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Questions related to Next Generation Sequencing
I have been searching the publications reporting STR markers in the genomic neighborhood of my interest, but I wonder if there might be a more straightforward approach to it. Also within the UCSC...
24 November 2021 8,216 4 View
Hi, I want to do GO and KEGG analysis using DEGs/Gene IDs to do GSEA and ORA by ClusterProfiler pipeline in R. As my organism (Brassica napus) is not a model plant, so I cant use R supported...
16 November 2021 1,339 1 View
Hello, I am currently preparing cDNA Library with Nebnext Ultra II Directional RNA Library Prep Kit from exosomal RNA (patients with multiple myeloma). My research is centered around lncRNA. After...
31 October 2021 1,170 0 View
I am testing out 4 different genes (coding for completely different proteins). When I ran an RT-qPCR assay with these genes (all on the same plate, on the same day), I noticed that a couple of the...
31 August 2021 9,689 4 View
In our laboratory, different results were obtained in the MLPA test performed for a gametic mutation on the peripheral blood samples belonging to the same patient with an interval of one year. We...
18 August 2021 468 3 View
I'm about to analyze the intracellular Ca+ concentration in HT29 and SW480 cell lines using flow cytometry. I am thinking of using Fluo-4 AM (invitrogen) but I am not sure which would be a good...
14 July 2021 1,402 2 View
Osmoregulatory responses mitigate the passive adjustments in cell structure and the growth inhibition that may ensue. In fungi, the HOG pathway through MAPK is linked to both, osmosensing and...
02 July 2021 9,253 2 View
Hello to you all, I want to perform DNA seq and I am having issues in the step of ligating the adaptors to the sequences. To give you more details: We want to find the different virus detected...
01 July 2021 5,658 0 View
I am having an assembled fasta file (~3.7 GB in size). I tried using the web based MISA v2.1, but it accepts fasta upto 2Mb only. Is there any other alternate software which can be used for a...
13 June 2021 5,776 5 View
Also can anyone tell me, how to interpret incase germline mutations in oncogene like ALK OR MET genes were found??
26 April 2021 845 0 View
If any body used this for splice site mutation analysis i want to ask how long fasta sequence we will paste.sequence of whole gene or just flanking sequences of mutation if a mutation at the end...
21 April 2021 1,788 0 View
1. Can the DNA mutations that do not affect the phenotype be used as the markers to develop human genetic maps? 2. Can the human genetic maps be developed based on DNA mutations that affect phenotype?
04 April 2021 4,349 3 View
We normally use an agarose overlay but would like to test avicel. We carried out the plaque assay as normal and infected half of the wells and left the other half as a control. Upon removal by...
05 March 2021 7,335 1 View
I am a research tech in a wildlife genetics group and my PI and I are trying to figure out how/where to put raw reads in a repository. We have capture-seq NGS from Rapid Genomics. The post-doc who...
18 February 2021 7,796 2 View
We collected faecal samples from various species that we want to analyse their microbial communities' DNA via Next-Generation Sequencing. The problem is that due to budgetary constraints, we will...
17 February 2021 5,764 4 View
Hi, I am working with NGS data and I want to run my tools and pipelines on Ubuntu 20.04.1. Is anybody know how much disk space I need for working with following scenarios? 1. Processing the FASTQ...
15 February 2021 8,794 4 View
I would like to barcode fungal caps from the field for two main research goals (1) molecular iD of the fungal specimen and (2) to identify any invertebrate DNA within the cap using CO1...
09 February 2021 4,619 1 View
I need good quality and quantity of viral cDNA for NGS analysis. Please suggest how can I increase amount of cDNA obtained from viral RNA.
03 February 2021 8,537 3 View
I want to mainly identify long nc RNA.
26 January 2021 5,991 2 View
I am culturing SVG p12 cells in %10 FBS, %1 Pen/Strep DMEM medium. But whenever I passage them into a much larger flasks they are began to de-attached and started to die. I couldn't find any...
17 January 2021 4,780 4 View
To check whether my desired proteins are on the same chromosomes or different chromosome, Whether they are near by in location or far. Kindly suggest me some databases that can give me these...
08 December 2020 2,437 4 View
I have some sequences of Spike protein of some Covid 19 samples that have been sequenced in my laboratory using NGS. For analyses of those, I need to convert those sequences into PDB format. I am...
02 December 2020 839 3 View
Hi Everyone, I have a list of 2000 SNPs (chicken)and require to find close genes to all these 2000 SNPs. I used to do that one by one in a small set of SNPs by using org.Gg.eg.DB, BiocManager,...
30 November 2020 2,008 8 View
Hi there, I am working on airborne microbes. I want to know the concentration of bacteria in my sample before I go for NGS. Since it is an environmental sample it might have a lot of mixed...
18 November 2020 522 3 View