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Questions related to Bioinformatics
The current Legionella pneumophila SBT databse ( http://bioinformatics.phe.org.uk/legionella/legionella_sbt/php/sbt_homepage.php / http://www.ewgli.org/ ) maintaint by Public Health England’s...
02 February 2020 7,999 3 View
Hello, I wish to sequence the genomes of approx. 70 Clostridium perfringens strains for bioinformatic analyses. I was hesitating between 2 Illumina technologies: MiSeq and Hiseq. Could you help...
02 February 2020 8,888 3 View
When I get results from sequencing, they often overlap only partly or not at all. In such case it's easier to align them with the "parental" sequence (of what I expect), to see where they align....
02 February 2020 8,601 3 View
Hi everybody What is the relationship between the population's genetic and geographic distance? I appreciate your help. Best regards
02 February 2020 4,980 9 View
I have target sequences that I want to blast and then extract from all Glires reference genomes on NCBI along with 500bps upstream and downstream of each top match for a few hundred sequences....
02 February 2020 813 3 View
Hi, Any help will be much beneficial. Thanks Rocktim
02 February 2020 7,519 3 View
I have a list of reference SNPs IDs (rsid) and I need to retrieve the associated diseases ... what are the suitable bioinformatics tools or databases?
02 February 2020 5,037 1 View
Dear All, I did qPCR. How can I calculate CT values for this qPCR data? How can I quantify cDNA? What about down-regulation and up-regulation of genes? Please find the attached excel file and...
22 January 2020 5,732 0 View
How to determine (bioinformatically) the locations and copy number of a particular gene in the genome (chromosome ) of an animal?
01 January 2020 6,730 4 View
Hi, this is a bioinformatic question, I'm kinda new to it so if anyone can help will be fantastic. I have analyzed an experiment through illumina 850k methylation chip and now I have received only...
01 January 2020 1,402 5 View
I am currently trying to search for data on RLFS (R-loop forming sequences) for the human genome on UCSC Table Browser but I cannot find anything. Does anyone know if these data exist? Currently I...
01 January 2020 1,335 3 View
I am analyzing data from pseudouridine (https://www.nature.com/articles/nchembio.1836#MOESM157) modifications, where it is reported the position of modified U within cDNA. I need to find the...
01 January 2020 5,106 2 View
Hello, I would like to find whether two proteins have a common interaction path in the graph using the STRING database. There is software that is doing it?
12 December 2019 5,991 3 View
I have extensively searched google scholar but I am struggling to find any groups who have previously used Rosetta to conduct ab-initio structure modelling of single-pass or membrane anchored...
12 December 2019 6,885 3 View
Hi everybody I want to convert HapMap Snp haplotype Data Into 0,1 Matrix so that I can use it in other works. I appreciate your help. Best regards
12 December 2019 618 3 View
I'm looking for a best practise of long-reads sequencing technologies used to generate high quality single-cell based genome sequencing and transcriptom. Is there a good protocol from lab...
12 December 2019 8,405 2 View
I have gene expression data from different conditions from different studies. Instead of using the actual TPM values for Pearson Correlation coefficient (PCC) calculation, I have decided to use...
12 December 2019 9,195 1 View
Hello, I am trying to conduct a selection analysis for non coding sequences using hyphy software. yet after the intronic alignment and phylogenetic tree inputs, the analysis asks for query...
12 December 2019 2,746 3 View
Which book should I read to understand RNA-Seq Analysis ?
12 December 2019 6,071 7 View
I have prepared a nj phylogenetic tree using ape package in R. But due to large number of sequences and taxa, the tips of the tree looks overlapping. How can I increase the distance between the...
12 December 2019 638 5 View
Hello, I'm a graduate student in information technology. I'm trying to do my research on Bioinformatics, a multi-disciplinary and rapidly emerging field of biomedical data sciences and...
11 November 2019 1,156 5 View
Has anyone tried to analyse high-throughput qRT-PCR data using the Qiagen IPA software? If yes, in what format do you input the data? What was the experience and outcome? Any successful...
11 November 2019 4,248 1 View
I have a set of genes which I fed to genemania.org too that gave me possible interaction edges between genes. Lets say one such pair is PTPRD-FRMD4A. What is the best way to know about the...
11 November 2019 8,357 5 View
I am an undergraduate student and recently trying to use UCSF Chimera to learn about amino acid tertiary structure, but I am confused about the explanation on the calculation of relative exposure...
11 November 2019 587 3 View