Ancient DNA and Genomics

Computational challenges in the analysis of ancient DNA

Prüfer K, Stenzel U, Hofreiter M, Pääbo S, Kelso J, Green RE.

Genome biology · doi:10.1186/gb-2010-11-5-r47 · PMC2898072

Primer extension capture: targeted sequence retrieval from heavily degraded DNA sources

Briggs AW, Good JM, Green RE, Krause J, Maricic T, Stenzel U, Pääbo S.

Journal of visualized experiments : JoVE · doi:10.3791/1573 · PMC3150061

New insights from old bones: DNA preservation and degradation in permafrost preserved mammoth remains

Schwarz C, Debruyne R, Kuch M, McNally E, Schwarcz H, Aubrey AD, Bada J, Poinar H.

Nucleic acids research · doi:10.1093/nar/gkp159 · PMC2691819

Non-destructive sampling of ancient insect DNA

Thomsen PF, Elias S, Gilbert MT, Haile J, Munch K, Kuzmina S, Froese DG, Sher A, Holdaway RN, Willerslev E.

PloS one · doi:10.1371/journal.pone.0005048 · PMC2660418

Evidence of authentic DNA from Danish Viking Age skeletons untouched by humans for 1,000 years

Melchior L, Kivisild T, Lynnerup N, Dissing J.

PloS one · doi:10.1371/journal.pone.0002214 · PMC2386972

From micrograms to picograms: quantitative PCR reduces the material demands of high-throughput sequencing

Meyer M, Briggs AW, Maricic T, Höber B, Höffner B, Krause J, Weihmann A, Pääbo S, Hofreiter M.

Nucleic acids research · doi:10.1093/nar/gkm1095 · PMC2248761

Phylotyping and functional analysis of two ancient human microbiomes

Tito RY, Macmil S, Wiley G, Najar F, Cleeland L, Qu C, Wang P, Romagne F, Leonard S, Ruiz AJ, Reinhard K, Roe BA, Lewis CM.

PloS one · doi:10.1371/journal.pone.0003703 · PMC2577302

Recharacterization of ancient DNA miscoding lesions: insights in the era of sequencing-by-synthesis

Gilbert MT, Binladen J, Miller W, Wiuf C, Willerslev E, Poinar H, Carlson JE, Leebens-Mack JH, Schuster SC.

Nucleic acids research · doi:10.1093/nar/gkl483 · PMC1802572

Quantification of damage in DNA recovered from highly degraded samples--a case study on DNA in faeces

Deagle BE, Eveson JP, Jarman SN.

Frontiers in zoology · doi:10.1186/1742-9994-3-11 · PMC1564134

How ancient DNA may help in understanding the origin and spread of agriculture

Philosophical transactions of the Royal Society of London. Series B, Biological sciences · doi:10.1098/rstb.1999.0362 · PMC1692457