TY - JOUR AU - McClintock, B. PY - 1950 DA - 1950// TI - The origin and behavior of mutable loci in maize JO - Proc Natl Acad Sci U S A VL - 36 UR - https://doi.org/10.1073/pnas.36.6.344 DO - 10.1073/pnas.36.6.344 ID - McClintock1950 ER - TY - JOUR AU - McClintock, B. PY - 1953 DA - 1953// TI - Induction of Instability at Selected Loci in Maize JO - Genetics VL - 38 ID - McClintock1953 ER - TY - JOUR AU - Doolittle, W. F. AU - Sapienza, C. PY - 1980 DA - 1980// TI - Selfish genes, the phenotype paradigm and genome evolution JO - Nature VL - 284 UR - https://doi.org/10.1038/284601a0 DO - 10.1038/284601a0 ID - Doolittle1980 ER - TY - CHAP AU - Callinan, P. A. AU - Batzer, M. A. ED - Volff, J. N. PY - 2006 DA - 2006// TI - Retrotransposable Elements and Human Disease BT - Genome and Disease. Genome Dyn PB - Karger CY - Basel UR - https://doi.org/10.1159/000092503 DO - 10.1159/000092503 ID - Callinan2006 ER - TY - JOUR AU - Volff, J. N. PY - 2006 DA - 2006// TI - Turning junk into gold: domestication of transposable elements and the creation of new genes in eukaryotes JO - Bioessays VL - 28 UR - https://doi.org/10.1002/bies.20452 DO - 10.1002/bies.20452 ID - Volff2006 ER - TY - JOUR AU - Piskurek, O. AU - Jackson, D. J. PY - 2012 DA - 2012// TI - Transposable Elements: From DNA Parasites to Architects of Metazoan Evolution JO - Genes VL - 3 UR - https://doi.org/10.3390/genes3030409 DO - 10.3390/genes3030409 ID - Piskurek2012 ER - TY - JOUR AU - Heras, S. R. AU - López, M. C. AU - Olivares, M. AU - Thomas, M. C. PY - 2007 DA - 2007// TI - The L1Tc non-LTR retrotransposon of Trypanosoma cruzi contains an internal RNA-pol II-dependent promoter that strongly activates gene transcription and generates unspliced transcripts JO - Nucleic Acids Res VL - 35 UR - https://doi.org/10.1093/nar/gkl1137 DO - 10.1093/nar/gkl1137 ID - Heras2007 ER - TY - JOUR AU - Estecio, M. R. H. AU - Gallegos, J. AU - Dekmezian, M. AU - Lu, Y. AU - Liang, S. AU - Issa, J. P. J. PY - 2012 DA - 2012// TI - SINE Retrotransposons Cause Epigenetic Reprogramming of Adjacent Gene Promoters JO - Mol Cancer Res VL - 10 UR - https://doi.org/10.1158/1541-7786.MCR-12-0351 DO - 10.1158/1541-7786.MCR-12-0351 ID - Estecio2012 ER - TY - JOUR AU - Sasaki, T. AU - Nishihara, H. AU - Hirakawa, M. AU - Fujimura, K. AU - Tanaka, M. AU - Kokubo, N. AU - Kimura-Yoshida, C. AU - Matsuo, I. AU - Sumiyama, K. AU - Saitou, N. AU - Shimogori, T. AU - Okada, N. PY - 2008 DA - 2008// TI - Possible involvement of SINEs in mammalian-specific brain formation JO - Proc Natl Acad Sci U S A VL - 105 UR - https://doi.org/10.1073/pnas.0709398105 DO - 10.1073/pnas.0709398105 ID - Sasaki2008 ER - TY - JOUR AU - Piskurek, O. AU - Okada, N. PY - 2007 DA - 2007// TI - Poxviruses as possible vectors for horizontal transfer of retroposons from reptiles to mammals JO - Proc Natl Acad Sci U S A VL - 104 UR - https://doi.org/10.1073/pnas.0700531104 DO - 10.1073/pnas.0700531104 ID - Piskurek2007 ER - TY - JOUR AU - Lander, E. S. AU - Linton, L. M. AU - Birren, B. AU - Nusbaum, C. AU - Zody, M. C. AU - Baldwin, J. PY - 2001 DA - 2001// TI - Initial sequencing and analysis of the human genome JO - Nature VL - 409 UR - https://doi.org/10.1038/35057062 DO - 10.1038/35057062 ID - Lander2001 ER - TY - JOUR AU - Koning, A. P. AU - Gu, W. AU - Castoe, T. A. AU - Batzer, M. A. AU - Pollock, D. D. PY - 2011 DA - 2011// TI - Repetitive Elements May Comprise Over Two-Thirds of the Human Genome JO - PLoS Genet VL - 67 ID - Koning2011 ER - TY - JOUR AU - Abecasis, G. R. AU - Altshuler, D. AU - Auton, L. D. AU - Durbin, R. M. AU - Gibbs, R. A. AU - Hurles, M. E. PY - 2010 DA - 2010// TI - A map of human genome variation from population-scale sequencing JO - Nature VL - 467 UR - https://doi.org/10.1038/nature09534 DO - 10.1038/nature09534 ID - Abecasis2010 ER - TY - JOUR AU - Rishishwar, L. AU - Tellez Villa, C. E. AU - Jordan, I. K. PY - 2015 DA - 2015// TI - Transposable element polymorphisms recapitulate human evolution JO - Mobile DNA VL - 6 UR - https://doi.org/10.1186/s13100-015-0052-6 DO - 10.1186/s13100-015-0052-6 ID - Rishishwar2015 ER - TY - JOUR AU - Vassetzky, N. A. AU - Kramerov, D. A. PY - 2013 DA - 2013// TI - SINEBase: a database and tool for SINE analysis JO - Nucleic Acids Res VL - 41 UR - https://doi.org/10.1093/nar/gks1263 DO - 10.1093/nar/gks1263 ID - Vassetzky2013 ER - TY - JOUR AU - Jurka, J. AU - Kapitonov, V. V. AU - Pavlicek, A. AU - Klonowski, P. AU - Kohany, O. AU - Walichiewicz, J. PY - 2005 DA - 2005// TI - Repbase Update, a database of eukaryotic repetitive elements JO - Cytogenet Genome Res VL - 110 UR - https://doi.org/10.1159/000084979 DO - 10.1159/000084979 ID - Jurka2005 ER - TY - JOUR AU - Okada, N. AU - Hamada, M. AU - Ogiwara, I. AU - Ohshima, K. PY - 1997 DA - 1997// TI - SINEs and LINEs share common 3′ sequences: A review JO - Gene VL - 205 UR - https://doi.org/10.1016/S0378-1119(97)00409-5 DO - 10.1016/S0378-1119(97)00409-5 ID - Okada1997 ER - TY - JOUR AU - Okada, N. AU - Shedlock, A. M. AU - Nikaido, M. PY - 2004 DA - 2004// TI - Retroposon mapping in molecular systematics JO - Methods Mol Biol VL - 260 ID - Okada2004 ER - TY - JOUR AU - Shedlock, A. M. AU - Kazuhiko, T. AU - Okada, N. PY - 2004 DA - 2004// TI - SINEs of speciation: tracking lineages with retroposons JO - TRENDS Ecol Evol VL - 19 UR - https://doi.org/10.1016/j.tree.2004.08.002 DO - 10.1016/j.tree.2004.08.002 ID - Shedlock2004 ER - TY - JOUR AU - Shedlock, A. M. AU - Okada, N. PY - 2000 DA - 2000// TI - SINE insertions: powerful tools for molecular systematics JO - Bioessays VL - 22 UR - https://doi.org/3.0.CO;2-Z DO - 3.0.CO;2-Z ID - Shedlock2000 ER - TY - STD TI - Schmitz J, Ohme M, Zischler H. SINE insertions in cladistic analyses and the phylogenetic affiliations of Tarsius bancanus to other primates. Genetics. 2001;157(2):777–84. ID - ref21 ER - TY - JOUR AU - Deininger, P. L. PY - 2011 DA - 2011// TI - Alu elements: know the SINEs JO - Genome Biol VL - 12 UR - https://doi.org/10.1186/gb-2011-12-12-236 DO - 10.1186/gb-2011-12-12-236 ID - Deininger2011 ER - TY - JOUR AU - Furano, A. V. PY - 2000 DA - 2000// TI - The biological properties and evolutionary dynamics of mammalian LINE-1 retrotransposons JO - Prog Nucleic Acids Res Mol Biol VL - 64 UR - https://doi.org/10.1016/S0079-6603(00)64007-2 DO - 10.1016/S0079-6603(00)64007-2 ID - Furano2000 ER - TY - STD TI - Okada N, Shedlock AM, Nikaido M. Retroposon Mapping in Molecular Systematics. In: Mobile Genetic Elements: Protocols and Genomic Applications, Methods in Molecular Biology. Totowa, New Jersey, U.S.A.: Humana Press; 2004. vol. 260. p. 189–226. ID - ref24 ER - TY - JOUR AU - Carrol, M. L. AU - Roy-Engel, A. M. AU - Nguyen, S. V. AU - Salem, A. H. AU - Vogel, E. AU - Vincent, B. AU - Myers, J. PY - 2001 DA - 2001// TI - Large-scale Analysis of the Alu Ya5 and Yb8 Subfamilies and their Contribution to Human Genomic Diversity JO - J Mol Biol VL - 311 UR - https://doi.org/10.1006/jmbi.2001.4847 DO - 10.1006/jmbi.2001.4847 ID - Carrol2001 ER - TY - JOUR AU - Carter, A. B. AU - Salem, A. H. AU - Hedges, D. J. AU - Nguyen Keegan, C. AU - Kimball, B. AU - Walker, J. A. PY - 2004 DA - 2004// TI - Genome wide analysis of the human Alu Yb8 lineage JO - Hum Genomics VL - 1 ID - Carter2004 ER - TY - JOUR AU - Otieno, A. C. AU - Carter, A. B. AU - Hedges, D. J. AU - Walker, J. A. AU - Ray, D. A. AU - Garber, R. K. AU - Anders, B. A. PY - 2004 DA - 2004// TI - Analysis of the human Alu Ya-lineage JO - J Mol Biol VL - 342 UR - https://doi.org/10.1016/j.jmb.2004.07.016 DO - 10.1016/j.jmb.2004.07.016 ID - Otieno2004 ER - TY - JOUR AU - Garber, R. K. AU - Hedges, D. J. AU - Herke, S. W. AU - Hazard, N. W. AU - Batzer, M. A. PY - 2005 DA - 2005// TI - The Alu Yc1 subfamily: sorting the wheat from the chaff JO - Cytogenet Genome Res VL - 110 UR - https://doi.org/10.1159/000084986 DO - 10.1159/000084986 ID - Garber2005 ER - TY - JOUR AU - Nikaido, M. AU - Piskurek, O. AU - Okada, N. PY - 2007 DA - 2007// TI - Toothed whale monophyly reassessed by SINE insertion analysis: The absence of lineage sorting effects suggest a small population of a common ancestral species JO - Mol Phylogenet Evol VL - 43 UR - https://doi.org/10.1016/j.ympev.2006.08.005 DO - 10.1016/j.ympev.2006.08.005 ID - Nikaido2007 ER - TY - JOUR AU - Nishihara, H. AU - Maruyama, S. AU - Okada, N. PY - 2009 DA - 2009// TI - Retroposon analysis and recent geological data suggest near-simultaneous divergence of the three superorders of mammals JO - Proc Natl Acad Sci U S A VL - 106 UR - https://doi.org/10.1073/pnas.0809297106 DO - 10.1073/pnas.0809297106 ID - Nishihara2009 ER - TY - JOUR AU - Churakov, G. AU - Kriegs, J. O. AU - Baertsch, R. AU - Zemann, A. AU - Brosius, J. AU - Schmitz, J. PY - 2009 DA - 2009// TI - Mosaic retroposon insertion patterns in placental mammals JO - Genome Res VL - 19 UR - https://doi.org/10.1101/gr.090647.108 DO - 10.1101/gr.090647.108 ID - Churakov2009 ER - TY - JOUR AU - Matzke, A. AU - Churakov, G. AU - Berkes, P. AU - Arms, E. M. AU - Kelsey, D. AU - Brosius, J. PY - 2012 DA - 2012// TI - Retroposon Insertion Patterns of neoavian Birds: Strong Evidence for an Extensive Incomplete Lineage Sorting Era JO - Mol Biol Evol VL - 29 UR - https://doi.org/10.1093/molbev/msr319 DO - 10.1093/molbev/msr319 ID - Matzke2012 ER - TY - JOUR AU - Watkins, W. S. AU - Rogers, A. R. AU - Ostler, C. T. AU - Wooding, S. AU - Bamshad, M. J. AU - Brassington, A. M. PY - 2003 DA - 2003// TI - Genetic variation among world populations: inferences from 100 Alu insertion polymorphisms JO - Genome Res VL - 13 UR - https://doi.org/10.1101/gr.894603 DO - 10.1101/gr.894603 ID - Watkins2003 ER - TY - JOUR AU - Kajikawa, M. AU - Okada, N. PY - 2002 DA - 2002// TI - LINEs Mobilize SINEs in the Eel through a Shared 3′ Sequence JO - Cell VL - 111 UR - https://doi.org/10.1016/S0092-8674(02)01041-3 DO - 10.1016/S0092-8674(02)01041-3 ID - Kajikawa2002 ER - TY - JOUR AU - Dewannieux, M. AU - Esnault, C. AU - Heidmann, T. PY - 2003 DA - 2003// TI - LINE-mediated retrotransposition of marked Alu sequences JO - Nat Genet VL - 35 UR - https://doi.org/10.1038/ng1223 DO - 10.1038/ng1223 ID - Dewannieux2003 ER - TY - JOUR AU - Simonti, C. N. AU - Capra, J. A. PY - 2015 DA - 2015// TI - The evolution of the human genome JO - Curr Opin Genet Dev VL - 35 UR - https://doi.org/10.1016/j.gde.2015.08.005 DO - 10.1016/j.gde.2015.08.005 ID - Simonti2015 ER - TY - JOUR AU - Nekrutenko, A. AU - Li, W. H. PY - 2001 DA - 2001// TI - Transposable elements are found in a large number of human protein-coding genes JO - Trends Genet VL - 17 UR - https://doi.org/10.1016/S0168-9525(01)02445-3 DO - 10.1016/S0168-9525(01)02445-3 ID - Nekrutenko2001 ER - TY - JOUR AU - Cordaux, R. AU - Batzer, M. A. PY - 2009 DA - 2009// TI - The impact of retrotransposons on human genome evolution JO - Nat Rev Genet VL - 10 UR - https://doi.org/10.1038/nrg2640 DO - 10.1038/nrg2640 ID - Cordaux2009 ER - TY - STD TI - Hummel S. Ancient DNA Typing. Methods, Strategies and Applications. Berlin, Germany: Springer; 2003. ID - ref39 ER - TY - JOUR AU - Höss, M. AU - Jaruga, P. AU - Zastawny, T. H. AU - Dizdaroglu, M. AU - Pääbo, S. PY - 1996 DA - 1996// TI - DNA damage and DNA sequence retrieval from ancient tissues JO - Nucleic Acid Res VL - 24 UR - https://doi.org/10.1093/nar/24.7.1304 DO - 10.1093/nar/24.7.1304 ID - Höss1996 ER - TY - JOUR AU - Haack, K. AU - Hummel, S. AU - Hummel, B. PY - 2000 DA - 2000// TI - Ancient DNA fragments longer than 300 bp JO - Anthrop Anz VL - 58 ID - Haack2000 ER - TY - JOUR AU - Burger, J. AU - Hummel, S. AU - Herrmann, B. AU - Henke, W. PY - 1999 DA - 1999// TI - DNA preservation: A microsatellite-DNA study on ancient skeletal remains JO - Electrophoresis VL - 20 UR - https://doi.org/3.0.CO;2-4 DO - 3.0.CO;2-4 ID - Burger1999 ER - TY - JOUR AU - Lindahl, T. PY - 1993 DA - 1993// TI - Instability and decay of the primary structure of DNA JO - Nature VL - 32 UR - https://doi.org/10.1038/362709a0 DO - 10.1038/362709a0 ID - Lindahl1993 ER - TY - BOOK AU - Schultes, T. PY - 2000 DA - 2000// TI - Typisierung alter DNA zur Rekonstruktion von Verwandtschaft in einem bronzezeitlichen Skelettkollektiv ID - Schultes2000 ER - TY - BOOK AU - Schilz, F. PY - 2006 DA - 2006// TI - Molekulargenetische Verwandtschaftsanalysen am prähistorischen Skelettkollektiv der Lichtensteinhöhe ID - Schilz2006 ER - TY - JOUR AU - Schultes, T. AU - Hummel, S. AU - Herrmann, B. PY - 2000 DA - 2000// TI - Ancient DNA-typing approaches for the determination of kinship in a disturbed collective burial site JO - Anthrop Anz VL - 58 ID - Schultes2000 ER - TY - JOUR AU - Schilz, F. AU - Hummel, S. AU - Herrmann, B. PY - 2004 DA - 2004// TI - Design of a multiplex PCR for genotyping 16 short tandem repeats in degraded DNA samples JO - Anthrop Anz VL - 62 ID - Schilz2004 ER - TY - STD TI - ensembl.org. http://www.ensembl.org/index.html. UR - http://www.ensembl.org/index.html ID - ref48 ER - TY - JOUR AU - Nelson, D. L. AU - Ledbetter, S. A. AU - Corbo, L. AU - Victoria, M. F. AU - Ramirez-Solis, R. AU - Webster, T. D. AU - Ledbetter, D. H. AU - Caskey, C. T. PY - 1989 DA - 1989// TI - Alu polymerase chain reaction: A method for rapid isolation of human-specific sequences from complex DNA sources JO - Proc Natl Acad Sci U S A VL - 86 UR - https://doi.org/10.1073/pnas.86.17.6686 DO - 10.1073/pnas.86.17.6686 ID - Nelson1989 ER - TY - JOUR AU - Kass, D. H. AU - Batzer, M. A. PY - 1995 DA - 1995// TI - Inter-Alu Polymerase Chain Reaction: Advancements and Applications JO - Anal Biochem VL - 228 UR - https://doi.org/10.1006/abio.1995.1338 DO - 10.1006/abio.1995.1338 ID - Kass1995 ER - TY - STD TI - allstr Autosomal Database for short tandem repeats. http://allstr.de/allstr/searchMarker.seam. Accessed 3rd September 2015. UR - http://allstr.de/allstr/searchMarker.seam ID - ref51 ER - TY - JOUR AU - Hummel, S. AU - Schmidt, D. AU - Kremeyer, B. AU - Herrmann, B. AU - Oppermann, M. PY - 2005 DA - 2005// TI - Detection of the CCR5- Δ32 HIV resistance gene in Bronze Age skeletons JO - Genes Immun VL - 6 UR - https://doi.org/10.1038/sj.gene.6364172 DO - 10.1038/sj.gene.6364172 ID - Hummel2005 ER - TY - STD TI - Konkel MK, Walker JA, Hotard AB, Ranck MC, Fontenot CC, Storer J et al. Sequence Analysis and Characterization of Active Human Alu subfamilies Based on the 1000 Genomes Pilot Project. Genome Biology and Evolution. 2015; doi:10.1093/gbe/evv167. ID - ref53 ER - TY - STD TI - Frischalowski M, Seidenberg V, Großkopf B, Wulf FW, Hummel S. Molekulargenetische Untersuchung des Verwandtschaftsverhältnisses von möglichen Mutter-Kind-Bestattungen aus dem frühzeitlichen Eldagsen. Nachrichten aus Niedersachsens Urgeschichte. 2015;84:(in press). ID - ref54 ER - TY - STD TI - Smit AFA, Hubley R, Green P. RepeatMasker Open-4.0. 2013-2015. http://www.repeatmasker.org. UR - http://www.repeatmasker.org ID - ref55 ER - TY - STD TI - National Center for Biotechnology Information. http://www.ncbi.nlm.nih.gov/assembly/GCF_000001405.26. UR - http://www.ncbi.nlm.nih.gov/assembly/GCF_000001405.26 ID - ref56 ER - TY - JOUR AU - Seidenberg, V. AU - Schilz, F. AU - Pfister, D. AU - Georges, L. AU - Fehren-Schmitz, L. AU - Hummel, S. PY - 2012 DA - 2012// TI - A new miniSTR heptaplex system for genetic fingerprinting of ancient DNA from archaeological human bone JO - J Archaeol Sci VL - 39 UR - https://doi.org/10.1016/j.jas.2012.05.019 DO - 10.1016/j.jas.2012.05.019 ID - Seidenberg2012 ER - TY - JOUR AU - Hall, T. A. PY - 1999 DA - 1999// TI - BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/97/NT JO - Nucl Acids Symp VL - 41 ID - Hall1999 ER - TY - JOUR AU - Brenner, C. H. PY - 1997 DA - 1997// TI - Symbolic Kinship Program JO - Genetics VL - 145 ID - Brenner1997 ER - TY - JOUR AU - Gjertson, D. W. AU - Brenner, C. H. AU - Baur, M. P. AU - Carracedo, A. AU - Guidet, F. AU - Luque, J. A. PY - 2007 DA - 2007// TI - ISFG: Recommendations on biostatistics in paternity testing JO - Forensic Sci Int Genet VL - 1 UR - https://doi.org/10.1016/j.fsigen.2007.06.006 DO - 10.1016/j.fsigen.2007.06.006 ID - Gjertson2007 ER -