Contact experts in Next Generation Sequencing to get answers
1,250 views 660 posts
Questions related to Next Generation Sequencing
I am working on microbial diversity and planing to send samples for Next Generation Sequencing (NGS); Which hypervariable region of 16S rRNA gene will appropriate to target most of bacterial taxa...
02 November 2017 482 3 View
Hello everyone, For my project I need to do a comprehensive miRNA-Seq experiment and at the moment our collaborators only have a MiSeq System which as far as I know is a targeted sequencing...
27 October 2017 3,106 4 View
Hi, I want to isolate hematopoietic stem and progenitor cells from human bone marrow that I get fresh. I only get small samples. So far I've been using Ficoll and then proceeded to staining and...
26 October 2017 5,181 3 View
I need to identify DEGs from RNA seq datasets provided in GEO. I have found the GEO2R tool to be quite useful, but it is not available for all datasets, for instance if the series matrix file is...
25 October 2017 4,220 5 View
Hi all, I have performed CRISPR-cas9 on my cell line and seeded them at 0.5 cell per well. To screen for frameshifted clones, i want to duplicate my plate, so i will have two: one to screen...
24 October 2017 4,681 2 View
I have generated a pileup of Illumina Miseq NGS data in IGV by mapping the reads onto the reference sequence reconstructed from the reads in order to check how well the sequencing has worked. The...
23 October 2017 9,976 3 View
Hello All, I would like to know possible explanations on why DArTseq (http://www.diversityarrays.com/dart-application-dartseq) have been used so little in Population genetics/Phylogeography...
16 October 2017 9,272 4 View
Dear colleagues, We would like to discriminate between populations of a plant species at different geographical locations. Yet, microsatellite markers (to distinguish them) are scarce....
13 October 2017 1,319 5 View
Hi everyone with NGS experience I am going to embark on a targeted sequencing project when I noticed the fame of KAPA kits has seemed to exceed other suppliers. would be great if you could share...
08 October 2017 5,840 3 View
Hi there! I want to sequence the whole Y chromosome and i'm looking for the method of enrichment for it. Could anybody suggest any approach for that? Thanks in advance!
03 October 2017 1,630 3 View
A recent run of a very short insert library (average insert size 32bp) on a lane of Hiseq 3000 yielded only 50 million reads. Many clusters were excluded by the chastity filter due to mixed...
02 October 2017 9,630 1 View
Hi all, I've run 6 rounds multiplex PCR of 21 self-designed microsatellite primers on bear samples. I have pooled all the pcr products, purified the amplicons and sent for NGS sequencing. I have...
13 September 2017 8,321 2 View
I am trying to analyse NGS data and I heard that these are the hot tools at the moment (bwa, bowtie2 and Novoalign). Are there other tools that can do the same? Am I supposed to be using all of...
12 September 2017 9,950 5 View
I am performing ChIP-Seq experiment for REST, H3K9Ac and H3K9Me2 marks in rat cortical tissues. I successfully made the ChIP libraries. At this point, I am wondering about the sequencing depth for...
08 September 2017 3,501 3 View
I am working with bam files from different NGS platforms and I am trying to use the following computer applications to visualise the reads: IGV (Broad Institute) UGENE (UniPro) Gap5 (staden...
08 September 2017 4,998 2 View
Hello, I'm a neonate in NGS just starting to get into it. I'm trying to plan for a whole genome bisulfite sequencing experiment to determine methylation in a coral with a genome of 0.5 GB. My...
01 September 2017 4,029 3 View
I sent a test plate to the seq facility we are working with for ddRAD sequencing of a non-model organism without a reference genome. These 50 samples came from 3 field sites from 1 region. They...
28 August 2017 9,272 3 View
I am currently using a human IgG primary antibody and a Alexa647 anti-human Fc secondary antibody for the staining and do not see a signal for the low-abundance target. Thank you very much!
28 August 2017 8,363 4 View
I did sequencing run using PhiX control in Illumina's NextSeq 500 and found out the %PF only 0.4% yet the cluster density reached 267K/mm2. The reagent I used was fresh (not expired yet), it was...
22 August 2017 6,043 3 View
Hi, is anybody using, or has tried, Oxford Nanopore MinION for pathogen analysis and identification, microbial metagenomic and similar tasks?I knew that it wasn't very precise and gave a read...
15 August 2017 3,401 2 View
I want to buy a new laptop to analysis NGS data without server. But I don't know about hardware requirement for NGS analysis. is it possible to analysis these kind of data on a laptop?
12 August 2017 3,914 3 View
If anyone is familiar with Minion Nanopore Technology in metagenomic studies ? What is your opinion, is it cost-efficient and if this technology improved it's error rate ? Can anyone share...
07 August 2017 5,996 2 View
I have exome sequencing and whole genome genotyping data of samples from a family with complex disease. I have performed linkage analysis using merlin. What is the best way to utilize both the...
06 August 2017 9,061 6 View
Hi, I want to ask you how can I be sure if my assembly is quite right?. I 've used NGS assembly using AbySS followed by QC-check. Regards
29 July 2017 4,707 5 View