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Items: 1 to 50 of 52

1.

Genetic Risk for Subsequent Neoplasms Among Long-Term Survivors of Childhood Cancer.

Wang Z, Wilson CL, Easton J, Thrasher A, Mulder H, Liu Q, Hedges DJ, Wang S, Rusch MC, Edmonson MN, Levy S, Lanctot JQ, Caron E, Shelton K, Currie K, Lear M, Patel A, Rosencrance C, Shao Y, Vadodaria B, Yergeau D, Sapkota Y, Brooke RJ, Moon W, Rampersaud E, Ma X, Chang TC, Rice SV, Pepper C, Zhou X, Chen X, Chen W, Jones A, Boone B, Ehrhardt MJ, Krasin MJ, Howell RM, Phillips NS, Lewis C, Srivastava D, Pui CH, Kesserwan CA, Wu G, Nichols KE, Downing JR, Hudson MM, Yasui Y, Robison LL, Zhang J.

J Clin Oncol. 2018 May 30:JCO2018778589. doi: 10.1200/JCO.2018.77.8589. [Epub ahead of print]

PMID:
29847298
2.

A comprehensive approach to expression of L1 loci.

Deininger P, Morales ME, White TB, Baddoo M, Hedges DJ, Servant G, Srivastav S, Smither ME, Concha M, DeHaro DL, Flemington EK, Belancio VP.

Nucleic Acids Res. 2017 Mar 17;45(5):e31. doi: 10.1093/nar/gkw1067.

3.

Sequencing, identification and mapping of primed L1 elements (SIMPLE) reveals significant variation in full length L1 elements between individuals.

Streva VA, Jordan VE, Linker S, Hedges DJ, Batzer MA, Deininger PL.

BMC Genomics. 2015 Mar 21;16:220. doi: 10.1186/s12864-015-1374-y.

4.

The contribution of alu elements to mutagenic DNA double-strand break repair.

Morales ME, White TB, Streva VA, DeFreece CB, Hedges DJ, Deininger PL.

PLoS Genet. 2015 Mar 11;11(3):e1005016. doi: 10.1371/journal.pgen.1005016. eCollection 2015 Mar.

5.

Correction: Linear Decay of Retrotransposon Antisense Bias across Genes Is Contingent upon Tissue Specificity.

Linker S, Hedges DJ.

PLoS One. 2014 Jan 8;9(1). doi: 10.1371/annotation/dfa05103-fc65-4f07-b30f-72a6e91613ff. eCollection 2014.

6.

Linear decay of retrotransposon antisense bias across genes is contingent upon tissue specificity.

Linker S, Hedges DJ.

PLoS One. 2013 Nov 14;8(11):e79402. doi: 10.1371/journal.pone.0079402. eCollection 2013. Erratum in: PLoS One. 2014 Jan 8;9(1):.

7.

Reconstructing the population genetic history of the Caribbean.

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, Parham P, Martínez-Cruzado JC, Burchard EG, Cuccaro ML, Martin ER, Bustamante CD.

PLoS Genet. 2013 Nov;9(11):e1003925. doi: 10.1371/journal.pgen.1003925. Epub 2013 Nov 14.

8.

Dilated cardiomyopathy: the complexity of a diverse genetic architecture.

Hershberger RE, Hedges DJ, Morales A.

Nat Rev Cardiol. 2013 Sep;10(9):531-47. doi: 10.1038/nrcardio.2013.105. Epub 2013 Jul 30. Review.

PMID:
23900355
9.

Exome sequencing and genome-wide linkage analysis in 17 families illustrate the complex contribution of TTN truncating variants to dilated cardiomyopathy.

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; National Heart, Lung, and Blood Institute GO Exome Sequencing Project and the Exome Sequencing Project Family Studies Project Team.

Circ Cardiovasc Genet. 2013 Apr;6(2):144-53. doi: 10.1161/CIRCGENETICS.111.000062. Epub 2013 Feb 15.

10.

Copy number variation in pediatric multiple sclerosis.

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.

Mult Scler. 2013 Jul;19(8):1014-21. doi: 10.1177/1352458512469696. Epub 2012 Dec 13.

11.

Evaluating mitochondrial DNA variation in autism spectrum disorders.

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.

Ann Hum Genet. 2013 Jan;77(1):9-21. doi: 10.1111/j.1469-1809.2012.00736.x. Epub 2012 Nov 6.

12.

Rescuing Alu: recovery of new inserts shows LINE-1 preserves Alu activity through A-tail expansion.

Wagstaff BJ, Hedges DJ, Derbes RS, Campos Sanchez R, Chiaromonte F, Makova KD, Roy-Engel AM.

PLoS Genet. 2012;8(8):e1002842. doi: 10.1371/journal.pgen.1002842. Epub 2012 Aug 9.

13.

Evidence of novel fine-scale structural variation at autism spectrum disorder candidate loci.

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, Cuccaro ML, Haines JL, Gilbert JR, Pericak-Vance MA.

Mol Autism. 2012 Apr 2;3:2. doi: 10.1186/2040-2392-3-2.

14.

An X chromosome-wide association study in autism families identifies TBL1X as a novel autism spectrum disorder candidate gene in males.

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, Martin ER.

Mol Autism. 2011 Nov 4;2(1):18. doi: 10.1186/2040-2392-2-18.

15.

Comparison of three targeted enrichment strategies on the SOLiD sequencing platform.

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, Gilbert JR.

PLoS One. 2011 Apr 29;6(4):e18595. doi: 10.1371/journal.pone.0018595.

16.

Restless genomes humans as a model organism for understanding host-retrotransposable element dynamics.

Hedges DJ, Belancio VP.

Adv Genet. 2011;73:219-62. doi: 10.1016/B978-0-12-380860-8.00006-9. Review.

17.

Exome sequencing of a multigenerational human pedigree.

Hedges DJ, 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.

PLoS One. 2009 Dec 14;4(12):e8232. doi: 10.1371/journal.pone.0008232. Erratum in: PLoS One. 2009;4(12). doi: 10.1371/annotation/b0fe9dd5-16e1-4b50-b590-263518fbd5eb. Hedges, Dale [corrected to Hedges, Dale J].

18.

Alu repeats increase local recombination rates.

Witherspoon DJ, Watkins WS, Zhang Y, Xing J, Tolpinrud WL, Hedges DJ, Batzer MA, Jorde LB.

BMC Genomics. 2009 Nov 16;10:530. doi: 10.1186/1471-2164-10-530.

19.

A genome-wide association study of autism reveals a common novel risk locus at 5p14.1.

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, Martin ER, Hussman JP, Gilbert JR, Cuccaro ML, Haines JL, Pericak-Vance MA.

Ann Hum Genet. 2009 May;73(Pt 3):263-73. doi: 10.1111/j.1469-1809.2009.00523.x.

20.

Diverse cis factors controlling Alu retrotransposition: what causes Alu elements to die?

Comeaux MS, Roy-Engel AM, Hedges DJ, Deininger PL.

Genome Res. 2009 Apr;19(4):545-55. doi: 10.1101/gr.089789.108. Epub 2009 Mar 9.

21.

Sample degradation leads to false-positive copy number variation calls in multiplex real-time polymerase chain reaction assays.

Cukier HN, Pericak-Vance MA, Gilbert JR, Hedges DJ.

Anal Biochem. 2009 Mar 15;386(2):288-90. doi: 10.1016/j.ab.2008.11.040. Epub 2008 Dec 7.

PMID:
19121619
22.

Rare mutations of FGFR2 causing apert syndrome: identification of the first partial gene deletion, and an Alu element insertion from a new subfamily.

Bochukova EG, Roscioli T, Hedges DJ, Taylor IB, Johnson D, David DJ, Deininger PL, Wilkie AO.

Hum Mutat. 2009 Feb;30(2):204-11. doi: 10.1002/humu.20825.

PMID:
18726952
23.

Identification of repeat structure in large genomes using repeat probability clouds.

Gu W, Castoe TA, Hedges DJ, Batzer MA, Pollock DD.

Anal Biochem. 2008 Sep 1;380(1):77-83. doi: 10.1016/j.ab.2008.05.015. Epub 2008 May 20.

24.

Mammalian non-LTR retrotransposons: for better or worse, in sickness and in health.

Belancio VP, Hedges DJ, Deininger P.

Genome Res. 2008 Mar;18(3):343-58. doi: 10.1101/gr.5558208. Epub 2008 Feb 6. Review.

25.

Inviting instability: Transposable elements, double-strand breaks, and the maintenance of genome integrity.

Hedges DJ, Deininger PL.

Mutat Res. 2007 Mar 1;616(1-2):46-59. Epub 2006 Dec 8. Review.

26.

Characterization of pre-insertion loci of de novo L1 insertions.

Gasior SL, Preston G, Hedges DJ, Gilbert N, Moran JV, Deininger PL.

Gene. 2007 Apr 1;390(1-2):190-8. Epub 2006 Sep 12.

27.

Different evolutionary fates of recently integrated human and chimpanzee LINE-1 retrotransposons.

Lee J, Cordaux R, Han K, Wang J, Hedges DJ, Liang P, Batzer MA.

Gene. 2007 Apr 1;390(1-2):18-27. Epub 2006 Sep 16.

28.

LINE-1 RNA splicing and influences on mammalian gene expression.

Belancio VP, Hedges DJ, Deininger P.

Nucleic Acids Res. 2006 Mar 22;34(5):1512-21. Print 2006.

29.

Estimating the retrotransposition rate of human Alu elements.

Cordaux R, Hedges DJ, Herke SW, Batzer MA.

Gene. 2006 May 24;373:134-7. Epub 2006 Mar 7.

PMID:
16522357
30.

SVA elements: a hominid-specific retroposon family.

Wang H, Xing J, Grover D, Hedges DJ, Han K, Walker JA, Batzer MA.

J Mol Biol. 2005 Dec 9;354(4):994-1007. Epub 2005 Oct 19.

PMID:
16288912
31.

Modeling the amplification dynamics of human Alu retrotransposons.

Hedges DJ, Cordaux R, Xing J, Witherspoon DJ, Rogers AR, Jorde LB, Batzer MA.

PLoS Comput Biol. 2005 Sep;1(4):e44. Epub 2005 Sep 30.

32.

Chompy: an infestation of MITE-like repetitive elements in the crocodilian genome.

Ray DA, Hedges DJ, Herke SW, Fowlkes JD, Barnes EW, LaVie DK, Goodwin LM, Densmore LD, Batzer MA.

Gene. 2005 Dec 5;362:1-10. Epub 2005 Sep 23.

PMID:
16183215
33.

The Alu Yc1 subfamily: sorting the wheat from the chaff.

Garber RK, Hedges DJ, Herke SW, Hazard NW, Batzer MA.

Cytogenet Genome Res. 2005;110(1-4):537-42.

PMID:
16093706
34.

From the margins of the genome: mobile elements shape primate evolution.

Hedges DJ, Batzer MA.

Bioessays. 2005 Aug;27(8):785-94. Review.

PMID:
16015599
35.

Under the genomic radar: the stealth model of Alu amplification.

Han K, Xing J, Wang H, Hedges DJ, Garber RK, Cordaux R, Batzer MA.

Genome Res. 2005 May;15(5):655-64.

36.

Alu insertion loci and platyrrhine primate phylogeny.

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.

Mol Phylogenet Evol. 2005 Apr;35(1):117-26. Epub 2005 Jan 18.

PMID:
15737586
37.

Analysis of the human Alu Ye lineage.

Salem AH, Ray DA, Hedges DJ, Jurka J, Batzer MA.

BMC Evol Biol. 2005 Feb 22;5:18.

38.

Multiplex polymerase chain reaction for simultaneous quantitation of human nuclear, mitochondrial, and male Y-chromosome DNA: application in human identification.

Walker JA, Hedges DJ, Perodeau BP, Landry KE, Stoilova N, Laborde ME, Shewale J, Sinha SK, Batzer MA.

Anal Biochem. 2005 Feb 1;337(1):89-97.

PMID:
15649380
39.

Genome-wide analysis of the human Alu Yb-lineage.

Carter AB, Salem AH, Hedges DJ, Keegan CN, Kimball B, Walker JA, Watkins WS, Jorde LB, Batzer MA.

Hum Genomics. 2004 Mar;1(3):167-78.

40.

Alu element mutation spectra: molecular clocks and the effect of DNA methylation.

Xing J, Hedges DJ, Han K, Wang H, Cordaux R, Batzer MA.

J Mol Biol. 2004 Nov 26;344(3):675-82.

PMID:
15533437
41.

Retrotransposition of Alu elements: how many sources?

Cordaux R, Hedges DJ, Batzer MA.

Trends Genet. 2004 Oct;20(10):464-7.

PMID:
15363897
42.

Analysis of the human Alu Ya-lineage.

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.

J Mol Biol. 2004 Sep 3;342(1):109-18.

PMID:
15313610
43.

Differential alu mobilization and polymorphism among the human and chimpanzee lineages.

Hedges DJ, Callinan PA, Cordaux R, Xing J, Barnes E, Batzer MA.

Genome Res. 2004 Jun;14(6):1068-75.

44.

Comprehensive analysis of two Alu Yd subfamilies.

Xing J, Salem AH, Hedges DJ, Kilroy GE, Watkins WS, Schienman JE, Stewart CB, Jurka J, Jorde LB, Batzer MA.

J Mol Evol. 2003;57 Suppl 1:S76-89.

PMID:
15008405
45.

Quantitative PCR for DNA identification based on genome-specific interspersed repetitive elements.

Walker JA, Hughes DA, Hedges DJ, Anders BA, Laborde ME, Shewale J, Sinha SK, Batzer MA.

Genomics. 2004 Mar;83(3):518-27.

PMID:
14962678
46.

Resolution of mixed human DNA samples using mitochondrial DNA sequence variants.

Walker JA, Garber RK, Hedges DJ, Kilroy GE, Xing J, Batzer MA.

Anal Biochem. 2004 Feb 1;325(1):171-3. No abstract available.

PMID:
14715300
47.

Comprehensive analysis of Alu-associated diversity on the human sex chromosomes.

Callinan PA, Hedges DJ, Salem AH, Xing J, Walker JA, Garber RK, Watkins WS, Bamshad MJ, Jorde LB, Batzer MA.

Gene. 2003 Oct 23;317(1-2):103-10.

PMID:
14604797
48.

Alu elements and hominid phylogenetics.

Salem AH, Ray DA, Xing J, Callinan PA, Myers JS, Hedges DJ, Garber RK, Witherspoon DJ, Jorde LB, Batzer MA.

Proc Natl Acad Sci U S A. 2003 Oct 28;100(22):12787-91. Epub 2003 Oct 15.

49.

Mobile element-based assay for human gender determination.

Hedges DJ, Walker JA, Callinan PA, Shewale JG, Sinha SK, Batzer MA.

Anal Biochem. 2003 Jan 1;312(1):77-9. No abstract available.

PMID:
12479838
50.

Active Alu element "A-tails": size does matter.

Roy-Engel AM, Salem AH, Oyeniran OO, Deininger L, Hedges DJ, Kilroy GE, Batzer MA, Deininger PL.

Genome Res. 2002 Sep;12(9):1333-44.

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