Adam Burkholder

Adam Burkholder

UNVERIFIED PROFILE

Are you Adam Burkholder?   Register this Author

Register author
Adam Burkholder

Adam Burkholder

Publications by authors named "Adam Burkholder"

Are you Adam Burkholder?   Register this Author

33Publications

301Reads

26Profile Views

Investigation of the adolescent female breast transcriptome and the impact of obesity.

Breast Cancer Res 2020 May 11;22(1):44. Epub 2020 May 11.

Clinical Research Branch, National Institute of Environmental Health Sciences, 111 TW Alexander Drive, MD A2-03, Research Triangle Park, NC, 27709, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/s13058-020-01279-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7216667PMC
May 2020

Mutation signatures specific to DNA alkylating agents in yeast and cancers.

Nucleic Acids Res 2020 04;48(7):3692-3707

Genome Integrity and Structural Biology Laboratory, National Institute of Environmental Health Sciences, US National Institutes of Health, Research Triangle Park, NC 27709, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkaa150DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7144945PMC
April 2020

Genome-wide mutagenesis resulting from topoisomerase 1-processing of unrepaired ribonucleotides in DNA.

DNA Repair (Amst) 2019 12 3;84:102641. Epub 2019 Jul 3.

Genome Integrity and Structural Biology Laboratory, National Institute of Environmental Health Sciences, US National Institutes of Health, Department of Health and Human Services, Research Triangle Park, NC, USA. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.dnarep.2019.102641DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6901746PMC
December 2019

Multi-walled carbon nanotubes upregulate mitochondrial gene expression and trigger mitochondrial dysfunction in primary human bronchial epithelial cells.

Nanotoxicology 2019 12 3;13(10):1344-1361. Epub 2019 Sep 3.

Immunity, Inflammation & Disease Laboratory, National Institute of Environmental Health Sciences, NIH, Durham, NC, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1080/17435390.2019.1655107DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6879797PMC
December 2019

DNA Polymerase Delta Synthesizes Both Strands during Break-Induced Replication.

Mol Cell 2019 11 5;76(3):371-381.e4. Epub 2019 Sep 5.

Department of Microbiology & Immunology, Columbia University Irving Medical Center, New York, NY 10032, USA; Department of Genetics & Development, Columbia University Irving Medical Center, New York, NY 10032, USA. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.molcel.2019.07.033DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6862718PMC
November 2019

Roles for DNA polymerase δ in initiating and terminating leading strand DNA replication.

Nat Commun 2019 09 5;10(1):3992. Epub 2019 Sep 5.

Genome Integrity & Structural Biology Laboratory, National Institute of Environmental Health Sciences, NIH, DHHS, Research Triangle Park, NC, 27709, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/s41467-019-11995-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6728351PMC
September 2019

Repair of multiple simultaneous double-strand breaks causes bursts of genome-wide clustered hypermutation.

PLoS Biol 2019 09 30;17(9):e3000464. Epub 2019 Sep 30.

Genome Integrity and Structural Biology Laboratory, National Institute of Environmental Health Sciences, US National Institutes of Health, North Carolina, United States of America.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pbio.3000464DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6786661PMC
September 2019

NF-Y controls fidelity of transcription initiation at gene promoters through maintenance of the nucleosome-depleted region.

Nat Commun 2019 07 11;10(1):3072. Epub 2019 Jul 11.

Epigenetics and Stem Cell Biology Laboratory, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, Durham, NC, 27709, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/s41467-019-10905-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6624317PMC
July 2019

Decoding the Inversion Symmetry Underlying Transcription Factor DNA-Binding Specificity and Functionality in the Genome.

iScience 2019 May 6;15:552-591. Epub 2019 Apr 6.

Receptor Biology Section, Reproductive and Developmental Biology Laboratory, National Institute of Environmental Health Sciences/National Institutes of Health, 111 T.W. Alexander Dr., Research Triangle Park, NC 27709, USA. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.isci.2019.04.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6542189PMC
May 2019

Mapping Ribonucleotides Incorporated into DNA by Hydrolytic End-Sequencing.

Methods Mol Biol 2018 ;1672:329-345

Genome Integrity and Structural Biology Laboratory, National Institute for Environmental Health Sciences, National Institute of Health (NIH), 111 TW Alexander Drive, Research Triangle Park, NC, 27709, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-1-4939-7306-4_23DOI Listing
June 2018

Muver, a computational framework for accurately calling accumulated mutations.

BMC Genomics 2018 May 9;19(1):345. Epub 2018 May 9.

Integrative Bioinformatics, National Institute of Environmental Health Sciences, NIH, DHHS, Research Triangle Park, Durham, NC, 27709, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/s12864-018-4753-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5944071PMC
May 2018

Evidence that DNA polymerase δ contributes to initiating leading strand DNA replication in Saccharomyces cerevisiae.

Nat Commun 2018 02 27;9(1):858. Epub 2018 Feb 27.

Genome Integrity and Structural Biology Laboratory, National Institute of Environmental Health Sciences, NIH, DHHS, Research Triangle Park, Durham, NC, 27709, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/s41467-018-03270-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5829166PMC
February 2018

Widespread transcriptional pausing and elongation control at enhancers.

Genes Dev 2018 01 29;32(1):26-41. Epub 2018 Jan 29.

Epigenetics and Stem Cell Biology Laboratory, National Institute of Environmental Health Sciences, Research Triangle Park, North Carolina 27709, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1101/gad.309351.117DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5828392PMC
January 2018

The kinetics of pre-mRNA splicing in the genome and the influence of gene architecture.

Elife 2017 12 27;6. Epub 2017 Dec 27.

Departments of Biology and Biological Engineering, Massachusetts Institute of Technology, Cambridge, United States.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.7554/eLife.32537DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5762160PMC
December 2017

DNA Sequence Constraints Define Functionally Active Steroid Nuclear Receptor Binding Sites in Chromatin.

Endocrinology 2017 10;158(10):3212-3234

Receptor Biology Section, Reproductive and Developmental Biology Laboratory, National Institute of Environmental Health Sciences/National Institutes of Health, Research Triangle Park, North Carolina 27709.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1210/en.2017-00468DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5659708PMC
October 2017

ORIO (Online Resource for Integrative Omics): a web-based platform for rapid integration of next generation sequencing data.

Nucleic Acids Res 2017 Jun;45(10):5678-5690

Office of Scientific Computing, Division of Intramural Research, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, NC 27709, USA.

View Article

Download full-text PDF

Source
https://academic.oup.com/nar/article/45/10/5678/3603320
Publisher Site
http://dx.doi.org/10.1093/nar/gkx270DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5449597PMC
June 2017

RNA polymerase II promoter-proximal pausing in mammalian long non-coding genes.

Genomics 2016 08 16;108(2):64-77. Epub 2016 Jul 16.

Epigenetics and Stem Cell Biology Laboratory, National Institute of Environmental Health Sciences, National Institute of Health, Research Triangle Park, NC 27705, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.ygeno.2016.07.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6524647PMC
August 2016

Downstream Antisense Transcription Predicts Genomic Features That Define the Specific Chromatin Environment at Mammalian Promoters.

PLoS Genet 2016 08 3;12(8):e1006224. Epub 2016 Aug 3.

Epigenetics and Stem Cell Biology Laboratory, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, North Carolina, United States of America.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pgen.1006224DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4972320PMC
August 2016

Analysis of paired end Pol II ChIP-seq and short capped RNA-seq in MCF-7 cells.

Genom Data 2015 Sep;5:263-267

Department of Basic Sciences, University of North Dakota School of Medicine, Grand Forks, ND 58202, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.gdata.2015.06.021DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4516138PMC
September 2015

Bidirectional Transcription Arises from Two Distinct Hubs of Transcription Factor Binding and Active Chromatin.

Mol Cell 2015 Jun 28;58(6):1101-12. Epub 2015 May 28.

Epigenetics and Stem Cell Biology Laboratory, National Institute of Environmental Health Sciences, Research Triangle Park, NC 27709, USA. Electronic address:

View Article

Download full-text PDF

Source
http://www.cell.com/molecular-cell/pdf/S1097-2765(15)00262-2
Web Search
http://linkinghub.elsevier.com/retrieve/pii/S109727651500262
Publisher Site
http://dx.doi.org/10.1016/j.molcel.2015.04.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4475495PMC
June 2015

Pausing of RNA polymerase II regulates mammalian developmental potential through control of signaling networks.

Mol Cell 2015 Apr 12;58(2):311-322. Epub 2015 Mar 12.

Laboratory of Epigenetics and Stem Cell Biology, National Institute of Environmental Health Sciences, Research Triangle Park, NC 27709, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.molcel.2015.02.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4402150PMC
April 2015

Tracking replication enzymology in vivo by genome-wide mapping of ribonucleotide incorporation.

Nat Struct Mol Biol 2015 Mar 26;22(3):185-91. Epub 2015 Jan 26.

Genome Integrity &Structural Biology Laboratory, National Institute of Environmental Health Sciences, National Institute of Health (NIH), Research Triangle Park, North Carolina, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/nsmb.2957DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4351163PMC
March 2015

Heterogeneous polymerase fidelity and mismatch repair bias genome variation and composition.

Genome Res 2014 Nov 12;24(11):1751-64. Epub 2014 Sep 12.

Laboratory of Molecular Genetics, National Institutes of Health, Department of Health and Human Services, Research Triangle Park, North Carolina 27709, USA; Laboratory of Structural Biology, National Institutes of Health, Department of Health and Human Services, Research Triangle Park, North Carolina 27709, USA;

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1101/gr.178335.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4216917PMC
November 2014

TRIM28 regulates RNA polymerase II promoter-proximal pausing and pause release.

Nat Struct Mol Biol 2014 Oct 31;21(10):876-83. Epub 2014 Aug 31.

Department of Radiation Oncology, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, Massachusetts, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/nsmb.2878DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4189995PMC
October 2014

Stable pausing by RNA polymerase II provides an opportunity to target and integrate regulatory signals.

Mol Cell 2013 Nov 31;52(4):517-28. Epub 2013 Oct 31.

Laboratory of Molecular Carcinogenesis, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, NC 27709, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.molcel.2013.10.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3845087PMC
November 2013

Life without TTP: apparent absence of an important anti-inflammatory protein in birds.

Am J Physiol Regul Integr Comp Physiol 2013 Oct 31;305(7):R689-700. Epub 2013 Jul 31.

Laboratory of Signal Transduction, National Institute of Environmental Health Sciences, Research Triangle Park, North Carolina;

View Article

Download full-text PDF

Source
http://ajpregu.physiology.org/content/ajpregu/305/7/R689.ful
Web Search
http://ajpregu.physiology.org/content/ajpregu/early/2013/07/
Web Search
http://ajpregu.physiology.org/cgi/doi/10.1152/ajpregu.00310.
Publisher Site
http://dx.doi.org/10.1152/ajpregu.00310.2013DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3798794PMC
October 2013

Regulating the regulators: the pervasive effects of Pol II pausing on stimulus-responsive gene networks.

Genes Dev 2012 May;26(9):933-44

Laboratory of Molecular Carcinogenesis, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, North Carolina 27709, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1101/gad.187781.112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3347791PMC
May 2012

Biochromoendoscopy: molecular imaging with capsule endoscopy for detection of adenomas of the GI tract.

Gastrointest Endosc 2008 Sep 21;68(3):520-7. Epub 2008 May 21.

Division of Gastroenterology and Hepatology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.gie.2008.02.023DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2754293PMC
September 2008