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With a show of hands, how many people still do size selection post ligation after shearing genomic DNA by Covaris ? I've heard that many skip size selection now, but many others still size select.
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For exome capture we don't do size selection. We purify with SPRI beads and that adequately removes adapter/primer-dimer. -
Depends how tight of a size distribution you want. We size select post-Covaris to get a narrow distribution allowing assembly of overlapping paired-end reads. Size selection can also help you get longer read lengths since all PCR based sequencing approaches (454, Illumina) do tend to enrich for smaller fragments.Comment
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In the first segment of our review of epigenetic sequencing methods, we covered methylation detection, chromatin accessibility, and protein-DNA interactions. This final part of our review will break outside of the standard analysis and cover some influential multidimensional methods.
Spatial Epigenomics
“Epigenetic assays, whether conducted at the single-cell or bulk level, have played a crucial role in unraveling the underlying mechanisms of diseases and...Yesterday, 06:48 AM -
Developments in sequencing technologies and methodologies have transformed the field of epigenetics, giving researchers a better way to understand the complex world of gene regulation and heritable modifications. This article explores some of the diverse sequencing methods employed in the study of epigenetics, ranging from classic techniques to cutting-edge innovations while providing a brief overview of their processes, applications, and advances.
Methylation Detect...05-31-2023, 10:46 AM -
Differential Expression and Data Visualization: Recommended Tools for Next-Level Sequencing Analysis
After covering QC and alignment tools in the first segment and variant analysis and genome assembly in the second segment, we’re wrapping up with a discussion about tools for differential gene expression analysis and data visualization. In this article, we include recommendations from the following experts: Dr. Mark Ziemann, Senior Lecturer in Biotechnology and Bioinformatics, Deakin University; Dr. Medhat Mahmoud Postdoctoral Research Fellow at Baylor College of Medicine;...05-23-2023, 12:26 PM
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