Dale Hedges - Publications

Affiliations: 
Human Genetics and Genomics University of Miami, Coral Gables, FL 
Area:
Genetics, General Biology

56 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2016 Deininger P, Morales ME, White TB, Baddoo M, Hedges DJ, Servant G, Srivastav S, Smither ME, Concha M, DeHaro DL, Flemington EK, Belancio VP. A comprehensive approach to expression of L1 loci. Nucleic Acids Research. PMID 27899577 DOI: 10.1093/nar/gkw1067  0.8
2015 Streva VA, Jordan VE, Linker S, Hedges DJ, Batzer MA, Deininger PL. Sequencing, identification and mapping of primed L1 elements (SIMPLE) reveals significant variation in full length L1 elements between individuals. Bmc Genomics. 16: 220. PMID 25887476 DOI: 10.1186/s12864-015-1374-y  1
2015 Morales ME, White TB, Streva VA, DeFreece CB, Hedges DJ, Deininger PL. The contribution of alu elements to mutagenic DNA double-strand break repair. Plos Genetics. 11: e1005016. PMID 25761216 DOI: 10.1371/journal.pgen.1005016  1
2014 Linker S, Hedges DJ. Correction: Linear Decay of Retrotransposon Antisense Bias across Genes Is Contingent upon Tissue Specificity. Plos One. 9. PMID 29364980 DOI: 10.1371/annotation/dfa05103-fc65-4f07-b30f-72a6e91613ff  1
2014 Linker S, Hedges DJ. Correction: Linear decay of retrotransposon antisense bias across genes is contingent upon tissue specificity (PLoS ONE) Plos One. 9. DOI: 10.1371/annotation/dfa05103-fc65-4f07-b30f-72a6e91613ff  1
2013 Linker S, Hedges D. Linear decay of retrotransposon antisense bias across genes is contingent upon tissue specificity Plos One. 8. PMID 24244495 DOI: 10.1371/journal.pone.0079402  1
2013 Moreno-Estrada A, Gravel S, Zakharia F, McCauley JL, Byrnes JK, Gignoux CR, Ortiz-Tello PA, Martínez RJ, Hedges DJ, Morris RW, Eng C, Sandoval K, Acevedo-Acevedo S, Norman PJ, Layrisse Z, et al. Reconstructing the population genetic history of the Caribbean. Plos Genetics. 9: e1003925. PMID 24244192 DOI: 10.1371/journal.pgen.1003925  1
2013 Hershberger RE, Hedges DJ, Morales A. Dilated cardiomyopathy: The complexity of a diverse genetic architecture Nature Reviews Cardiology. 10: 531-547. PMID 23900355 DOI: 10.1038/nrcardio.2013.105  1
2013 Norton N, Li D, Rampersaud E, Morales A, Martin ER, Zuchner S, Guo S, Gonzalez M, Hedges DJ, Robertson PD, Krumm N, Nickerson DA, Hershberger RE. Exome sequencing and genome-wide linkage analysis in 17 families illustrate the complex contribution of TTN truncating variants to dilated cardiomyopathy. Circulation. Cardiovascular Genetics. 6: 144-53. PMID 23418287 DOI: 10.1161/CIRCGENETICS.111.000062  1
2013 McElroy JP, Krupp LB, Johnson BA, McCauley JL, Qi Z, Caillier SJ, Gourraud PA, Yu J, Nathanson L, Belman AL, Hauser SL, Waubant E, Hedges DJ, Oksenberg JR. Copy number variation in pediatric multiple sclerosis. Multiple Sclerosis (Houndmills, Basingstoke, England). 19: 1014-21. PMID 23239789 DOI: 10.1177/1352458512469696  1
2013 Lin Z, Wang X, Strong MJ, Concha M, Baddoo M, Xu G, Baribault C, Fewell C, Hulme W, Hedges D, Taylor CM, Flemington EK. Whole-genome sequencing of the Akata and Mutu Epstein-Barr virus strains. Journal of Virology. 87: 1172-82. PMID 23152513 DOI: 10.1128/JVI.02517-12  1
2013 Hadjixenofontos A, Schmidt MA, Whitehead PL, Konidari I, Hedges DJ, Wright HH, Abramson RK, Menon R, Williams SM, Cuccaro ML, Haines JL, Gilbert JR, Pericak-Vance MA, Martin ER, McCauley JL. Evaluating mitochondrial DNA variation in autism spectrum disorders. Annals of Human Genetics. 77: 9-21. PMID 23130936 DOI: 10.1111/j.1469-1809.2012.00736.x  1
2012 Wagstaff BJ, Hedges DJ, Derbes RS, Campos Sanchez R, Chiaromonte F, Makova KD, Roy-Engel AM. Rescuing Alu: recovery of new inserts shows LINE-1 preserves Alu activity through A-tail expansion. Plos Genetics. 8: e1002842. PMID 22912586 DOI: 10.1371/journal.pgen.1002842  1
2012 Hedges DJ, Hamilton-Nelson KL, Sacharow SJ, Nations L, Beecham GW, Kozhekbaeva ZM, Butler BL, Cukier HN, Whitehead PL, Ma D, Jaworski JM, Nathanson L, Lee JM, Hauser SL, Oksenberg JR, et al. Evidence of novel fine-scale structural variation at autism spectrum disorder candidate loci. Molecular Autism. 3: 2. PMID 22472195 DOI: 10.1186/2040-2392-3-2  1
2012 Concha M, Wang X, Cao S, Baddoo M, Fewell C, Lin Z, Hulme W, Hedges D, McBride J, Flemington EK. Identification of new viral genes and transcript isoforms during Epstein-Barr virus reactivation using RNA-Seq. Journal of Virology. 86: 1458-67. PMID 22090128 DOI: 10.1128/JVI.06537-11  1
2011 Chung RH, Ma D, Wang K, Hedges DJ, Jaworski JM, Gilbert JR, Cuccaro ML, Wright HH, Abramson RK, Konidari I, Whitehead PL, Schellenberg GD, Hakonarson H, Haines JL, Pericak-Vance MA, et al. An X chromosome-wide association study in autism families identifies TBL1X as a novel autism spectrum disorder candidate gene in males. Molecular Autism. 2: 18. PMID 22050706 DOI: 10.1186/2040-2392-2-18  1
2011 Hedges DJ, Guettouche T, Yang S, Bademci G, Diaz A, Andersen A, Hulme WF, Linker S, Mehta A, Edwards YJ, Beecham GW, Martin ER, Pericak-Vance MA, Zuchner S, Vance JM, et al. Comparison of three targeted enrichment strategies on the SOLiD sequencing platform. Plos One. 6: e18595. PMID 21559511 DOI: 10.1371/journal.pone.0018595  1
2011 Hedges DJ, Belancio VP. Restless Genomes. Humans as a Model Organism for Understanding Host-Retrotransposable Element Dynamics Advances in Genetics. 73: 219-262. PMID 21310298 DOI: 10.1016/B978-0-12-380860-8.00006-9  1
2010 Xu G, Fewell C, Taylor C, Deng N, Hedges D, Wang X, Zhang K, Lacey M, Zhang H, Yin Q, Cameron J, Lin Z, Zhu D, Flemington EK. Transcriptome and targetome analysis in MIR155 expressing cells using RNA-seq Rna. 16: 1610-1622. PMID 20584899 DOI: 10.1261/rna.2194910  1
2010 Richards S, Gibbs RA, Gerardo NM, Moran N, Nakabachi A, Stern D, Tagu D, Wilson ACC, Muzny D, Kovar C, Cree A, Chacko J, Chandrabose MN, Dao MD, Dinh HH, ... ... Hedges D, et al. Genome sequence of the pea aphid Acyrthosiphon pisum Plos Biology. 8. DOI: 10.1371/journal.pbio.1000313  1
2009 Hedges DJ, Hedges D, Burges D, Powell E, Almonte C, Huang J, Young S, Boese B, Schmidt M, Pericak-Vance MA, Martin E, Zhang X, Harkins TT, Züchner S. Exome sequencing of a multigenerational human pedigree. Plos One. 4: e8232. PMID 20011588 DOI: 10.1371/journal.pone.0008232  1
2009 Witherspoon DJ, Watkins WS, Zhang Y, Xing J, Tolpinrud WL, Hedges DJ, Batzer MA, Jorde LB. Alu repeats increase local recombination rates. Bmc Genomics. 10: 530. PMID 19917129 DOI: 10.1186/1471-2164-10-530  1
2009 Ma D, Salyakina D, Jaworski JM, Konidari I, Whitehead PL, Andersen AN, Hoffman JD, Slifer SH, Hedges DJ, Cukier HN, Griswold AJ, McCauley JL, Beecham GW, Wright HH, Abramson RK, et al. A genome-wide association study of autism reveals a common novel risk locus at 5p14.1. Annals of Human Genetics. 73: 263-73. PMID 19456320 DOI: 10.1111/j.1469-1809.2009.00523.x  1
2009 Comeaux MS, Roy-Engel AM, Hedges DJ, Deininger PL. Diverse cis factors controlling Alu retrotransposition: what causes Alu elements to die? Genome Research. 19: 545-55. PMID 19273617 DOI: 10.1101/gr.089789.108  1
2009 Cukier HN, Pericak-Vance MA, Gilbert JR, Hedges DJ. Sample degradation leads to false-positive copy number variation calls in multiplex real-time polymerase chain reaction assays. Analytical Biochemistry. 386: 288-90. PMID 19121619 DOI: 10.1016/j.ab.2008.11.040  1
2009 Bochukova EG, Roscioli T, Hedges DJ, Taylor IB, Johnson D, David DJ, Deininger PL, Wilkie AO. Rare mutations of FGFR2 causing apert syndrome: identification of the first partial gene deletion, and an Alu element insertion from a new subfamily. Human Mutation. 30: 204-11. PMID 18726952 DOI: 10.1002/humu.20825  1
2008 Gu W, Castoe TA, Hedges DJ, Batzer MA, Pollock DD. Identification of repeat structure in large genomes using repeat probability clouds. Analytical Biochemistry. 380: 77-83. PMID 18541131 DOI: 10.1016/j.ab.2008.05.015  1
2008 Belancio VP, Hedges DJ, Deininger P. Mammalian non-LTR retrotransposons: for better or worse, in sickness and in health. Genome Research. 18: 343-58. PMID 18256243 DOI: 10.1101/gr.5558208  1
2007 Hedges DJ, Deininger PL. Inviting instability: Transposable elements, double-strand breaks, and the maintenance of genome integrity. Mutation Research. 616: 46-59. PMID 17157332 DOI: 10.1016/j.mrfmmm.2006.11.021  1
2007 Gasior SL, Preston G, Hedges DJ, Gilbert N, Moran JV, Deininger PL. Characterization of pre-insertion loci of de novo L1 insertions. Gene. 390: 190-8. PMID 17067767 DOI: 10.1016/j.gene.2006.08.024  1
2007 Lee J, Cordaux R, Han K, Wang J, Hedges DJ, Liang P, Batzer MA. Different evolutionary fates of recently integrated human and chimpanzee LINE-1 retrotransposons. Gene. 390: 18-27. PMID 17055192 DOI: 10.1016/j.gene.2006.08.029  1
2006 Belancio VP, Hedges DJ, Deininger P. LINE-1 RNA splicing and influences on mammalian gene expression. Nucleic Acids Research. 34: 1512-21. PMID 16554555 DOI: 10.1093/nar/gkl027  1
2006 Cordaux R, Hedges DJ, Herke SW, Batzer MA. Estimating the retrotransposition rate of human Alu elements. Gene. 373: 134-7. PMID 16522357 DOI: 10.1016/j.gene.2006.01.019  1
2005 Wang H, Xing J, Grover D, Hedges DJ, Han K, Walker JA, Batzer MA. SVA elements: a hominid-specific retroposon family. Journal of Molecular Biology. 354: 994-1007. PMID 16288912 DOI: 10.1016/j.jmb.2005.09.085  0.6
2005 Hedges DJ, Cordaux R, Xing J, Witherspoon DJ, Rogers AR, Jorde LB, Batzer MA. Modeling the amplification dynamics of human Alu retrotransposons. Plos Computational Biology. 1: e44. PMID 16201008 DOI: 10.1371/journal.pcbi.0010044  1
2005 Ray DA, Hedges DJ, Herke SW, Fowlkes JD, Barnes EW, LaVie DK, Goodwin LM, Densmore LD, Batzer MA. Chompy: an infestation of MITE-like repetitive elements in the crocodilian genome. Gene. 362: 1-10. PMID 16183215 DOI: 10.1016/j.gene.2005.07.010  1
2005 Garber RK, Hedges DJ, Herke SW, Hazard NW, Batzer MA. The Alu Yc1 subfamily: sorting the wheat from the chaff. Cytogenetic and Genome Research. 110: 537-42. PMID 16093706 DOI: 10.1159/000084986  1
2005 Hedges DJ, Batzer MA. From the margins of the genome: mobile elements shape primate evolution. Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. 27: 785-94. PMID 16015599 DOI: 10.1002/bies.20268  1
2005 Han K, Xing J, Wang H, Hedges DJ, Garber RK, Cordaux R, Batzer MA. Under the genomic radar: the stealth model of Alu amplification. Genome Research. 15: 655-64. PMID 15867427 DOI: 10.1101/gr.3492605  1
2005 Ray DA, Xing J, Hedges DJ, Hall MA, Laborde ME, Anders BA, White BR, Stoilova N, Fowlkes JD, Landry KE, Chemnick LG, Ryder OA, Batzer MA. Alu insertion loci and platyrrhine primate phylogeny. Molecular Phylogenetics and Evolution. 35: 117-26. PMID 15737586 DOI: 10.1016/j.ympev.2004.10.023  1
2005 Salem AH, Ray DA, Hedges DJ, Jurka J, Batzer MA. Analysis of the human Alu Ye lineage. Bmc Evolutionary Biology. 5: 18. PMID 15725352 DOI: 10.1186/1471-2148-5-18  1
2005 Walker JA, Hedges DJ, Perodeau BP, Landry KE, Stoilova N, Laborde ME, Shewale J, Sinha SK, Batzer MA. Multiplex polymerase chain reaction for simultaneous quantitation of human nuclear, mitochondrial, and male Y-chromosome DNA: application in human identification. Analytical Biochemistry. 337: 89-97. PMID 15649380 DOI: 10.1016/j.ab.2004.09.036  1
2004 Carter AB, Salem AH, Hedges DJ, Keegan CN, Kimball B, Walker JA, Watkins WS, Jorde LB, Batzer MA. Genome-wide analysis of the human Alu Yb-lineage. Human Genomics. 1: 167-78. PMID 15588477 DOI: 10.1186/1479-7364-1-3-167  1
2004 Xing J, Hedges DJ, Han K, Wang H, Cordaux R, Batzer MA. Alu element mutation spectra: molecular clocks and the effect of DNA methylation. Journal of Molecular Biology. 344: 675-82. PMID 15533437 DOI: 10.1016/j.jmb.2004.09.058  1
2004 Cordaux R, Hedges DJ, Batzer MA. Retrotransposition of Alu elements: how many sources? Trends in Genetics : Tig. 20: 464-7. PMID 15363897 DOI: 10.1016/j.tig.2004.07.012  1
2004 Otieno AC, Carter AB, Hedges DJ, Walker JA, Ray DA, Garber RK, Anders BA, Stoilova N, Laborde ME, Fowlkes JD, Huang CH, Perodeau B, Batzer MA. Analysis of the human Alu Ya-lineage. Journal of Molecular Biology. 342: 109-18. PMID 15313610 DOI: 10.1016/j.jmb.2004.07.016  1
2004 Hedges DJ, Callinan PA, Cordaux R, Xing J, Barnes E, Batzer MA. Differential alu mobilization and polymorphism among the human and chimpanzee lineages. Genome Research. 14: 1068-75. PMID 15173113 DOI: 10.1101/gr.2530404  1
2004 Walker JA, Hughes DA, Hedges DJ, Anders BA, Laborde ME, Shewale J, Sinha SK, Batzer MA. Quantitative PCR for DNA identification based on genome-specific interspersed repetitive elements. Genomics. 83: 518-27. PMID 14962678 DOI: 10.1016/j.ygeno.2003.09.003  1
2004 Walker JA, Garber RK, Hedges DJ, Kilroy GE, Xing J, Batzer MA. Resolution of mixed human DNA samples using mitochondrial DNA sequence variants. Analytical Biochemistry. 325: 171-3. PMID 14715300 DOI: 10.1016/j.ab.2003.10.003  1
2003 Xing J, Salem AH, Hedges DJ, Kilroy GE, Watkins WS, Schienman JE, Stewart CB, Jurka J, Jorde LB, Batzer MA. Comprehensive analysis of two Alu Yd subfamilies. Journal of Molecular Evolution. 57: S76-89. PMID 15008405 DOI: 10.1007/s00239-003-0009-0  1
2003 Callinan PA, Hedges DJ, Salem AH, Xing J, Walker JA, Garber RK, Watkins WS, Bamshad MJ, Jorde LB, Batzer MA. Comprehensive analysis of Alu-associated diversity on the human sex chromosomes. Gene. 317: 103-10. PMID 14604797 DOI: 10.1016/S0378-1119(03)00662-0  1
2003 Salem AH, Ray DA, Xing J, Callinan PA, Myers JS, Hedges DJ, Garber RK, Witherspoon DJ, Jorde LB, Batzer MA. Alu elements and hominid phylogenetics. Proceedings of the National Academy of Sciences of the United States of America. 100: 12787-91. PMID 14561894 DOI: 10.1073/pnas.2133766100  1
2003 Hedges DJ, Walker JA, Callinan PA, Shewale JG, Sinha SK, Batzer MA. Mobile element-based assay for human gender determination. Analytical Biochemistry. 312: 77-9. PMID 12479838 DOI: 10.1016/S0003-2697(02)00430-X  1
2002 Roy-Engel AM, Salem AH, Oyeniran OO, Deininger L, Hedges DJ, Kilroy GE, Batzer MA, Deininger PL. Active Alu element "A-tails": size does matter. Genome Research. 12: 1333-44. PMID 12213770 DOI: 10.1101/gr.384802  1
2002 Li YJ, Scott WK, Hedges DJ, Zhang F, Gaskell PC, Nance MA, Watts RL, Hubble JP, Koller WC, Pahwa R, Stern MB, Hiner BC, Jankovic J, Allen FA, Goetz CG, et al. Age at onset in two common neurodegenerative diseases is genetically controlled. American Journal of Human Genetics. 70: 985-93. PMID 11875758 DOI: 10.1086/339815  1
2001 Wolpert CM, Donnelly SL, Cuccaro ML, Hedges DJ, Poole CP, Wright HH, Gilbert JR, Pericak-Vance MA. De novo partial duplication of chromosome 7p in a male with autistic disorder. American Journal of Medical Genetics. 105: 222-5. PMID 11353439 DOI: 10.1002/ajmg.1258  1
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