? What is the difference between parallel and ensemble architecture? Thanks I am...
09 February 2021 2,858 5 View
I want to find a database(s) or a method where I can find and bulk download all the rabbit MHC genes and domain annotation. In humans using Ensembl, all MHC genes have names and domains but in...
29 January 2021 7,936 2 View
bioinformatics has a big importance in human science and lots are seeking to study that field, so it attracts me to know it's relation with poultry science and how we can benefit from it in...
21 January 2021 7,119 3 View
As i am working on protein-ligand docking, i want to input the x,y,z coordinates in autodock and to do that, i need the coordinates of aminoacids present in the binding site. So, PLease help me out.
04 January 2021 4,070 4 View
I have multiple AMPs peptides. I want to know the origin of each one; any bioinformatics web tool helps to do this.
12 December 2020 6,048 1 View
I am searching for new antimicrobial peptides and I don't have many skills in bioinformatics, so I want to know how to use these software packages to identify candidate coding regions within...
02 December 2020 4,909 3 View
Hello, I'm a research student in bioinformatic and fail import my data as before even uploading the idat file it says ''Error: invalid value assembly" Can you tell me where the problem is and how...
09 November 2020 8,479 1 View
I am not good in bioinformatics. I have a gene set which has some 1000 genes which are highly correlating with aging. I want to select some highly significant genes from this geneset for further...
05 November 2020 5,708 5 View
Hi. Is there someone who can please help me? So I annotated RNAseq data of several samples with MG Rast. I then got an extensive list of gene names on which I did statistical analyses. After this,...
23 October 2020 8,156 3 View
I found a variant which is not reported in gnomAD or ExAC, but still has an rs. Should I consider it as a novel variant? when can I say that ceratin variant is novel?
16 October 2020 9,705 3 View
Hello! I've been using gene expression data from the TCGA, where the RNAseq is processed using RSEM. I did a few graphs such as boxplots showing the expression of different genes in normal vs...
15 October 2020 2,820 2 View
Hello, I need an endorsement to submit my preprints in arXiv.org. I am in the bioinformatics research field. The arXiv requires an endorsement for me because my institution doesn't provide any...
03 October 2020 1,174 4 View
Hi everyone, Does exist any threshold for binding affinity value between macromolecules? E.g. Any value lower than -5.0 Kcal/Mol..... How to determine that the binding affinity among different...
23 September 2020 4,447 3 View
I have a human lncRNA sequence and I want to get a prediction of what proteins or other molecules could bind to it. I've seen several sites that want an ID for the lncRNA but I just have the...
21 September 2020 7,535 3 View
I would like to compare similarities of different allelic disorders based on HPO terms. As a first approach I just would like to select a few genes and look at how similar are the defined allelic...
11 September 2020 5,156 3 View
I am currently working with scRNA-seq data. I have to rank or score genes based on how spatially expressed they are. Is there any good measure or tool to do that?
24 August 2020 3,887 3 View
I recovered an N amount of putative chloroplast contigs (fasta format). I need to align them to a reference genome and there is no reference genome of my species. Fortunately, there is a reference...
21 August 2020 1,260 3 View
I am trying to extract some information (metadata) from GenBank using the R package "rentrez" and the example I found here https://ajrominger.github.io/2018/05/21/gettingDNA.html. Specifically,...
13 August 2020 5,951 2 View
I got the Illumina paired-end 16S sequences results. I tried to analysis them with QIIME2, but unfortunately, I found myself stuck many times. Can anyone help me,and how much will it cost? Please...
03 August 2020 593 5 View
I have analysed some bioinformatically important information relevant to gene regulation. I want to publish it.
14 July 2020 8,440 3 View