Dale Hedges

Dale Hedges

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Dale Hedges

Dale Hedges

Publications by authors named "Dale Hedges"

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

J Clin Oncol 2018 07 30;36(20):2078-2087. Epub 2018 May 30.

Zhaoming Wang, Carmen L. Wilson, John Easton, Andrew Thrasher, Heather Mulder, Dale J. Hedges, Shuoguo Wang, Michael C. Rusch, Michael N. Edmonson, Jennifer Q. Lanctot, Eric Caron, Kyla Shelton, Kelsey Currie, Matthew Lear, Aman Patel, Celeste Rosencrance, Ying Shao, Bhavin Vadodaria, Donald Yergeau, Yadav Sapkota, Russell J. Brooke, Wonjong Moon, Evadnie Rampersaud, Xiaotu Ma, Ti-Cheng Chang, Stephen V. Rice, Cynthia Pepper, Xin Zhou, Xiang Chen, Wenan Chen, Matthew J. Ehrhardt, Matthew J. Krasin, Rebecca M. Howell, Nicholas S. Phillips, Courtney Lewis, Deokumar Srivastava, Ching-Hon Pui, Chimene A. Kesserwan, Gang Wu, Kim E. Nichols, James R. Downing, Melissa M. Hudson, Yutaka Yasui, Leslie L. Robison, and Jinghui Zhang, St Jude Children's Research Hospital, Memphis, TN; Qi Liu, University of Alberta, Edmonton, Alberta, Canada; Shawn Levy, Angela Jones, and Braden Boone, HudsonAlpha Institute for Biotechnology, Huntsville, AL; and Rebecca M. Howell, The University of Texas MD Anderson Cancer Center, Houston, TX.

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http://ascopubs.org/doi/10.1200/JCO.2018.77.8589
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http://dx.doi.org/10.1200/JCO.2018.77.8589DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6036620PMC
July 2018

Germline Mutations in Predisposition Genes in Pediatric Cancer.

N Engl J Med 2015 Dec 18;373(24):2336-2346. Epub 2015 Nov 18.

Departments of Computational Biology (J.Z., G.W., M.N.E., D.H., X.M., X.Z., M.R.W., X.C., M.R., A.P., J.B.B., S.W.), Oncology (M.F.W., T.A.G., R.B.M., S.H.-D., R.N., E.Q., A.G., A.S.P., C.-H.P., K.E.N.), and Pathology (T.A.G., M.R.W., S.A.S., D.W.E., C.-H.P., J.R.D.) and the Pediatric Cancer Genome Project (J.Z., M.F.W., G.W., M.N.E., T.A.G., J.E., X.M., D.A.Y., B.V., X.C., R.B.M., S.H.-D., R.N., E.Q., S.A.S., M.R., A.P., J.B.B., S.W., M.S.W., A.G., D.W.E., A.S.P., C.-H.P., K.E.N., J.R.D.), St. Jude Children's Research Hospital, Memphis, TN; and the Department of Genetics and McDonnell Genome Institute, Washington University School of Medicine in St. Louis, St. Louis (L.D., E.R.M., R.K.W.).

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http://dx.doi.org/10.1056/NEJMoa1508054DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4734119PMC
December 2015

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

PLoS Genet 2015 Mar 11;11(3):e1005016. Epub 2015 Mar 11.

Tulane Cancer Center and Department of Epidemiology, Tulane University Health Sciences Center, New Orleans, Louisiana, United States of America.

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http://dx.doi.org/10.1371/journal.pgen.1005016DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4356517PMC
March 2015

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

PLoS One 2013 14;8(11):e79402. Epub 2013 Nov 14.

Hussman Institute for Human Genomics, Dr John T. Macdonald Foundation Department of Human Genetics, Miller School of Medicine, University of Miami, Miami, Florida, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0079402PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3828378PMC
November 2014

Dilated cardiomyopathy: the complexity of a diverse genetic architecture.

Nat Rev Cardiol 2013 Sep 30;10(9):531-47. Epub 2013 Jul 30.

Division of Human Genetics, The Ohio State University College of Medicine, 460 West 12th Avenue, Columbus, OH 43210, USA.

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http://dx.doi.org/10.1038/nrcardio.2013.105DOI Listing
September 2013

Whole-genome sequencing of the Akata and Mutu Epstein-Barr virus strains.

J Virol 2013 Jan 14;87(2):1172-82. Epub 2012 Nov 14.

Tulane University Health Sciences Center and Tulane Cancer Center, New Orleans, LA, USA.

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http://dx.doi.org/10.1128/JVI.02517-12DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3554088PMC
January 2013

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

PLoS Genet 2012 9;8(8):e1002842. Epub 2012 Aug 9.

Tulane Cancer Center, Department of Epidemiology, Tulane University, New Orleans, Louisiana, United States of America.

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http://dx.plos.org/10.1371/journal.pgen.1002842
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http://dx.doi.org/10.1371/journal.pgen.1002842DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3415434PMC
December 2012

Identification of new viral genes and transcript isoforms during Epstein-Barr virus reactivation using RNA-Seq.

J Virol 2012 Feb 16;86(3):1458-67. Epub 2011 Nov 16.

Tulane University Health Sciences Center and Tulane Cancer Center, New Orleans, Louisiana, USA.

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http://dx.doi.org/10.1128/JVI.06537-11DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3264377PMC
February 2012

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

Adv Genet 2011 ;73:219-62

Hussman Institute for Human Genomics, Dr. John T. Macdonald Foundation Department of Human Genetics, Miller School of Medicine, University of Miami, Miami, Florida, USA.

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http://dx.doi.org/10.1016/B978-0-12-380860-8.00006-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4433537PMC
June 2011

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

PLoS One 2011 Apr 29;6(4):e18595. Epub 2011 Apr 29.

John T. MacDonald Department of Human Genetics, Hussman Institute for Human Genomics, University of Miami Miller School of Medicine, Miami, Florida, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0018595PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3084696PMC
April 2011

Exome sequencing of a multigenerational human pedigree.

PLoS One 2009 Dec 14;4(12):e8232. Epub 2009 Dec 14.

John P. Hussman Institute for Human Genomics, University of Miami Miller School of Medicine, Miami, Florida, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0008232PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2788131PMC
December 2009

Alu repeats increase local recombination rates.

BMC Genomics 2009 Nov 16;10:530. Epub 2009 Nov 16.

Dept. of Human Genetics, University of Utah Health Sciences Center, Salt Lake City, Utah 84112, USA.

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http://dx.doi.org/10.1186/1471-2164-10-530DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2785838PMC
November 2009

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

Genome Res 2009 Apr 9;19(4):545-55. Epub 2009 Mar 9.

Tulane Cancer Center and Dept. of Epidemiology, Tulane University Health Sciences Center, New Orleans, Louisiana 70112, USA.

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http://dx.doi.org/10.1101/gr.089789.108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2665774PMC
April 2009

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

Anal Biochem 2009 Mar 7;386(2):288-90. Epub 2008 Dec 7.

Miami Institute for Human Genomics, Miller School of Medicine, University of Miami, Miami, FL 33136, USA.

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http://dx.doi.org/10.1016/j.ab.2008.11.040DOI Listing
March 2009

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

Anal Biochem 2008 Sep 20;380(1):77-83. Epub 2008 May 20.

Department of Biochemistry and Molecular Genetics, University of Colorado School of Medicine, Aurora, CO 80045, USA.

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http://dx.doi.org/10.1016/j.ab.2008.05.015DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2533575PMC
September 2008

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

Genome Res 2008 Mar 6;18(3):343-58. Epub 2008 Feb 6.

Tulane Cancer Center and Department of Epidemiology, Tulane University Health Sciences Center, New Orleans, Louisiana 70112, USA.

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http://www.genome.org/cgi/doi/10.1101/gr.5558208
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http://dx.doi.org/10.1101/gr.5558208DOI Listing
March 2008

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

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

Department of Biological Sciences, Biological Computation and Visualization Center, Center for BioModular Multi-Scale Systems, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1016/j.gene.2006.08.029DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1847406PMC
April 2007

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

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

Tulane Cancer Center and Department of Epidemiology, Tulane University Health Sciences Center SL-66, 1430 Tulane Ave., New Orleans, LA 70112, United States.

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http://dx.doi.org/10.1016/j.gene.2006.08.024DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1850991PMC
April 2007

Estimating the retrotransposition rate of human Alu elements.

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

Department of Biological Sciences, Biological Computation and Visualization Center, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1016/j.gene.2006.01.019DOI Listing
May 2006

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

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

Tulane Cancer Center, SL66 and Department of Epidemiology, Tulane University Health Sciences Center, 1430 Tulane Ave., New Orleans, LA 70112, USA.

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http://dx.doi.org/10.1093/nar/gkl027DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1415225PMC
April 2006

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

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

Department of Biological Sciences, Biological Computation and Visualization Center, Center for Bio-Modular Multiscale Systems, Louisiana State University, 202 Life Sciences Bldg., Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1016/j.gene.2005.07.010DOI Listing
December 2005

SVA elements: a hominid-specific retroposon family.

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

Department of Biological Sciences, Biological Computation and Visualization Center, Center for BioModular Multi-Scale Systems, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1016/j.jmb.2005.09.085DOI Listing
December 2005

Modeling the amplification dynamics of human Alu retrotransposons.

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

Department of Biological Sciences, Biological Computation and Visualization Center, Center for Bio-Modular Microsystems, Louisiana State University, Baton Rouge, Louisiana, United States of America.

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http://dx.doi.org/10.1371/journal.pcbi.0010044DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1239904PMC
September 2005

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

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

Department of Biological Sciences, Biological Computation and Visualization Center, Louisiana State University, LA 70803, USA.

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http://dx.doi.org/10.1002/bies.20268DOI Listing
August 2005

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

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

Department of Biological Sciences, Biological Computation and Visualization Center, Center for BioModular Multi-Scale Systems, Louisiana State University, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1101/gr.3492605DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1088293PMC
May 2005

Alu insertion loci and platyrrhine primate phylogeny.

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

Department of Biological Sciences, Biological Computation and Visualization Center, Center for Bio-Modular Multi-scale systems, Louisiana State University, 202 Life Sciences Bldg., Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1016/j.ympev.2004.10.023DOI Listing
April 2005

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

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

Department of Biological Sciences, Biological Computation and Visualization Center, Center for Bio-Modular Microsystems, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA.

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http://ac.els-cdn.com/S0003269704007729/1-s2.0-S000326970400
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https://biosci-batzerlab.biology.lsu.edu/Publications/Walker
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http://dx.doi.org/10.1016/j.ab.2004.09.036DOI Listing
February 2005

Analysis of the human Alu Ye lineage.

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

Department of Biological Sciences, Biological Computation and Visualization Center, Center for Bio-Modular Multi-scale Systems, Louisiana State University, 202 Life Sciences Building, Baton Rouge, Louisiana 70803, USA.

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http://dx.doi.org/10.1186/1471-2148-5-18DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC554112PMC
February 2005

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

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

Department of Biological Sciences, Biological Computation and Visualization Center, Center for Bio-Modular Microsystems, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1016/j.jmb.2004.09.058DOI Listing
November 2004

Retrotransposition of Alu elements: how many sources?

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

Department of Biological Sciences, Biological Computation and Visualization Center, Louisiana State University, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1016/j.tig.2004.07.012DOI Listing
October 2004

Analysis of the human Alu Ya-lineage.

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

Department of Biological Sciences, Biological Computation and Visualization Center, Center for Bio-Modular Microsystems, Louisiana State University, 202 Life Sciences Building, Baton Rouge 70803, USA.

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http://dx.doi.org/10.1016/j.jmb.2004.07.016DOI Listing
September 2004

Comprehensive analysis of two Alu Yd subfamilies.

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

Department of Biological Sciences, Biological Computation and Visualization Center, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1007/s00239-003-0009-0DOI Listing
August 2004

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

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

Department of Biological Sciences, Biological Computation and Visualization Center, Louisiana State University, Baton Rouge, Louisiana 70803, USA.

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http://dx.doi.org/10.1101/gr.2530404DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC419785PMC
June 2004

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

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

Department of Biological Sciences, Biological Computation and Visualization Center, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1016/j.ygeno.2003.09.003DOI Listing
March 2004

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

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

Department of Biological Sciences, Biological Computation and Visualization Center, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3525081PMC
March 2004

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

Anal Biochem 2004 Feb;325(1):171-3

Department of Biological Sciences, Biological Computation and Visualization Center, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1016/j.ab.2003.10.003DOI Listing
February 2004

Alu elements and hominid phylogenetics.

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

Department of Biological Sciences, Biological Computation and Visualization Center, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1073/pnas.2133766100DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC240696PMC
October 2003

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

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

Department of Biological Sciences, Biological Computation and Visualization Center, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1016/s0378-1119(03)00662-0DOI Listing
October 2003

Mobile element-based assay for human gender determination.

Anal Biochem 2003 Jan;312(1):77-9

Department of Biological Sciences, Biological Computation and Visualization Center, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1016/s0003-2697(02)00430-xDOI Listing
January 2003

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

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

Tulane Cancer Center, SL-66, Department of Environmental Health Sciences, Tulane University-Health Sciences Center, New Orleans, Louisiana 70112, USA.

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http://dx.doi.org/10.1101/gr.384802DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC186649PMC
September 2002