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Add page whole molecule damage#40

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jfy133 wants to merge 7 commits intomainfrom
whole-molecule-damage
Open

Add page whole molecule damage#40
jfy133 wants to merge 7 commits intomainfrom
whole-molecule-damage

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@jfy133
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@jfy133 jfy133 commented Sep 21, 2025

To close #37

Originally suggested for addition by Johannes Krause, but maybe @stschiff and/or @wangke16 can comment on my phrasing/re-writing of their very concise summary in the paper (and of course we can add you both to the contributors list if you wish : ))

For reference, the rendered page looks like this:

image

Comment thread whole-molecule-damage.qmd Outdated
@stschiff
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Hi @jfy133, thanks for the ping. I do not need to be a contributor. Regarding your text, it looks mostly fine. I think I seem to remember from Johannes that the damage pattern would in fact imply that it was already partly single-stranded at life-time, which is why it contains so much damage throughout. In the paper we wrote:

These patterns are consistent with high degradation of DNA fragments in hair through intense sun exposure, already during the lifetime of the individual, which may result in hair containing largely denatured single-stranded DNA fragments, as opposed to the more typically intact double-stranded fragments preserved in bone samples.

I think the single-strandedness is an important piece of information to explain why C-T changes are not so confined to the boundaries of the fragments (which are usually the overhanging parts and therefore single-stranded) but are seen throughout.

The last paragraph also should be changed slightly, as suggested my inline-comment

Comment thread whole-molecule-damage.qmd Outdated
Co-authored-by: Stephan Schiffels <stephan_schiffels@mac.com>
@jfy133
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jfy133 commented Sep 23, 2025

Waiting on OK from Johannes (and maybe @wangke16 if she sees this)

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Request plot: Hair aDNA plots with entire sequence damage

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