@@ -50,52 +50,6 @@ authors:
5050 - family-names : Warinner
5151 given-names : Christina
5252 orcid : ' https://orcid.org/0000-0002-4528-5877'
53- repository-code : >-
54- https://github.com/SPAAM-community/little-book-of-smiley-plots/
55- url : >-
56- https://www.spaam-community.org/little-book-of-smiley-plots/
57- abstract : >
58- A key part of any ancient DNA project is to show that the
59- DNA is exactly that - that the DNA is ancient, rather than
60- from modern contamination.
61-
62-
63- A key authentication method is to show the presence of
64- elevated C to T deamination patterns (and the
65- complementary G to A) at the end of DNA molecules - known
66- as damage patterns - originally reported by (Briggs et al.
67- 2007).
68-
69-
70- These patterns can be plotted in what have been
71- colloquially known as ’Smiley Plots. However, there can be
72- a wide range of smiley plots, some which show valid
73- ancient DNA, and others that do not - either due to not
74- actually having true ancient DNA but also from laboratory
75- and/or bioinformatic artifacts.
76-
77-
78- This book aims to act as a reference guide to interpreting
79- ancient DNA damage plots, providing a wide range of
80- example ‘smiley plots’, with descriptions of what the
81- describe and what can cause them. As an added bit of fun,
82- each type of ‘smiley plot’ comes with a artistic
83- interpretation of the line shape contributed by members of
84- the ancient DNA community.
85- keywords :
86- - ancient DNA
87- - aDNA
88- - palaeogenetics
89- - palaeogenomics
90- - archaeogenetics
91- - archaeogenomics
92- - ancient metagenomics
93- - microbiome
94- - pathogen
95- - bioinformatics
96- - reference guide
97- - damage patterns
98- - misincorporation patterns
9953license : CC0
10054version : 2025
10155date-released : ' 2025-09-21'
0 commit comments