Publications
2009
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240. Jazwinski, S. M., S. Kim, J. Dai, L. Li, X. Bi, J. C. Jiang, J. Arnold, M. A. Batzer, J. A. Walker, D. A. Welsh, C. M. Lefante, J. Volaufova, L. Myers, L. J. Su, D. B. Hausman, M. V. Miceli, E. Ravussin, L. W. Poon, K. E. Cherry and M. A. Welsh for the Georgia Centenarian Study and the Louisiana Healthy Aging Study (Submitted) Three-gene interaction associated with exceptional longevity and healthy aging. Science
239. Cherry, K. E., E. M. Jackson, J. L. Silva, J. Volaufova, L. R. LaMotte, D. A. Welsh, L. J. Su, S. M. Jazwinski, R. Ellis, R. H. Wood, M. Frisard for the Louisiana Healthy Aging Study (Submitted) Social network characteristics and physical health in younger, older, and oldest-old adults in the Louisiana Healthy Aging Study (LHAS). Developmental Psychology
238. Warren, W. C., D. F. Clayton, H. Ellegren, A. P. Arnold, L. W. Hillier, A. Kunstner, S. Searle, S. White, A. J. Vilella, S. Fairley, A. Heger, L. Kong, C. P. Ponting, E. Jarvis, C. V. Mello, P. Minx, S.-P. Yang, P. Lovell, T. A. F. Velho, M. Ferris, C. N. Balakrishnan, S. Sinha, C. Blatti, S. E. London, Y. Li, Y.-C. Lin, J. George, J. Sweedler, B. Southey, P. Gunaratne, M. Watson, K. Nam, N. Backstrom, L. Smeds, B. Nabholz, Y. Itoh, J. Howard, A. R. Pfenning, O. Whitney, M. Völker, B. M. Skinner, D. K. Griffin, L. Ye, P. Flicek, V. Quesada, G. Velasco, C. Lopez-Otin, X. S. Puente, T. Olender, D. Lancet, A. F. A. Smit, R. Hubley, M. K. Konkel, J. A. Walker, M. A. Batzer, W. Gu, D. D. Pollock, L. Chen, Z. Cheng, E. E. Eichler, J. Stapley, J. Slate, R. Ekblom, T. Birkhead, T. Burke, D. Burt, C. Scharff, I. Adam, H. Richard, M. Sultan, A. Soldatov, H. Lehrach, S. Edwards, S.-P. Yang, T. Graves, L. Fulton, J. Nelson, A. Chinwalla, S. Hou, E. R. Mardis and R. K. Wilson (Under Revision) The genome of the zebra finch: special insights into vocal learning and communication. Nature
237. Konkel, M. K., J. A. Walker and M. A. Batzer (Under Revision) LINEs and SINEs of primate evolution. Evolutionary Anthropology
236. Witherspoon, D. J., W. S. Watkins, Y. Zhang, J. Xing, W. L. Tolpinrud, D. J. Hedges, M. A. Batzer and L. B. Jorde (In Press) Alu repeats increase local recombination rates. BMC Genomics
235. Meyer, T. J.*, D. Srikanta*, E. M. Conlin and M. A. Batzer (In Press) Heads or tails: L1 insertion-associated 5’ homopolymeric sequences. Mobile DNA
* These authors contributed equally to this work.
234. Cordaux, R., S. K. Sen, M. K. Konkel and M. A. Batzer (In Press) Computational methods for the analysis of primate mobile elements. In "Methods in Molecular Biology - Genetic Variation Edition", M. R. Barnes and G. Breen (Eds.), Humana Press Inc., Totowa, NJ
233. Ray, D. A., K. Han, J. A. Walker and M. A. Batzer (In Press) Laboratory methods for the analysis of primate mobile elements. In "Methods in Molecular Biology - Genetic Variation Edition", M. R. Barnes and G. Breen (Eds.), Humana Press Inc., Totowa, NJ
232. Poon, L., S. M. Jazwinski, R. C. Green, J. L. Woodard, P. Martin, W. L. Rodgers, M. A. Johnson, D. Hausman, J. Arnold, A. Davey, M. A. Batzer, W. R. Markesbery, M. Gearing, I. C. Siegler, J. S. Tenover, E. Cress, L. S. Miller, M. MacDonald, C. Rott, S. Reynolds and J. Dai (In Press) Contributors of longevity and adaptation: findings and new directions from the Georgia centenarian studies. In "Exceptional Longevity", T. T. Perls (Ed.), Johns Hopkins University Press, Baltimore, MD
231. Cherry, K. E., S. Galea, L. J. Su, D. A. Welsh, S. M. Jazwinski, J. L. Silva, M. J. Erwin for the Louisiana Healthy Aging Study (In Press) Cognitive and psychosocial consequences of hurricanes Katrina and Rita among the middle aged, older, and oldest-old adults in the Louisiana Healthy Aging Study (LHAS). Journal of Applied Social Psychology
230. Damert, A., J. Raiz, A. Horn, J. Löwer, H. Wang, J. Xing, M. A. Batzer, R. Löwer and G. G. Schumann (2009) 5'-transducing SVA retrotransposon groups spread efficiently throughout the human genome. Genome Research 19: 1992-2008
229. Ray, D. A., R. N. Platt and M. A. Batzer (2009) Reading between the LINEs to see into the past. Trends in Genetics 25: 475-479
228. Salem, A.-H., E. Farid, R. Fadel, M. Abu-Hijleh, W. Almawi, K. Han and M. A. Batzer (2009) Distribution of four HIV-1-resistance polymorphisms (CCR5-Δ32, CCR5-m303, CCR2-64I and SDF1-3’A) in the Bahraini population. AIDS Research and Human Retroviruses 25: 973-977
227. Srikanta, D., S. K. Sen, E. M. Conlin and M. A. Batzer (2009) Internal Priming: an opportunistic pathway for L1 & Alu retrotransposition in Hominins. Gene 448: 233-241
226. Li, J., K. Han, J. Xing, H.-S. Kim, J. Rogers, O. A. Ryder, T. Disotell, B. Yue and M. A. Batzer (2009) Phylogeny of the macaques (Cercopithecidae: Macaca) based on Alu elements. Gene 448: 242-249
225. Cordaux, R. and M. A. Batzer (2009) The impact of retrotransponsons on human genome evolution. Nature Reviews Genetics 10: 691-703
224. Xing, J., Y. Zhang, K. Han, A.-H. Salem, S. K. Sen, C. D. Huff, Q. Zhou, E. F. Kirkness, S. Levy, M. A. Batzer and L. B. Jorde (2009) Mobile elements create structural variation: analysis of a complete human genome. Genome Research 19: 1516-1526
223. Dobrosielski, D. A., F. L. Greenway, D. A. Welsh, S. M. Jazwinski, M. A. Welsch; Louisiana Healthy Aging Study (2009) Modification of vascular function after handgrip exercise training in 73- to 90-yr-old men. Medicine and Science in Sports and Exercise 41: 1429-1435
222. Salem, A.-H. and M. A. Batzer (2009) High frequency of the D allele of the angiotensin-converting enzyme gene in Arabic populations. BMC Research Notes 2: 99
221. Salem, A.-H., K. Han and M. A. Batzer (2009) Allele frequencies of the human platelet antigen-1 alleles in the Egyptian population. BMC Research Notes 2: 90
220. Pace, J. K., II, S. K. Sen, M. A. Batzer and C. Feschotte (2009) Repair-mediated duplication by capture of proximal chromosomal DNA has fueled vertebrate genome evolution. PLoS Genetics 5: e1000469
219. Frisard, M. I., J. C. Rood, X. Fang, J. Su, D. A. Welsh, S. M. Jazwinski, E. Ravussin for the Louisiana Healthy Aging Study (2009) Metabolic syndrome and risk factors for cardiovascular disease: are nonagenarians protected? AGE 31: 67-75
218. Srikanta, D., S. K. Sen, C. T. Huang, E. Conlin, R. Rhodes and M. A. Batzer (2009) An alternative pathway for Alu retrotransposition suggests a role in DNA double-strand break repair. Genomics 93: 205-212 [cover article]
217. Batzer, M. A. (2009) Editorial. Gene 430: 3
Publications
2008
216. Lee, J., K. Han, T. J. Meyer, H.-S. Kim and M. A. Batzer (2008) Chromosomal inversions between human and chimpanzee lineages caused by retrotransposons. PLoS ONE 3: e4047
215. Han, K., J. Lee, T. J. Meyer, P. Remedios, L. Goodwin and M. A. Batzer (2008) L1 recombination-associated deletions generate human genomic variation. Proceedings of the National Academy of Sciences, USA 105: 19365-19370
214. Johannsen, D. L., J. P. DeLany, M. I. Frisard, M. A. Welsch, C. K. Rowley, X. Fang, S. M. Jazwinski, E. Ravussin for the Louisiana Healthy Aging Study (2008) Physical activity in aging: comparison among young, aged, and nonagenarian individuals. Journal of Applied Physiology 105: 495-501
213. Welsch, M. A., D. A. Dobrosielski, A. A. Arce-Esquivel, R. H. Wood, E. Ravussin, C. Rowley, S. M. Jazwinski for the Louisiana Healthy Aging Study (2008) The association between flow-mediated dilation and physical function in older men. Med. Sci. Sports Exerc. 40: 1237-43
212. Cherry, K. E., K.S. Hawley, E. M. Jackson, J. Volaufova, L. J. Su, S. M. Jazwinski for the Louisiana Healthy Aging Study (2008) Pictorial superiority effects in oldest-old people. Memory 23: 1-14
211. Gu, W., T. A. Castoe, D. J. Hedges, M. A. Batzer and D. D. Pollock (2008) Identification of repeat structure in large genomes using repeat probability clouds. Analytical Biochemistry 380: 77-83
210. Cherry, K. E., S. Galea, J. L. Silva and the Louisiana Healthy Aging Study (2008) Successful aging and natural disasters: Role of adaptation and resiliency in late life. In M. Hersen and A. M. Gross (Eds.) "Handbook of Clinical Psychology: Volume 1": 810-833, John Wiley & Sons, Ltd., Chichester, UK
209. Warren, W. C., L. W. Hillier, J. A. Marshall Graves, E. Birney, C. P. Ponting, F. Grützner, K. Belov, W. Miller, L. Clarke, A. T. Chinwalla, S.-P. Yang, A. Heger, D. Locke, P. Miethke, P. D. Waters, F. Veyrunes, L. Fulton, B. Fulton, T. Graves, J. Wallis, X. S. Puente, C. López-Otín, G. R. Ordóńez, E. E. Eichler, L. Chen, Z. Cheng, J. E. Deakin, A. Alsop, K. Thompson, P. Kirby, A. T. Papenfuss, M. J. Wakefield, T. Olender, D. Lancet, G. A. Huttley, A. F. A. Smit, A. Pask, P. Temple-Smith, M. A. Batzer, J. A. Walker, M. K. Konkel, R. S. Harris, C. M. Whittington, E. S. W. Wong, N. Gemmell, E. Buschiazzo, I. V. Jentzsch, A. Merkel, J. Schmitz, A. Zemann, G. Churakov, J. O. Kriegs, J. Brosius, E. Murchison, R. Sachidanandam, C. Smith, A. Stark, P. Kheradpour, G. Hannon, E. Tsend-Ayush, D. McMillan, R. Attenborough, W. Rens, M. Ferguson-Smith, C. M. Lefčvre, J. A. Sharp, K. R. Nicholas, D. A. Ray, M. Kube, R. Reinhard, T. H. Pringle, J. Taylor, R. C. Jones, B. Nixon, J.-L. Dacheux, H. Niwa, Y. Sekita, X. Huang, P. Flicek, C. Webber, R. Hardison, J. Nelson, K. Hallsworth-Pepin, K. Delehaunty, C. Markovic. P. Minx, Y. Feng, C. Kremitzki, M. Mitreva, J. Glasscock, T. Whylie, P. Wohldmann, P. Thiru, M. Nahn, C. Pol, S. M. Smith, S. Hou, M. Nefedov, P. J. de Jong, M. B. Renfree, E. R. Mardis and R. K. Wilson. (2008) Genome analysis of the platypus reveals unique signatures of evolution. Nature 452: 175-183 [cover article]
208. Roy-Engel, A. M., M. A. Batzer and P. L. Deininger (2008) Evolution of human retrosequences: Alu. In "Encyclopedia of Life Sciences", John Wiley & Sons, Ltd., Chichester, UK
207. Cordaux, R. and M. A. Batzer (2008) Evolutionary emergence of genes through retroposition. In "Encyclopedia of Life Sciences", John Wiley & Sons, Ltd., Chichester, UK
Publications
2007
206. Dai, J., L. Li, S. Kim, B. Kimball, S. M. Jazwinski, J. Arnold for the Georgia Centenarian Study (2007) Exact sample size needed to detect dependence in 2 x 2 x 2 tables. Biometrics 63: 1245-1252
205. Xing, J., D. J. Witherspoon, D. A. Ray, M. A. Batzer and L. B. Jorde (2007) Mobile elements and primate evolution. Yearbook of Physical Anthropology 50: 2-19
204. Han, K.*, J. Lee*, T. J. Meyer, J. Wang, S. K. Sen, D. Srikanta, P. Liang and M. A. Batzer (2007) Alu recombination-mediated structural deletions in the chimpanzee genome. PLoS Genetics 3: 1939-1949
* These authors contributed equally to this work.
203. Frisard, M. I., J. M. Fabre, R. D. Russell, C. M. King, J. P. DeLany, R. H. Wood, E. Ravussin, for the Louisiana Healthy Aging Study (2007) Physical activity level and physical functionality in nonagenarians compared to individuals aged 60-74 years. The Journals of Gerontology Series A: Biological Sciences and Medical Sciences 62: 783-788
202. Frisard, M. I., A. Broussard, S. S. Davies, L. J. Roberts, II, J. Rood, L. de Jonge, X. Fang, S. M. Jazwinski, W. A. Deutsch, E. Ravussin, for the Louisiana Healthy Aging Study (2007) Aging, resting metabolic rate, and oxidative damage: results from the Louisiana Healthy Aging Study. The Journals of Gerontology Series A: Biological Sciences and Medical Sciences 62: 752-759
201. Sen, S. K., C. T. Huang, K. Han and M. A. Batzer (2007) Endonuclease-independent insertion provides an alternative pathway for L1 retrotransposition in the human genome. Nucleic Acids Research 35: 3741-3751
200. Fabre, J. M., R. H. Wood, K. E. Cherry, L. J. Su, M. E. Cress, C. M. King, M. J. deVeer, R. E. Gardner, S. M. Jazwinski and the Louisiana Healthy Aging Study (2007) Age-related deterioration in flexibility is associated with health-related quality of life in nonagenarians. Journal of Geriatric Physical Therapy 30: 16-22
199. Cordaux, R., D. Srikanta, J. Lee, M. Stoneking and M. A. Batzer (2007) In search of polymorphic Alu insertions with restricted geographic distributions. Genomics 90: 154-158
198. Gu, W.*, D. A. Ray*, J. A. Walker, E. W. Barnes, A. J. Gentles, P. B. Samollow, J. Jurka, M. A. Batzer‡ and D. D. Pollock‡ (2007) SINEs, evolution and genome structure in the opossum. Gene 396: 46-58
* These authors contributed equally to this work. ‡ These authors are equal senior authors.
197. Witherspoon, D. J., S. Wooding, A. R. Rogers, E. E. Marchani, W. S. Watkins, M. A. Batzer and L. B. Jorde (2007) Genetic similarities within and between human populations. Genetics 176: 351-359
196. Gentles, A. J., M. J. Wakefield, O. Kohany, W. Gu, M. A. Batzer, D. D. Pollock and J. Jurka (2007) Evolutionary dynamics and biological impact of transposable elements in the short-tailed opossum Monodelphis domestica. Genome Research 17: 992-1004
195. Mikkelsen, T. S., M. J. Wakefield, B. Aken, C. T. Amemiya, J. L. Chang, S. Duke, M. Garber, A. J. Gentles, L. Goodstadt, A. Heger, J. Jurka, M. Kamal, E. Mauceli, S. M. J. Searle, T. Sharpe, M. L. Baker, M. A. Batzer, P. V. Benos, K. Belov, M. Clamp, A. Cook, J. Cuff, R. Das, L. Davidow, J. E. Deakin, M. J. Fazzari, J. L. Glass, M. Grabherr, J. M. Greally, W. Gu, T. A. Hore, G. A. Huttley, R. L. Jirtle, E. Koina, J. T. Lee, S. Mahony, M. A. Marra, R. D. Miller, R. D. Nicholls, M. Oda, A. T. Papenfuss, Z. E. Parra, D. D. Pollock, D. A. Ray, J. E. Schein, T. P. Speed, K. Thompson, J. L. VandeBerg, C. M. Wade, J. A. Walker, P. D. Waters, C. Webber, J. R. Weidman, X. Xie, M. C. Zody, Broad Institute Genome Sequencing Platform, Broad Institute Whole Genome Assembly Team, J. A. Marshall Graves, C. P. Ponting, M. Breen, P. B. Samollow, E. S. Lander and K. Lindblad-Toh (2007) Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences. Nature 447: 167-178 [cover article]
194. Han, K.*, M. K. Konkel*, J. Xing*, H. Wang*, J. Lee, T. J. Meyer, C. T. Huang, E. Sandifer, K. Hebert, E. W. Barnes, R. Hubley, W. Miller, A. F. A. Smit, B. Ullmer and M. A. Batzer (2007) Mobile DNA in Old World monkeys: a glimpse through the rhesus macaque genome. Science 316: 238-240 [cover article]
* These authors contributed equally to this work.
193. Gibbs, R. A., J. Rogers, M. G. Katze, R. Bumgarner, G. M. Weinstock, E. R. Mardis, K. A. Remington, R. L. Strausberg, J. C. Venter, R. K. Wilson, M. A. Batzer, C. D. Bustamante, E. E. Eichler, M. W. Hahn, R. C. Hardison, K. D. Makova, W. Miller, A. Milosavljevic, R. E. Palermo, A. Siepel, J. M. Sikela, T. Attaway, S. Bells, K. E. Bernard, C. J. Buhay, M. N. Chandrabose, M. Dao, C. Davis, K. D. Delehaunty, Y. Ding, H. H. Dinh, S. Dugan-Rocha, L. A. Fulton, R. A. Gabisi, T. T. Garner, J. Godfrey, A. C. Hawes, J. Hernandez, S. Hines, M. Holder, J. Hume, S. N. Jhangiani, V. Joshi, Z. M. Khan, E. F. Kirkness, A. Cree, R. G. Fowler, S. Lee, L. R. Lewis, Z. Li, Y. S. Liu, S. M. Moore, D. Muzny, L. V. Nazareth, D. N. Ngo, G. O. Okwuonu, G. Pai, D. Parker, H. A. Paul, C. Pfannkoch, C. S. Pohl, Y. H. Rogers, S. J. Ruiz, A. Sabo, J. Santibanez, B. W. Schneider, S. M. Smith, E. Sodergren, A. F. Svatek, T. R. Utterback, S. Vattathil, W. Warren, C. S. White, A. T. Chinwalla, Y. Feng, A. L. Halpern, L. W. Hillier, X. Huang, P. Minx, J. O. Nelson, K. H. Pepin, X. Qin, G. G. Sutton, E. Venter, B. P. Walenz, J. W. Wallis, K. C. Worley, S. P. Yang, S. M. Jones, M. A. Marra, M. Rocchi, J. E. Schein, R. Baertsch, L. Clarke, M. Csürös, J. Glasscock, R. A. Harris, P. Havlak, A. R. Jackson, H. Jiang, Y. Liu, D. N. Messina, Y. Shen, H. X. Song, T. Wylie, L. Zhang, E. Birney, K. Han, M. K. Konkel, J. Lee, A. F. Smit, B. Ullmer, H. Wang, J. Xing, R. Burhans, Z. Cheng, J. E. Karro, J. Ma, B. Raney, X. She, M. J. Cox, J. P. Demuth, L. J. Dumas, S. G. Han, J. Hopkins, A. Karimpour-Fard, Y. H. Kim, J. R. Pollack, T. Vinar, C. Addo-Quaye, J. Degenhardt, A. Denby, M. J. Hubisz, A. Indap, C. Kosiol, B. T. Lahn, H. A. Lawson, A. Marklein, R. Nielsen, E. J. Vallender, A. G. Clark, B. Ferguson, R. D. Hernandez, K. Hirani, H. Kehrer-Sawatzki, J. Kolb, S. Patil, L. L. Pu, Y. Ren, D. G. Smith, D. A. Wheeler, I. Schenck, E. V. Ball, R. Chen, D. N. Cooper, B. Giardine, F. Hsu, W. J. Kent, A. Lesk, D. L. Nelson, W. E. O'Brien, K. Prüfer, P. D. Stenson, J. C. Wallace, H. Ke, X. M. Liu, P. Wang, A. P. Xiang, F. Yang, G. P. Barber, D. Haussler, D. Karolchik, A. D. Kern, R. M. Kuhn, K. E. Smith, A. S. Zwieg (2007) Evolutionary and biomedical insights from the rhesus macaque genome. Science 316: 222-234 [cover article]
192. Rogers, A. R., S. Wooding, C. Huff, M. A. Batzer and L. B. Jorde (2007) Ancestral alleles and population origins: inferences depend on mutation rate. Molecular Biology and Evolution 24:990-997
191. Shewale, J. G., E. Schneida, J. Wilson, J. A. Walker, M. A. Batzer and S. K. Sinha (2007) Human genomic DNA quantitation system, H-Quant: Development and validation for use in forensic casework. Journal of Forensic Sciences 52:364-370
190. Herke, S. W., J. Xing, D. A. Ray, J. W. Zimmerman, R. Cordaux and M. A. Batzer (2007) A SINE-based dichotomous key for primate identification. Gene 390:39-51
189. Konkel, M.*, J. Wang*, P. Liang and M. A. Batzer (2007) Identification and characterization of novel polymorphic LINE-1 insertions through comparison of two human genome sequence assemblies. Gene 390:28-38
* These authors contributed equally to this work.
188. Lee, J.*, R. Cordaux*, K. Han*, J. Wang, D. J. Hedges, P. Liang‡ and M. A. Batzer‡ (2007) Different evolutionary fates of recently integrated human and chimpanzee LINE-1 retrotransposons. Gene 390:18-27
* These authors contributed equally to this work. ‡ These authors are equal senior authors.
187. Batzer, M. A., P. L. Deininger, J. Jurka and J. V. Moran (2007) Introduction for the Gene special issue dedicated to the meeting “Genomic Impact of Eukaryotic Transposable Elements” at Asilomar. Gene 390:1-2
186. Mohrenweiser, H., J. Felton, S. Galloway and M. A. Batzer (2007) Mutation Research Carrano Special Issue Dedication Mutation Research 616:1-2
185. Salem, A.-H. and M. A. Batzer (2007) Distribution of the HIV resistance CCR5-delta32 allele among Egyptians and Syrians. Mutation Research 616:175-180
184. Ray, D. A.*, J. A. Walker* and M. A. Batzer (2007) Mobile element based forensic genomics. Mutation Research 616:24-33
* These authors contributed equally to this work.
183. Xing, J., H. Wang, Y. Zhang, D. A. Ray, A. J. Tosi, T. R. Disotell and M. A. Batzer (2007) A mobile element based evolutionary history of guenons (Tribe Cercopithecini). BMC Biology 5:5
Publications
2006
181. Dai, J., A. Davey, I. C. Siegler, J. Arnold, L. W. Poon for the Georgia Centenarian Study (2006) GCSDB: an integrated database system for the Georgian Centenarian Study. Bioinformation 1: 214-219
180. Johnson, M. A., A. Davey, D. B. Hausman, S. Park, L. W. Poon and the Georgia Centenarian Study (2006) Dietary differences between centenarians residing in skilled nursing facilities: the Georgia Centenarians Study. AGE 28: 333-341
179. Martin, P., G. da Rosa, I. C. Siegler, A. Davey, M. MacDonald, L. W. Poon for the Georgia Centenarian Study (2006) Personality and longevity: findings from the Georgia Centenarian Study. AGE 28: 343-352
178. Ray, D. A., J. Xing, A.-H. Salem and M. A. Batzer (2006) SINEs of a nearly perfect character. Systematic Biology 55: 928-935
177. Xing, J.*, H. Wang*, V. P. Belancio, R. Cordaux, P. L. Deininger and M. A. Batzer (2006) Emergence of primate genes by retrotransposon-mediated sequence transduction. Proceedings of the National Academy of Sciences, USA 103: 17608-17613 [cover article]
* These authors contributed equally to this work.
176. Witherspoon, D. J., E. E. Marchani, W. S. Watkins, C. T. Ostler, S. P. Wooding, B. A. Anders, J. D. Fowlkes, S. Boissinot, A. V. Furano, D. A. Ray, A. R. Rogers, M. A. Batzer and L. B. Jorde (2006) Human population genetic structure and diversity inferred from polymorphic L1 (LINE-1) and Alu insertions. Human Heredity 62: 30-46
175. Sen, S. K.*, K. Han*, J. Wang, J. Lee, H. Wang, P. A. Callinan, M. Dyer, R. Cordaux, P. Liang and M. A. Batzer (2006) Human genomic deletions mediated by recombination between Alu elements. American Journal of Human Genetics 79: 41-53
* These authors contributed equally to this work.
174. Cordaux, R., S. Udit, M. A. Batzer and C. Feschotte (2006) Birth of a chimeric primate gene by capture of the transposase gene from a mobile element. Proceedings of the National Academy of Sciences, USA 103: 8101-8106 [cover article]
173. Battilana, J., N. J. R. Fagundes, A. H. Heller, A. Goldani, L. B. Freitas, E. Tarazona-Santos, B. Munkhbat, N. Munkhtuvshin, M. Krylov, L. Benevolenskaia, F. C. Arnett, M. A. Batzer, P. L. Deininger, F. M. Salzano and S. L. Bonatto (2006) Alu insertion polymorphisms in Native Americans and related Asian populations. Annals of Human Biology 33: 142-160
172. Cordaux, R., D. J. Hedges, S. W. Herke and M. A. Batzer (2006) Estimating the retrotransposition rate of human Alu elements. Gene 373: 134-137
171. Cordaux, R., J. Lee, L. Dinoso and M. A. Batzer (2006) Recently integrated Alu retrotransposons are essentially neutral residents of the human genome. Gene 373: 138-144
170. Wang, J.*, L. Song*, D. Grover*, S. Azrak, M. A. Batzer and P. Liang (2006) dbRIP: A highly integrated database of retrotransposon insertion polymorphisms in humans. Human Mutation 27: 323-329
* These authors contributed equally to this research.
169. Callinan, P. A. and M. A. Batzer (2006) Retrotransposable elements and human disease. Genome Dynamics 1: 104-115
168. Dobrosielski, D. A.*, A. A. Arce*, J. D. Allen*, R. H. Wood*, M. A. Welsch* and the Louisiana Healthy Aging Study (2006) Biphasic responses of the brachial artery diameter following forearm occlusion: a blunted response in the elderly. Dynamic Medicine 5: 4
* These authors contributed equally to this work.
167. Seleme, M. C., M. R. Vetter, R. Cordaux, L. Bastone, M. A. Batzer and H. H. Kazazian, Jr. (2006) Extensive individual variation in L1 retrotransposition capability contributes to human genetic diversity. Proceedings of the National Academy of Sciences, USA 103: 6611-6616
166. Hsu, H. C., D. K. Scott, P. Zhang, J. Zhou, P. Yang, Q. Wu, H. W. Schroeder, L. B. Gerald, E. Ravussin, S. M. Jazwinski, J. D. Mountz and the Louisiana Healthy Aging Study (2006) CD8 T-cell immune phenotype of successful aging. Mechanisms of Ageing and Development 127: 231-239
165. Wang, J., L. Song, M. K. Gonder, S. Azrak, D. A. Ray, M. A. Batzer, S. A. Tishkoff and P. Liang (2006) Whole genome computational comparative genomics: a fruitful approach for ascertaining Alu insertion polymorphisms. Gene 365: 11-20
164. Cordaux, R. and M. A. Batzer (2006) Teaching an old dog new tricks: SINEs of canine genomic diversity. Proceedings of the National Academy of Sciences, USA 103: 1157-1158 [cover article commentary]
Publications
2005
* These authors contributed equally to this work.
162. Wood, R. H., R. E. Gardner, K. A. Ferachi, C. King, A. Ermolao, K. E. Cherry, M. E. Cress, S. M. Jazwinski for the Louisiana Healthy Aging Study (2005) Physical function and quality of life in older adults: sex differences. Southern Medicial Journal 98: 504-512
161. Ray, D. A, D. J. Hedges, S. W. Herke, J. D. Fowlkes, E. W. Barnes, D. K. LaVie, L. M. Goodwin, L. D. Densmore and M. A. Batzer (2005) Chompy: An infestation of MITE-like repetitive elements in the crocodilian genome. Gene 362: 1-10
160. Xing, J., H. Wang, K. Han, D. A. Ray, C. H. Huang, L. G. Chemnick, C.-B. Stewart, T. Disotell, O. A. Ryder and M. A. Batzer (2005) A mobile element based phylogeny of Old World monkeys. Molecular Phylogenetics and Evolution 37: 872-880
159. Ray, D. A. and M. A. Batzer (2005) Tracking Alu evolution in New World primates. BMC Evolutionary Biology 5: 51
158. Ray, D. A., J. A. Walker, A. Hall, B. Llewellyn, J. Ballantyne, A. T. Christian, K. Turtletaub and M. A. Batzer (2005) Inference of human geographic origins using Alu insertion polymorphisms. Forensic Science International 153: 117-124
157. Hedges*, D. J., R. Cordaux*, J. Xing, D. J. Witherspoon, A. R. Rogers, L. B. Jorde and M. A. Batzer (2005) Modeling the amplification dynamics of human Alu retrotransposons. PLoS Computational Biology 1: 333-340
* These authors contributed equally to this work.
156. Garber, R .K., D. J. Hedges, S. W. Herke, N. W. Hazard and M. A. Batzer (2005) The Alu Yc1 subfamily: sorting the wheat from the chaff. Cytogenetic and Genome Research 110: 537-542
155. Fagundes, N. J. R., F. M. Salzano, M. A. Batzer, P. L. Deininger and S. L. Bonatto (2005) Worldwide genetic variation at the 3'-UTR region of the LDLR gene: possible influence of natural selection Annals of Human Genetics 69: 389-400
154. Han, K.*, S. K. Sen*, J. Wang*, P. A. Callinan, J. Lee, R. Cordaux, P. Liang and M. A. Batzer (2005) Genomic rearrangements by LINE-1 insertion-mediated deletion in the human and chimpanzee lineages. Nucleic Acids Res. 33: 4040-4052
* These authors contributed equally to this research.
153. Hedges, D. J. and M. A. Batzer (2005) From the margins of the genome: mobile elements shape primate evolution. BioEssays 27: 785-794
152. Salem, A.-H., D. A. Ray, D. J. Hedges, J. Jurka and M. A. Batzer (2005) Analysis of the human Alu Ye lineage. BMC Evolutionary Biology 5: 18
151. Han, K.*, J. Xing*, H. Wang, D. J. Hedges, R. K. Garber, R. Cordaux and M. A. Batzer (2005) Under the genomic radar: the stealth model of Alu amplification. Genome Research 15: 655-664 [cover article]
* These authors contributed equally to this work.
150. Callinan*, P. A., J. Wang*, S. W. Herke*, R. K. Garber, P. Liang and M. A. Batzer (2005) Alu retrotransposition-mediated deletion. Journal of Molecular Biology 348: 791-800
* These authors contributed equally to this work.
149. Ray, D. A., J. Xing, D. J. Hedges, M. Hall, M. E. Laborde, B. A. Anders, B. R. White, N. Stoilova, J. D. Fowlkes, L. Chemnick, O. A. Ryder and M. A. Batzer (2005) Alu insertion loci and platyrrhine primate phylogeny. Molecular Phylogenetics and Evolution 35: 117-126
148. Ho, H. J., D. A. Ray, A.-H. Salem, J. S. Myers and M. A. Batzer (2005) Straightening out the LINEs: LINE-1 element orthologous loci. Genomics 85: 201–207
147. Walker, J. A., D. J. Hedges, B. P. Perodeau, K. E. Landry, N. Stoilova, M. E. Laborde, J. Shewale, S. K. Sinha and M. A. Batzer (2005) Multiplex PCR for simultaneous quantitation of human nuclear, mitochondrial, and male Y-chromosome DNA: Application in human identification. Analytical Biochemistry 337: 89-97
146. Salem, A.-H., D. A. Ray and M. A. Batzer (2005) Identity by descent and DNA sequence variation of human SINE and LINE elements. Cytogenetic and Genome Research 108: 63-72
Publications
2004
* These authors contributed equally to this work
144. Ray, D. A., J. A. Dever, S. G. Platt, T. R. Rainwater, A. G. Finger, S. T. McMurry, M. A. Batzer, B. Barr, P. J. Stafford, J. McKnight and L. D. Densmore (2004) Low levels of nucleotide diversity in Crocodylus moreleii and evidence of hybridization with C. acutus. Conservation Genetics 5: 449-462
143. Xing, J., D. J. Hedges, K. Han, H. Wang, R. Cordaux and M. A. Batzer (2004) Alu element mutation spectra: molecular clocks and the effect of DNA methylation. Journal of Molecular Biology 344: 657-682
142. Cordaux, R., D. J. Hedges and M. A. Batzer (2004) Retrotransposition of Alu elements: how many sources? Trends in Genetics 20: 464-467
141. Hedges, D. J., P.A. Callinan, R. Cordaux, J. Xing, E. Barnes and M. A. Batzer (2004) Differential Alu mobilization and polymorphism among the human and chimpanzee lineages. Genome Research 14: 1068-1075
140. Lovell, A. D., V Yotova, F. Xiao, M. A. Batzer and D. Labuda (2004) Polymorphisms within a polymorphism: SNPs in and around a polymorphic Alu insertion in intron 44 of the human dystrophin gene. J Hum Genet. 49: 269-272
139. Carter, A. B.*, A.-H. Salem*, D. J. Hedges, C. Nguyen Keegan, B. Kimball, J. A. Walker, W. S. Watkins, L. B. Jorde and M. A. Batzer (2004) Genome wide analysis of the human Alu Yb lineage. Human Genomics 1: 167-178
* These authors contributed equally to this work
138. Walker, J. A., D. A. Hughes, D. J. Hedges, B. A. Anders, M. E. Laborde, J. G. Shewale, S. K. Sinha and M. A. Batzer (2004) Quantitative PCR for DNA identification based on genome specific interspersed repetitive elements. Genomics 83: 518-527
137. Walker, J. A., R. K. Garber, G. E. Kilroy, D. Hedges, J. Xing and M. A. Batzer (2004) Resolution of mixed human DNA samples using mtDNA sequence variants. Analytical Biochemistry 325: 171-173
136. Savas, S., B. Frischhertz, M. A. Batzer, P. L. Deininger and B. J. B. Keats (2004) Structure, diversity, and evolution of the 45 base pair VNTR in intron 5 of the USH1C gene. Genomics. 83: 439-444
Publications
2003
134. Deininger, P. L., J. V. Moran, M. A. Batzer and H. H. Kazazian, Jr. (2003) Mobile elements and mammalian genome evolution. Current Opinions in Genetics and Development 13: 651-658
133. Salem, A.-H.*., D. A. Ray*, J. Xing, P. A. Callinan, J. S. Myers, D. J. Hedges, R. K. Garber, D. J. Witherspoon, L. B. Jorde and M. A. Batzer (2003) Alu elements and Hominid phylogenetics. Proceedings of the National Academy of Sciences, USA. 22: 12787-12791
* These authors contributed equally to this research.
132. Zietkiewicz, E., V. Yotova, D. Gehl, T. Wambach, I. Arrieta, M. A. Batzer, D. E .C. Cole, P. Hechtman, F. Kaplan, D. Modiano, J.-P. Moisan, R. Michalski and D. Labuda (2003) Haplotypes in the dystrophin DNA segment point to a mosaic origin of modern humans' diversity. American Journal of Human Genetics 73: 994-1015
131. Chen, Q. Y., N. Jackson, A. Vargus, S. Chalew, J. Rao, M. A. Batzer, M. S. Lan, Y.-H. Chang, M. Mokhashi and D. Lui (2003) Identification of three genomic haplotypes 5' to the CD1D gene and their distribution in four ethnic groups. Tissue Antigens. 62: 442-448
130. Callinan, P. A.*, D. J. Hedges*, A.-H. Salem, J. Xing, J. A. Walker, R. K. Garber, W. S. Watkins, M. J. Bamshad, L. B. Jorde and M. A. Batzer (2003) Comprehensive analysis of Alu associated diversity on the human sex chromosomes. Gene 317: 103-110
* These authors contributed equally to this research.
129. Xing, J., A.-H. Salem, D. J. Hedges, G. E. Kilroy, W. S. Watkins, J. E. Schienman, C.-B. Stewart, J. Jurka, L. B. Jorde and M. A. Batzer (2003) Comprehensive analysis of two Alu Yd subfamilies. Journal of Molecular Evolution 57: S76-S89
128. Salem, A.-H., G. E. Kilroy, W. S. Watkins, L. B. Jorde and M. A. Batzer (2003) Recently Integrated Alu Elements and Human Genomic Diversity. Molecular Biology and Evolution 20: 1349-1361
127. Watkins, W., A. R. Rogers, C. T. Ostler, M. J. Bamshad, A. M. E. Brassington, M. L. Carroll, S. V. Nguyen, J. A. Walker, B. V. R. Prasad, P. G. Reddy, P. K. Das, M. A. Batzer and L. B. Jorde (2003) Genetic variation among world populations: Inference from 100 Alu insertion polymorphisms. Genome Research 13: 1607-1618
126. Vincent, B. J. , J. S. Myers, H. J. Ho, G. E. Kilroy, J. A. Walker, W. S. Watkins, L. B. Jorde and M. A. Batzer (2003) Following the LINEs: an Analysis of Primate Genomic Variation at Human-specific LINE-1 insertion sites. Molecular Biology and Evolution 20: 1338-1348
125. Walker, J. A., D. A. Hughes, B. A. Anders, J. Shewale, S. Sinha and M. A. Batzer (2003) Quantitative intra-SINE PCR for species-specific DNA identification. Analytical Biochemistry 316: 259-269
124. Kayser, M., S. Brauer, H. Schadlich, M. Prinz, M. A. Batzer, P. A. Zimmerman, B. A. Boatin and M. Stoneking (2003) Y chromosome STR haplotypes and the genetic structure of U.S. populations of African, European, and Hispanic ancestry. Genome Research 13: 624-634
123. Walker, J. A., G. E. Kilroy, J. Xing , J. Shewale, S. Sinha and M. A. Batzer (2003) Human DNA quantitation using Alu element based PCR. Analytical Biochemistry 315: 122-128
122. Salem, A.-H.*, J. S. Myers*, A. C. Otieno*, W. S. Watkins, L. B. Jorde and M. A. Batzer (2003) LINE-1 preTa elements in the human genome. Journal of Molecular Biology 326: 1127-1146
* These authors contributed equally to this work.
121. Bamshad, M. J., S. Wooding, W. S. Watkins, C. Ostler, M. A. Batzer and L. B. Jorde (2003) Human population genetic structure and inference of group membership. American Journal of Human Genetics 72: 578-589
120. Hedges, D. J., J. A. Walker, P. A. Callinan, J. G. Shewale, S. K. Sinha and M. A. Batzer (2003) Mobile element-based assay for human gender determination. Analytical Biochemistry 312: 77-79
Publications
2002
118. Deininger, P. L. and M. A. Batzer (2002) Mammalian Retroelements. Genome Research 12: 1455-1465
117. Kass, D. H. and M. A. Batzer (2002) Pseudogenes. In Genetics, R. Robinson (Ed.), Macmillan Reference USA, New York, NY.
116. Kass, D. H. and M. A. Batzer (2002) Transposable genetic elements. In Genetics, R. Robinson (Ed.), Macmillan Reference USA, New York, NY.
115. Roy-Engel, A. M. and M. A. Batzer (2002) Repetitive DNA sequences. In Genetics, R. Robinson (Ed.), Macmillan Reference USA, New York, NY.
114. Kayser, M., S. Brauer, S. Willuweit, H. Schadlich, M. A. Batzer , J. Zawacki, M. Prinz, L. Roewer and M. Stoneking (2002) Online Y-chromosomal short tandem repeat (STR) haplotype reference database for U.S. populations. Journal of Forensic Sciences 47: 513-519
113. Myers, J. S.*, B. J. Vincent*, H. Udall, W. S.Watkins, T. A. Morrish, G. E. Kilroy, G. D. Swergold, J. Henke, L. Henke, J. V. Moran, L. B. Jorde and M. A. Batzer (2002) A comprehensive analysis of recently integrated human Ta L1 Elements. American Journal of Human Genetics 71: 312-326
* These authors contributed equally to this work.
112. Battilana, J., S. L. Bonatto, L. B. Freitas, M. H. Hutz, T. A. Weimer, S. M. Callegari-Jacques, M. A. Batzer , K. Hill, A. M. Hurtado, M. L. Petzl-Erler and F. M. Salzano (2002) Alu insertions vs. blood group plus other protein genetic variability in four Amerindian populations. Annals of Human Biology 29: 334-347
111. Morrish, T. A., N. Gilbert, J. S. Myers, B .J. Vincent, T. Stamato, G. Taccioli, M. A. Batzer and J. V. Moran (2002) DNA repair mediated by endonuclease-independent LINE-1 retrotransposition. Nature Genetics 31: 159-165
110. Batzer, M. A. and P. L. Deininger (2002) Alu repeats and human genomic diversity. Nature Reviews Genetics 3: 370-379
109. Batzer, M. A. (2002) Review of “Genomics Protocols. Edited by M. P. Starkey and R. Elaswarapu. Humana Press, Totowa, NJ, 2001”. Analytical Biochemistry 304: 138
108. Romualdi, C., D. Balding, I. S. Nasidze, G. Risch, M. Robichaux, S. T. Sherry, M. Stoneking, M. A. Batzer and G. Barbujani (2002) Patterns of human diversity, within and among continents, inferred from biallelic DNA polymorphisms. Genome Research 12: 602-612
107. Savas, S., B. Frischertz, M. Z. Pelias, M. A. Batzer, P. L. Deininger and B. J. B. Keats (2002) The USH1C 216G-->A mutation and the 9-repeat VNTR(t,t) allele are in complete linkage disequilibrium in the Acadian population. Human Genetics 110: 95-97
106. Donaldson, C., J. P. Crapanzano, J. C. Watson, E. A. Levine and M. A. Batzer (2002) PROGINS Alu insertion and human genomic diversity. Mutation Research 501: 137-141
105. Roy-Engel, A. M.*, M. L. Carroll*, M. El-Sawy, A.-H. Salem, R. K. Garber, S. V. Nguyen, P. L. Deininger‡ and M. A. Batzer‡ (2002) Non-traditional Alu evolution and primate genomic diversity. Journal of Molecular Biology 316: 1033-1040. [cover article]
* These authors contributed equally to this work. ‡ PLD and MAB are equal senior authors.
Publications
2001
* These authors contributed equally to this work. ‡ MAB and PLD are equal senior authors.
103. Rondeau, G.*, I. Moreau*, S. Bezieau*, J. Petit, R. Heilig, S. Fernandez, E. Pennarun, J. S. Myers, M. A. Batzer, J.-P. Moisan and M.-C. Devilder (2001) Comprehensive analysis of a contiguous genomic sequence at the putative B-CLL tumor suppressor region. Mutation Research 458: 55-70
* These authors contributed equally to this work.
102. Stoneking, M., P. L. Deininger and M. A. Batzer (2001) Alu insertion polymorphisms in human populations: a review. In "Proceedings of Genes, Fossils and Behavior: An Integrated Approach to Human Evolution" P. Donnelly Ed., IOS Press, Amesterdam, The Netherlands, pp. 111-121
101. Deininger, P. L. and M. A. Batzer (2001) Repetitive elements. In “Encyclopedia of Molecular Medicine", T. E. Creighton (Ed.), John Wiley and Sons, New York, NY, volume 4, pp. 2761-2763
100. Deininger, P. L. and M. A. Batzer (2001) SINEs. In “Encyclopedia of Molecular Medicine”, T. E. Creighton (Ed.), John Wiley and Sons, New York, NY, volume 5, pp. 2925-2927
99. Mannino, J. L., M. Wernick, S. V. Nguyen, R. Braquet, A. W. Adamson, Z. Den, M. A. Batzer, C. C. Collins and K. D. Brown (2001) Evidence for alternative splicing within the mRNA transcript encoding the DNA damage response kinase ATR. Gene 272: 35-43
98. Carroll, M. L., A. M. Roy-Engel, S. V. Nguyen, A.-H. Salem, E. Vogel, B. Vincent, J. Myers, Z. Ahmad, L. Nguyen, M. Sammarco, W. S. Watkins, J. Henke, W. Makalowski, L. B. Jorde, P. L. Deininger and M. A. Batzer (2001) Large-scale analysis of the Alu Ya5 and Yb8 subfamilies and their contribution to human genomic diversity. Journal of Molecular Biology 311: 17-40
97. Batzer, M. A. (2001) Review of "DNA Array. Edited by J.B Rampal. Human Press, Totowa, NJ, 2001" . Biochemistry 297: 198
96. Bamshad, M., T. Kivisild, W. S. Watkins, M. E. Dixon, C. E. Ricker, B. B. Rao, J. M. Naidu, B. V. R. Prasad, P. G. Reddy, A. Rasanayagam, S. S. Papiha, R. Villems, M. L. Carroll, S. V. Nguyen, M. A. Batzer and L. B. Jorde (2001) Genetic evidence on the origins of Indian caste populations. Genome Research 11: 994-1004
95. Watkins, W. S., C. E. Ricker, M. J. Bamshad, M. L. Carroll, S. V. Nguyen, M. A. Batzer and L. B. Jorde (2001) Patterns of ancestral human diversity: an analysis of Alu insertion and restriction site polymorphisms. American Journal of Human Genetics 68: 738-752
94. Nasidze, I., G. M. Risch, M. Robichaux, S. T. Sherry, M. A. Batzer and M. Stoneking (2001) Alu insertion polymorphism among human populations from the Caucasus. European Journal of Human Genetics 9: 267-272
93. Justice, C. M., Z. Den, S. V. Nguyen, M. Stoneking, P. L. Deininger, M. A. Batzer and B. J. B. Keats (2001) Phylogenetic analysis of the Friedreich ataxia GAA trinucleotide repeat. Journal of Molecular Evolution 52: 232-238
92. Batzer, M. A. (2001) Review of "Phage Display: A Laboratory Manual. Edited by C.F. Barbas, III, D.R. Burton, J.K. Scott and G.J. Silverman. Cold Spring Harbor Laboratory Press Inc., Cold Spring Harbor, NY, 2001". Analytical Biochemistry 294: 194
91. Melton, T., S. Clifford, M. Kayser, I. Nasidze, M. A. Batzer and M. Stoneking (2001) Diversity and heterogeneity in mitochondrial DNA of North American populations. Journal of Forensic Sciences 46: 46-52
Publications
2000
89. Buchanan, A. V., G. M. Risch, M. Robichaux, S. T. Sherry, M. A. Batzer and K. M. Weiss (2000) Long DOP-PCR of rare archival anthropological samples. Human Biology 72: 911-925
88. Comas, D., F. Calafell, N. Benchemsi, A. Hela, G. Lefranc, M. Stoneking, M. A. Batzer, J. Bertranpetit and A. Sajantila (2000) Alu insertion polymorphisms in Northwest Africa and the Iberia Peninsula: evidence for a strong genetic boundary through the Gibraltar Straits. Human Genetics 107: 312-319
87. Roy, A. M.*, M. L. Carroll*, S. V. Nguyen, A.-H. Salem, M. Oldrifge, A. O. Wilkie, M. A. Batzer‡ and P. L. Deininger‡ (2000) Potential gene conversion and source genes for recently integrated Alu elements. Genome Research 10: 1485-1495
* These authors contributed equally to this work. ‡ MAB and PLD are equal senior authors.
86. Sheen, F.-M.*, S. T. Sherry*, G. M. Risch, M. Robichaux, I. Nasidze, M. Stoneking, M. A. Batzer and G. D. Swergold (2000) Reading between the LINEs: Human genomic variation induced by LINE-1 retrotransposition. Genome Research 10: 1496-1508
* These authors contributed equally to this work.
85. DeAngelis, M. M. and M. A. Batzer (2000) Genome sequence analysis. In "Encyclopedia of Life Sciences" Macmillan Reference Limited, Stockton Press, London, U.K. published online
84. Drury, S., D. Scott, Z. Den, M. M. DeAngelis, M. A. Batzer, V. C. Sheffield, R. J. H. Smith, P. L. Deininger, B. J. B. Keats (2000) Mouse models and progress in human deafness research. In "Genetics and Hearing Loss" C. I. Berlin and B. J. B Keats Eds., Singular Publishing Group, San Diego, CA, pp. 47-59
83. DeAngelis, M. M., C. J. Donaldson, G. M. Ditta, L. M. Buckley, J. P. Doucet, Z. Den, S. Drury, M. Z. Pelias, P. L. Deininger, B. J. B. Keats and M. A. Batzer (2000) Physical maps as molecular tools to identify disease genes. In "Genetics and Hearing Loss" C. I. Berlin and B. J. B Keats Eds., Singular Publishing Group, San Diego, CA, pp. 61-72
82. Jorde, L. B., W. S. Watkins, M. J. Bamshad, M. E. Dixon, C. E. Ricker, M. T. Seielstad and M. A. Batzer (2000) The distribution of human genetic diversity: a comparison of mitochondrial, autosomal, and Y chromosome data. American Journal of Human Genetics 66: 979-988
Publications
1999
80. Roy, A. M.*, M. L. Carroll*, D. H. Kass*, S. V. Nguyen*, A.-H. Salem, M. A. Batzer and P. L. Deininger (1999) Recently integrated human Alu repeats: finding needles in the haystack. Genetica 107: 149-161
* These authors contributed equally to this work.
79. Szabo, Z., S. A. Levi-Minzi, A. M. Christano, C. Struminger, M. Stoneking, M. A. Batzer and C. D. Boyd (1999) Sequential loss of two neighboring exons of the tropoelastin gene during primate evolution. Journal of Molecular Evolution 49: 664-671
78. Deininger, P. L., S. T. Sherry, G. Risch, C. Donaldson, M. B. Robichaux, H. Soodyall, T. Jenkins, F. Sheen, G. Swergold, M. Stoneking and M. A. Batzer (1999) Interspersed repeat insertion polymorphisms for studies of human molecular anthropology. In "Genomic Diversity: Applications in Human Population Genetics", S. S. Papiha, R. Deka and R. Chakraborty (Eds.), Kluwer Academic/Plenum Publishers, New York, NY, pp. 201-212
77. Deininger, P. L. and M. A. Batzer (1999) Alu repeats and human disease. Molecular Genetics and Metabolism 67: 183-193
76. Jaruzelska, J., E. Zietkiewicz, M. A. Batzer, D. Cole, J.-P. Moisan, R. Scozzari, S. Tavare and D. Labuda (1999) Spatial and temporal distribution of the neutral polymorphisms in the last ZFX intron: analysis of the haplotype structure and genealogy. Genetics 152: 1091-1101
75. Good, D., P. Schwarzenberger, J. A. Eastham, R. E. Rhoads, J. D. Hunt, M. Collins, M. A. Batzer, C. Theodossiou, J. K. Kolls and S. R. Grimes (1999) Cloning and characterization of the prostate-specific membrane antigen promoter. Journal of Cellular Biochemistry 74: 395-405
Publications
1998
73. Melton, T., S. Clifford, J. Martinson, M. A. Batzer and M. Stoneking (1998) Genetic evidence for the proto-Austronesian homeland: mitochondrial and nuclear variation in Taiwanese Aboriginal tribes. American Journal of Human Genetics 63: 1807-1823
72. DeAngelis, M. M.*, J. P. Doucet*, S. Drury, S. T. Sherry, M. Robichaux, Z. Den, M. Z. Pelias, G. M. Ditta, B. J. B. Keats, P. L. Deininger and M. A. Batzer (1998) Assembly of a high-resolution map of the Acadian Usher syndrome region and localization of the human nuclear EF-hand acidic gene. Biochimica et Biophysica Acta 1407: 84-91
* These authors contributed equally to this work.
71. Avet-Loiseau, H., R. Garand, F. Gaillard, A. Daviet, M. P. Mellerin, N. Robillard, I. Bouyge, S. Arcot, M. A. Batzer , P. Talmant, J. L. Harousseau, N. Milpied and R. Batille (1998) Detection of t(11;14) using interphase molecular cytogenetics in mantle cell lymphoma and atypical chronic lymphocytic leukemia. Genes Chromosomes and Cancer 23: 175-182
70. Scott, D. A.*, J. H. Greinwald Jr.*, J. R. Marietta*, S. Drury, R. E. Swiderski, A. Vinas, M. M. DeAngelis, R. Carmi, A. Ramesh, M. L. Kraft, K. Elbedour, A. B. Skworak, R. A. Friedman, C. R. Srikumari Srisailapathy, K. Verhoeven, G. Van Camp, M. Lovett, P. L. Deininger, M. A. Batzer, C. C. Morton, B. J. Keats, R. J. H. Smith and V. C. Sheffield (1998) Identification and mutation analysis of a cochlear-expressed, zinc finger protein gene at the DFNB7/11 and dn hearing-loss-loci on human chromosome 9q and mouse chromosome 19. Gene 215: 461-4699
* These authors contributed equally to this work.
69. Vinas, A. M., S. S. Drury, M. M. DeAngelis, Z. Den, J. M. Huang, C. I. Berlin, J. D. Hunt, M. A. Batzer, P. L. Deininger and B. J. B. Keats (1998) The mouse deafness locus (dn) is associated with an inversion on Chromosome 19. Biochimica et Biophysica Acta 1407: 257-262
68. Harpending, H. C., M. A. Batzer, M. Gurven, L. B. Jorde, A. R. Rogers and S. T. Sherry (1998) Genetic traces of ancient demography. Proceedings of the National Academy of Sciences USA 95: 1961-1967
67. Arcot, S. S., A. W. Adamson, G. Risch, J. LaFleur, J. E. Lamerdin, A. V. Carrano and M. A. Batzer (1998) High-resolution cartography of recently integrated chromosome 19-specific Alu fossils. Journal of Molecular Biology 281: 843-855
66. Sherry, S. T., H. C. Harpending, M. Stoneking and M. A. Batzer (1998) Modeling human population structure with polymorphic Alu elements. In " Proceedings of the Trinational Workshop on Molecular Evolution", M. K. Uyenoyama and A. von Haeseler (Eds.), Duke University Publications Group, Durham, North Carolina, pp. 199-211
65. Sherry, S. T., M. A. Batzer and H. C. Harpending (1998) Modeling the genetic architecture of modern populations. Annual Reviews in Anthropology 27: 153-169
64. Zietkiewicz, E., V. Yotova, M. Jarnik, M. Korab-Laskowska, K. K. Kidd, D. Modiano, R. Scozzari, M. Stoneking, S. Tishkoff, M. A. Batzer and D. Labuda (1998) Genetic structure of the ancestral population of modern humans. Journal of Molecular Evolution 47: 146-155
63. Novick, G. E., C. C. Novick, J. Yunis, E. Yunis, P. Antunez de Mayolo, P. L. Deininger, M. Stoneking, M. A. Batzer and R. J. Herrera (1998) Polymorphic Alu insertions and the Asian origin of native American populations. Human Biology 70: 23-39
Publications
1997
61. Bouyge-Moreau, I., G. Rondeau, H. Avet-Loiseau, M.-T. Andre, M. Cherel, S. Bezieau, S. Saleun, T. Shaikh, M. DeAngelis, S. Arcot, M. A. Batzer , J.-P. Moisan and M.-C. Devilder (1997) Construction of a 780 kb PAC, BAC and cosmid contig encompassing the minimal critical deletion involved in B-cell chronic lymphocytic leukemia at 13q14.3. Genomics 46: 183-190
60. Zietkiewicz, E., V. Yotova, M. Jarnik, M. Korab-Laskowska, K. K. Kidd, D. Modiano, R. Scozzari, M. Stoneking, S. Tishkoff, M. A. Batzer and D. Labuda (1997) Nuclear DNA diversity in worldwide distributed human populations. Gene 205: 161-171
59. Sherry, S. T., H. C. Harpending, M. A. Batzer and M. Stoneking (1997) Alu evolution in human populations: using the coalescent to estimate effective population size. Genetics 147: 1977-1982
58. Shaikh, T. H., J. Kim, M. A. Batzer and P. L. Deininger (1997) cDNAs derived from primary Alu and small cytoplasmic Alu (scAlu) transcripts. Journal of Molecular Biology 271: 222-234
57. Stoneking, M., J. J. Fontius, S. Clifford, H. Soodyall, S. S. Arcot, N. Saha, T. Jenkins, M. A. Tahir, P. L. Deininger and M. A. Batzer (1997) Alu insertion polymorphisms and human evolution: evidence for a larger population size in Africa. Genome Research 7: 1061-1071
56. Sherry, S. T. and M. A. Batzer (1997) Modeling human evolution-to tree or not to tree? Genome Research 7: 947-949
55. Melton, T., M. Wilson, M. A. Batzer and M. Stoneking (1997) Extent of heterogeneity in mitochondrial DNA of European populations. Journal of Forensic Sciences 42: 437-446
54. Sherry, S. T., P. L. Deininger, M. Stoneking and M. A. Batzer (1997) Alu repeats and human evolution (response). Journal of Molecular Evolution 45: 7-8
53. Batzer, M. A. (1997) Review of "Methods in Enzymology, Vol. 266, Computer methods for macromolecular sequence analysis. Edited by R. F. Doolittle, Academic Press, San Diego, CA, 1996". Analytical Biochemistry 244: 414
52. Zucman-Rossi, J., M. A. Batzer, M. Stoneking, O. Delattre and G. Thomas (1997) Inter-ethnic polymorphism of EWS intron 6 : genome plasticity mediated by Alu retroposition and recombination. Human Genetics 99: 357-363
51. Batzer, M. A. (1997) Review of "Methods in Molecular Medicine: Molecular Diagnosis of Genetic Diseases. Edited by R. Elles, Human Press Inc., Totowa, NJ, 1996". Analytical Biochemistry 244: 414
Publications
1996
49. Novick, G. E., M. A. Batzer, P. L. Deininger and R. J. Herrera (1996) The mobile genetic element Alu in the human genome. BioScience 46: 32-41
48. Batzer, M. A., S. S. Arcot, J. W. Phinney, M. Alegria-Hartman, D. H. Kass, S. M. Milligan, C. Kimpton, P. Gill, M. Hochmeister, P. A. Ioannou, R. J. Herrera, D. A. Boudreau, W. D. Scheer, B. J. B. Keats, P. L. Deininger and M. Stoneking (1996) Genetic variation of recent Alu insertions in human populations. Journal of Molecular Evolution 42: 22-29
47. Jurka, J. and M. A. Batzer (1996) Human repetitive elements. In "Encyclopedia of Molecular Biology and Molecular Medicine Volume 3", R. A. Meyers (Ed), VCH Publishers, Weinheim, Germany, pp 240-246
46. Batzer, M. A., P. L. Deininger and C. W. Schmid (1996) SINEs, LINEs and retrotransposable elements: functional implications. Journal of Molecular Evolution 42: 1
45. Arcot, S. S., A. W. Adamson, J. E. Lamerdin, B. Kanagy, P. L. Deininger, A. V. Carrano and M. A. Batzer (1996) Alu fossil relics-distribution and insertion polymorphism. Genome Research 6: 1084-1092
44. Batzer, M. A., P. L. Deininger, U. Hellmann-Blumberg, J. Jurka, D. Labuda, C. M. Rubin, C. W. Schmid, E. Zietkiewicz and E. Zuckerkandl (1996) Standardized nomenclature for Alu repeats. Journal of Molecular Evolution 42: 3-6
43. Knight, A., M. A. Batzer, M. Stoneking, H. K. Tiwari, W. D. Scheer, R. J. Herrera and P. L. Deininger (1996) DNA sequences of Alu elements support a recent replacement hypothesis for the human nuclear genetic component. Proceedings of the National Academy of Sciences USA 93: 4360-4364
42. Kass, D. H., M. A. Batzer and P. L. Deininger (1996) Characterization and population diversity of interspersed repeat sequence variants (IRS-morphs). Genome 39: 688-696
Publications
1995
40. Kass, D. H., M. A. Batzer and P. L. Deininger (1995) A new restriction-site polymorphism in exon 18 of the LDL receptor (LDLR) gene. Human Genetics 95: 363-364
39. Batzer, M. A.*, C. M. Rubin*, U. Hellmann-Blumberg, M. Alegria-Hartman, E. P. Leeflang, J. D. Stern, H. A. Bazan, T. H. Shaikh, P. L. Deininger and C. W. Schmid (1995) Dispersion and insertion polymorphism in two small subfamilies of recently amplified human Alu repeats. Journal of Molecular Biology 247: 418-427
* These authors contributed equally to this work.
38. Piontek, K., H. W. Muller, U. Fischer, E. Gottert, M. A. Batzer, P. S. Meltzer, J. M. Trent and E. Meese (1995) Generation and characterization of a human chromosome 6-specific hncDNA library from a somatic cell hybrid. Cytogenetics and Cell Genetics 69: 273-278
37. Arcot, S. S.*, T. H. Shaikh*, J. Kim, L. Bennett, M. Alegria-Hartman, D. O. Nelson, P. L. Deininger and M. A. Batzer (1995) Sequence diversity and chromosomal distribution of 'young' Alu repeats. Gene 163: 273-278
* These authors contributed equally to this work
36. Deininger, P. L. and M. A. Batzer (1995) SINE master genes and population biology. In "The Impact of Short Interspersed Elements (SINEs) on the Host Genome", R. J. Maraia (Ed), R. G. Landes Publishers, Georgetown, Texas, pp 43-60
35. Ashworth, L. K., M. A. Batzer, B. Brandriff, E. Branscomb, P. de Jong, E. Garcia, J. A. Garnes, L. A. Gordon, J. E. Lamerdin, G. Lennon, H. Mohrenweiser, A. S. Olsen, T. Slezak and A. V. Carrano (1995) An integrated metric physical map of human chromosome 19. Nature Genetics 11: 422-427
34. Arcot, S. S., Z. Wang, J. L. Weber, P. L. Deininger and M. A. Batzer (1995) Alu repeats: a source for the genesis of primate microsatellites. Genomics 29: 136-144
33. Kass, D. H. and M. A. Batzer (1995) Inter-Alu polymerase chain reaction: advancements and applications. Analytical Biochemistry 228: 185-193
32. Kass, D. H., M. A. Batzer and P. L. Deininger (1995) Gene conversion as a secondary mechanism of SINE evolution. Molecular and Cellular Biology 15: 19-25
31. Novick, G. E., C. C. Novick, J. Yunis, E. Yunis, K. Martinez, G. G. Duncan, G. M. Troup, P. L. Deininger, M. Stoneking, M. A. Batzer and R. J. Herrera (1995) Polymorphic human specific Alu insertions as markers for human identification. Electrophoresis 16: 1596-1601
30. Ashworth, L. K., M. Alegria-Hartman, M. Burgin, L. Devlin, A. V. Carrano and M. A. Batzer (1995) Assembly of high-resolution bacterial artificial chromosome, P1-derived artificial chromosome, and cosmid contigs. Analytical Biochemistry 224: 564-571
Publications
1994
28. Kass, D. H., C. Aleman, M. A. Batzer and P. L. Deininger (1994) A human specific Alu insertion resulting in a factor XIIIB gene restriction fragment length polymorphism. Genetica 94: 1-8
27. Batzer, M. A., M. Alegria-Hartman, D. H. Kass, G. E. Novick, T. H. Shaikh, H. A. Bazan, P. A. Ioannou, D. A. Boudreau, W. D. Scheer, R. J. Herrera, M. Stoneking and P. L. Deininger (1994) Alu repeats as markers for forensic DNA analyses. In "Proceedings of the First Forensic Experts Conference", M. Schanfield, A. Q. AL Khayat, F. M. Al Shamali (Eds), Bin Dasmal Press, Dubai, Emirates, pp 127-133
26. Batzer, M. A., M. Alegria-Hartman and P. L. Deininger (1994) A consensus Alu repeat probe for physical mapping. Genetic Analysis Techniques and Applications 11: 34-38
25. Rouquier, S., M. A. Batzer and D. Giorgi (1994) Application of bacterial artificial chromosomes to the generation of contiguous physical maps: a pilot study of the human ryanodine receptor gene (RYR1) region. Analytical Biochemistry 217: 205-209
24. Ioannou, P. A.*, C. T. Amemiya*, J. Garnes, P. M. Kroisel, H. Shizuya, C. Chen, M. A. Batzer and P. J. de Jong (1994) A new bacteriophage P1-derived vector for the propagation of large human DNA fragments. Nature Genetics 6: 84-89
* These authors contributed equally to this work.
23. Batzer, M. A.*, M. Stoneking*, M. Alegria-Hartman, H. Bazan, D. H. Kass, T. H. Shaikh, G. E. Novick, P. A. Ioannou, W. D. Scheer, R. J. Herrera and P. L. Deininger (1994) African origin of Human-Specific polymorphic Alu insertions. Proceedings of the National Academy of Sciences USA 91: 12288-12292
* These authors contributed equally to this work.
22. Novick, G. E., C. Menendez, C. C. Novick, G. Duncan, J. Yunis, E. Yunis, P. L. Deininger, M. A. Batzer and R. J. Herrera (1994) The use of polymorphic Alu insertions as a new methodological alternative in human paternity testing and child identification. International Pediatrics 9: 60-68
21. Wong, B. S., P. J. de Jong and M. A. Batzer (1994) A device to facilitate the manual manipulation of arrayed libraries. Analytical Biochemistry 216: 237-239
Publications
1993
19. Deininger, P. L. and M. A. Batzer (1993) Evolution of Retroposons. In "Evolutionary Biology, Volume 27", M. Hect, R. J. MacIntyre and M. Clegg (Eds), Plenum Publishing Corporation, New York, pp. 157-196
18. Flores, B. M., M. A. Batzer, M. A. Stein, C. Petersen, D. L. Diedrich and B. E. Torian (1993) Structural analysis and demonstration of the 29 kDa antigen of pathogenic Entamoeba histolytica as the major accessible free thiol containing surface protein. Molecular Microbiology 7: 755-763
17. Novick, G. E., T. Gonzalez, J. Garrison, C. C. Novick, M. A. Batzer , P. L. Deininger and R. J. Herrera (1993) The use of polymorphic Alu insertions in human DNA fingerprinting. In "DNA Fingerprinting: State of the Science", S. D. J. Pena, R. Chakraborty, J. T. Epplen and A. J. Jeffereys (Eds), Birkhauser Verlag, Basel, pp 283-291
16. Mahadevan, M. S., C. T. Amemiya, G. Jansen, L. Sabourin, S. Baird, C. E. Neville, N. Wormskamp, B. Segers, M. A. Batzer , J. Lamerdin, P. J. de Jong, B. Wieringa and R. G. Korneluk (1993) Structure and genomic sequence of the myotonic dystrophy (DM Kinase) gene. Human Molecular Genetics 2: 299-304
15. Deininger, P. L., M. A. Batzer, C. A. Hutchison III and M. H. Edgell (1993) The generation of sequence similarity in SINEs and LINEs: a reply. Trends in Genetics 9: 38-39
14. Batzer, M. A., C. W. Schmid and P. L. Deininger (1993) Evolutionary analyses of repetitive DNA sequences. Methods in Enzymology 224: 213-232
Publications
1992
12. Deininger, P. L., M. A. Batzer, C. A. Hutchison III and M. H. Edgell (1992) Master genes in mammalian repetitive DNA amplification. Trends in Genetics 8: 307-311
11. Batzer, M. A. , H. A. Bazan, J. Kim, S. L. Morrow, T. H. Shaikh, S. S. Arcot and P. L. Deininger (1992) Large-scale subcloning of bacteriophage lambda ZAP clones. BioTechniques 12: 370-371
10. Reed, S. L., B. M. Flores, M. A. Batzer, M. A. Stein, J. E. Carlton, D. L. Diedrich and B. E. Torian (1992) Molecular and cellular characterization of the 29kDa peripheral membrane protein of Entamoeba histolytica : differentiation between pathogenic and nonpathogenic isolates. Infection and Immunity 60: 542-549
Publications
1991
8. Shen, M. R., M. A. Batzer and P. L. Deininger (1991) Evolution of the master Alu gene(s). Journal of Molecular Evolution 33: 311-320
7. Batzer, M. A., V. A. Gudi, J. C. Mena, D. W. Foltz, R. J. Herrera and P. L. Deininger (1991) Amplification dynamics of Human-Specific (HS) Alu family members. Nucleic Acids Research 19: 3619-3623
6. Batzer, M. A. and P. L. Deininger (1991) A human-specific subfamily of Alu sequences. Genomics 9: 481-487
Publications
1990
Publications
1988
3. LoMonaco, M. B., M. A. Batzer, B. Tedeschi, S. H. Chang and W. R. Lee (1988) Molecular analysis of Drosophila melanogaster AdhnLA405 confirms the reliability of DNA sequencing methodology. Mutation Research 207: 53-56
2. Batzer, M. A., T. D. Desselle, M. D. Brennan, W. R. Lee and B. Tedeschi (1988) Molecular analysis of alcohol dehydrogenase electromorphs in wild type and transformed Drosophila melanogaster. Biochemical and Biophysical Research Communications 150: 655-664
