Santos Alonso

5 Questions 16 Answers 0 Followers

Questions related from Santos Alonso

Which is aedequate read depth for mutant allele quantification by NGS?

I am attempting to estimate the burden of a mutant allele (i.e. the fraction of a given mutant allele vs wild type) in tumor biopsies. Which should be and adequate read depth for reliable...

27 January 2019 7,866 0 View

Is dsDNA Shearase a good alternative to sonication in MeDIP-Seq?

Hi everyone, I am trying to do some methylation analysis (human DNA, NGS) and I've come across several alternatives. All of them need to fragmentate the input DNA. Some make use of sonication...

04 January 2018 4,585 1 View

Is enzyme fragmentation a good alternative to sonication in ChIP-Seq?

I've read that an alternative to sonication is fragmentation by MNase. But people seem to have different opinions on the benefits or inconveniences of using one or the other. Can some one give me...

28 October 2016 5,877 2 View

Which type of sonicator is best for Chip-Seq?

For ChIP-Seq analysis I've seen people describing water-bath sonicators, probe-sonicator, sonicators in the Hz range, in the kHz range...different W... Can anyone help in explaining which (and...

28 October 2016 8,092 8 View

For GWAS of a continuous trait, is it best to compare just the tails or all the data?

Dear all, I have a collection of data for a continuous human trait, along with a genome-wide genotypic information for the same individuals. For the continuous trait, most individuals are centered...

19 March 2016 4,472 8 View