ArticleJournal of molecular evolution2007
A statistical approach to identify ancient template DNA.
Article in Journal of molecular evolution, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
11 citing papers in PubMed.
- Schmutzi: estimation of contamination and endogenous mitochondrial consensus calling for ancient DNA.Genome biology · 2015Article
- Ancient mitochondrial DNA from the northern fringe of the Neolithic farming expansion in Europe sheds light on the dispersion process.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2015Article
- Mitochondrial DNA variation in the Viking age population of Norway.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2015Article
- The First Attested Extraction of Ancient DNA in Legumes (Fabaceae).Frontiers in plant science · 2015Review
- Re-inventing ancient human DNA.Investigative genetics · 2015Article
- Separating endogenous ancient DNA from modern day contamination in a Siberian Neandertal.Proceedings of the National Academy of Sciences of the United States of America · 2014Article
- Evaluating the impact of post-mortem damage in ancient DNA: a theoretical approach.Journal of molecular evolution · 2011Article
- Article
- Characterization of nucleotide misincorporation patterns in the iceman's mitochondrial DNA.PloS one · 2010Article
- Archaeogenetic evidence of ancient nubian barley evolution from six to two-row indicates local adaptation.PloS one · 2009Article
- Sequences from first settlers reveal rapid evolution in Icelandic mtDNA pool.PLoS genetics · 2009Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
One of the key problems in the study of ancient DNA is that of authenticating sequences obtained from PCR amplifications of highly degraded samples. Contamination of ancient samples and postmortem damage to endogenous DNA templates are the major obstacles facing researchers in this task. In particular, the authentication of sequences obtained from ancient human remains is thought by many to be rather challenging. We propose a novel approach, based on the c statistic, that can be employed to help identify the sequence motif of an endogenous template, based on a sample of sequences that reflect the nucleotide composition of individual template molecules obtained from ancient tissues (such as cloned products from a PCR amplification). The c statistic exploits as information the most common form of postmortem damage observed among clone sequences in ancient DNA studies, namely, lesion-induced substitutions caused by cytosine deamination events. Analyses of simulated sets of templates with miscoding lesions and real sets of clone sequences from the literature indicate that the c-based approach is highly effective in identifying endogenous sequence motifs, even when they are not present among the sampled clones. The proposed approach is likely to be of general use to researchers working with DNA from ancient tissues, particularly from human remains, where authentication of results has been most challenging.
Indexed as
Identifiers
17593420What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.