Dr David C Samuels, PhD - Vanderbilt University Medical Center - Associate Professor

Dr David C Samuels

PhD

Vanderbilt University Medical Center

Associate Professor

Nashville, TN | United States

Additional Specialties: Genetics

ORCID logohttps://orcid.org/0000-0003-3529-7791

Dr David C Samuels, PhD - Vanderbilt University Medical Center - Associate Professor

Dr David C Samuels

PhD

Introduction

Primary Affiliation: Vanderbilt University Medical Center - Nashville, TN , United States

Additional Specialties:

Education

Jan 1983 - Jan 1990
University of Oregon
PhD
Physics
Jan 1980 - Jan 1983
Washington University in St. Louis
BA
Physics

Experience

Jan 2009 - Jan 2009
Vanderbilt University
Associate Professor
Molecular Physiology and Biophysics
Jan 2002 - Jan 2002
Virginia Polytechnic Institute and State University
Assitant Prefessor
Virginia Bioinformatics Institute
Jan 2001 - Jan 2001
University of Newcastle-upon-Tyne
Reader in Applied Mathematics
Mathematics
Jan 1996 - Jan 2001
University of Newcastle-upon-Tyne
Lecturer
Mathematics
Jan 1993 - Jan 1996
Emory University
Postdoctoral Research Assistant
Physics
Jan 1990 - Jan 1992
Stanford University
Postdoctoral Fellow
Mechanical Engineering
Jan 1990 - Jan 1992
NASA Ames Research Center
Postdoctral Fellow
Center for Turbulence Research

Publications

114Publications

2190Reads

24Profile Views

1928PubMed Central Citations

Mitochondrial DNA Haplogroups and Delirium During Sepsis.

Crit Care Med 2019 Aug;47(8):1065-1071

Clinical Research, Investigation, and Systems Modeling of Acute illness (CRISMA) Center in the Department of Critical Care Medicine, University of Pittsburgh School of Medicine.

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http://dx.doi.org/10.1097/CCM.0000000000003810DOI Listing
August 2019
4 Reads
6.312 Impact Factor

Quality and concordance of genotyping array data of 12,064 samples from 5840 cancer patients.

Genomics 2019 07 11;111(4):950-957. Epub 2018 Jun 11.

Department of Internal Medicine, University of New Mexico, Albuquerque, NM 87131, USA. Electronic address:

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http://dx.doi.org/10.1016/j.ygeno.2018.06.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6546549PMC
July 2019
15 Reads
2.284 Impact Factor

Genomic and transcriptomic characterization of the mitochondrial-rich oncocytic phenotype on a thyroid carcinoma background.

Mitochondrion 2019 05 6;46:123-133. Epub 2018 Apr 6.

Instituto de Investigação e Inovação em Saúde (i3S), Universidade do Porto, Porto, Portugal; Instituto de Patologia e Imunologia Molecular da Universidade do Porto (IPATIMUP), Porto, Portugal; Departamento de Patologia, Faculdade de Medicina da Universidade do Porto, Porto, Portugal. Electronic address:

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http://dx.doi.org/10.1016/j.mito.2018.04.001DOI Listing
May 2019
4 Reads
1 Citation
3.250 Impact Factor

Genomic Positional Dissection of RNA Editomes in Tumor and Normal Samples.

Front Genet 2019 20;10:211. Epub 2019 Mar 20.

Department of Internal Medicine, The University of New Mexico, Albuquerque, NM, United States.

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http://dx.doi.org/10.3389/fgene.2019.00211DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6435843PMC
March 2019
22 Reads

Architectures and accuracy of artificial neural network for disease classification from omics data.

BMC Genomics 2019 Mar 4;20(1):167. Epub 2019 Mar 4.

Department of Internal Medicine, University of New Mexico, Albuquerque, NM, 87131, USA.

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http://dx.doi.org/10.1186/s12864-019-5546-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6399893PMC
March 2019
5 Reads
3.986 Impact Factor

Single-nucleotide variants in human RNA: RNA editing and beyond.

Brief Funct Genomics 2019 02;18(1):30-39

Key Laboratory of Resource Biology and Biotechnology in Western China, School of Life Sciences, Northwest University,Xi'an, Shaanxi, China.

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https://academic.oup.com/bfg/advance-article/doi/10.1093/bfg
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http://dx.doi.org/10.1093/bfgp/ely032DOI Listing
February 2019
5 Reads
3.670 Impact Factor

Corrigendum to: Single-nucleotide variants in human RNA: RNA editing and beyond.

Brief Funct Genomics 2019 02;18(1):40

Key Laboratory of Resource Biology and Biotechnology in Western China, School of Life Sciences, Northwest University,Xi'an, Shaanxi, China.

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http://dx.doi.org/10.1093/bfgp/ely041DOI Listing
February 2019
4 Reads
3.670 Impact Factor

Bi-stream CNN Down Syndrome screening model based on genotyping array.

BMC Med Genomics 2018 Nov 20;11(Suppl 5):105. Epub 2018 Nov 20.

School of Medicine,The University of New Mexico, Albuquerque, 87131, NM, USA.

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https://bmcmedgenomics.biomedcentral.com/articles/10.1186/s1
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http://dx.doi.org/10.1186/s12920-018-0416-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6245487PMC
November 2018
37 Reads
2.873 Impact Factor

Cancer-specific expression quantitative loci are affected by expression dysregulation.

Brief Bioinform 2018 Nov 23. Epub 2018 Nov 23.

Department of Internal Medicine, University of New Mexico, Albuquerque, NM, USA.

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https://academic.oup.com/bib/advance-article/doi/10.1093/bib
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http://dx.doi.org/10.1093/bib/bby108DOI Listing
November 2018
39 Reads
9.620 Impact Factor

Power and sample size calculations for high-throughput sequencing-based experiments.

Brief Bioinform 2018 11;19(6):1247-1255

Department of Cancer Biology, Vanderbilt University.

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http://dx.doi.org/10.1093/bib/bbx061DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6291796PMC
November 2018
56 Reads
2 Citations
9.620 Impact Factor

Strategies for processing and quality control of Illumina genotyping arrays.

Brief Bioinform 2018 09;19(5):765-775

Department of Cancer Biology, Vanderbilt University, Nashville, TN, USA.

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http://dx.doi.org/10.1093/bib/bbx012DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6171493PMC
September 2018
12 Reads
9.620 Impact Factor

Relation of Body Mass Index to Symptom Burden in Patients withAtrial Fibrillation.

Am J Cardiol 2018 07 1;122(2):235-241. Epub 2018 May 1.

Department of Medicine, University of Illinois at Chicago, Jesse Brown VA Medical Center, Chicago, Illinois; Departments of Medicine and Molecular Physiology and Biophysics, Vanderbilt University, Nashville, Tennessee. Electronic address:

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http://dx.doi.org/10.1016/j.amjcard.2018.04.011DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6028292PMC
July 2018
2 Reads
3.280 Impact Factor

Mutation-specific effects in germline transmission of pathogenic mtDNA variants.

Hum Reprod 2018 07;33(7):1331-1341

Department of Genetics and Cell Biology, School for Oncology and Developmental Biology (GROW), Maastricht University, Maastricht, the Netherlands.

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http://dx.doi.org/10.1093/humrep/dey114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6551225PMC
July 2018
48 Reads
4.570 Impact Factor

STRATEGIES FOR EQUITABLE PHARMACOGENOMIC-GUIDED WARFARIN DOSING AMONG EUROPEAN AND AFRICAN AMERICAN INDIVIDUALS IN A CLINICAL POPULATION.

Pac Symp Biocomput 2017 ;22:545-556

Div. of Biomedical Informatics and Personalized Med., University of Colorado, 13001 E. 17th Pl. MS F-563 Aurora, CO 80045, USA,

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5389380PMC
http://dx.doi.org/10.1142/9789813207813_0050DOI Listing
March 2017
42 Reads
2 Citations

Practicability of mitochondrial heteroplasmy detection through an Illumina genotyping array.

Mitochondrion 2016 Nov 11;31:75-78. Epub 2016 Sep 11.

Department of Cancer Biology, Vanderbilt University, Nashville, TN 37232, USA. Electronic address:

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http://dx.doi.org/10.1016/j.mito.2016.08.018DOI Listing
November 2016
16 Reads
1 Citation
3.250 Impact Factor

Mitochondrial Haplogroups as a Risk Factor for Herpes Zoster.

Open Forum Infect Dis 2016 Oct 19;3(4):ofw184. Epub 2016 Oct 19.

Vanderbilt Genetics Institute; Molecular Physiology and Biophysics, Vanderbilt University School of Medicine, Nashville, Tennessee.

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http://dx.doi.org/10.1093/ofid/ofw184DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5088697PMC
October 2016
5 Reads

RNAseq by Total RNA Library Identifies Additional RNAs Compared to Poly(A) RNA Library.

Biomed Res Int 2015 12;2015:862130. Epub 2015 Oct 12.

Center for Quantitative Sciences, Vanderbilt University, Nashville, TN 37232, USA.

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http://dx.doi.org/10.1155/2015/862130DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4620295PMC
August 2016
15 Reads
6 Citations

Homeostatic Responses Regulate Selfish Mitochondrial Genome Dynamics in C. elegans.

Cell Metab 2016 07;24(1):91-103

Department of Biological Sciences, Vanderbilt University, Nashville, TN 37232, USA; Department of Cell and Developmental Biology, Vanderbilt University, Nashville, TN 37232, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cmet.2016.06.008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5287496PMC
July 2016
7 Reads
18 Citations
17.570 Impact Factor

Mitochondria single nucleotide variation across six blood cell types.

Mitochondrion 2016 May 5;28:16-22. Epub 2016 Mar 5.

Department of Cancer Biology, Vanderbilt University, Nashville, TN 37232, USA.

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http://dx.doi.org/10.1016/j.mito.2016.03.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5755964PMC
May 2016
24 Reads
3.250 Impact Factor

Mitochondrial DNA sequence characteristics modulate the size of the genetic bottleneck.

Hum Mol Genet 2016 Mar 5;25(5):1031-41. Epub 2016 Jan 5.

Wellcome Trust Centre for Mitochondrial Research and Medical Research Council Mitochondrial Biology Unit, Cambridge, UK, Department of Clinical Neurosciences, School of Clinical Medicine, University of Cambridge, Cambridge, UK,

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http://hmg.oxfordjournals.org/content/early/2016/01/05/hmg.d
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http://hmg.oxfordjournals.org/content/early/2016/01/12/hmg.d
Web Search
http://www.hmg.oxfordjournals.org/lookup/doi/10.1093/hmg/ddv
Publisher Site
http://dx.doi.org/10.1093/hmg/ddv626DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4754047PMC
March 2016
73 Reads
6 Citations
6.393 Impact Factor

Fine Time Scaling of Purifying Selection on Human Nonsynonymous mtDNA Mutations Based on the Worldwide Population Tree and Mother-Child Pairs.

Hum Mutat 2015 Nov 25;36(11):1100-11. Epub 2015 Aug 25.

Instituto de Investigação e Inovação em Saúde (i3S), Universidade do Porto, Porto, 4200-135, Portugal.

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http://dx.doi.org/10.1002/humu.22849DOI Listing
November 2015
83 Reads
1 Citation
5.144 Impact Factor

Alternative applications for distinct RNA sequencing strategies.

Brief Bioinform 2015 Jul 22;16(4):629-39. Epub 2014 Sep 22.

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http://dx.doi.org/10.1093/bib/bbu032DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4542857PMC
July 2015
11 Reads
16 Citations
9.620 Impact Factor

Genome measures used for quality control are dependent on gene function and ancestry.

Bioinformatics 2015 Feb 8;31(3):318-23. Epub 2014 Oct 8.

Center for Quantitative Sciences and Department of Medicine and Center for Human Genetics Research, Vanderbilt University, Nashville, TN 37212, USA.

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http://dx.doi.org/10.1093/bioinformatics/btu668DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4308666PMC
February 2015
30 Reads
11 Citations
4.981 Impact Factor

Multi-perspective quality control of Illumina exome sequencing data using QC3.

Genomics 2014 May-Jun;103(5-6):323-8. Epub 2014 Apr 3.

Vanderbilt Ingram Cancer Center, Center for Quantitative Sciences, Nashville, TN, USA. Electronic address:

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http://dx.doi.org/10.1016/j.ygeno.2014.03.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5755963PMC
January 2015
18 Reads
34 Citations
2.284 Impact Factor

Illumina human exome genotyping array clustering and quality control.

Nat Protoc 2014 Nov 16;9(11):2643-62. Epub 2014 Oct 16.

Vanderbilt Epidemiology Center, Vanderbilt University, Nashville, Tennessee, USA.

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http://dx.doi.org/10.1038/nprot.2014.174DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4441213PMC
November 2014
64 Reads
28 Citations

Three-stage quality control strategies for DNA re-sequencing data.

Brief Bioinform 2014 Nov 24;15(6):879-89. Epub 2013 Sep 24.

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http://dx.doi.org/10.1093/bib/bbt069DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4492405PMC
November 2014
20 Reads
40 Citations
9.620 Impact Factor

Global human frequencies of predicted nuclear pathogenic variants and the role played by protein hydrophobicity in pathogenicity potential.

Sci Rep 2014 Nov 21;4:7155. Epub 2014 Nov 21.

Center for Human Genetics Research, Department of Molecular Physiology and Biophysics, Vanderbilt University Medical Center, Nashville, TN 37232-0700, USA.

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http://dx.doi.org/10.1038/srep07155DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4239565PMC
November 2014
55 Reads
1 Citation
5.080 Impact Factor

The effect of unhealthy β-cells on insulin secretion in pancreatic islets.

BMC Med Genomics 2013 11;6 Suppl 3:S6. Epub 2013 Nov 11.

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http://dx.doi.org/10.1186/1755-8794-6-S3-S6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3981690PMC
October 2014
42 Reads
2.873 Impact Factor

The other genome: a systematic review of studies of mitochondrial DNA haplogroups and outcomes of HIV infection and antiretroviral therapy.

AIDS Rev 2013 Oct-Dec;15(4):213-20

Department of Medicine, Division of Infectious Diseases, Vanderbilt University School of Medicine, Nashville, TN, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4001077PMC
August 2014
10 Reads
8 Citations
3.790 Impact Factor

High-throughput sequencing in mitochondrial DNA research.

Mitochondrion 2014 Jul 20;17:157-63. Epub 2014 May 20.

Department of Cancer Biology, Vanderbilt University, Nashville, TN 37232, USA.

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http://dx.doi.org/10.1016/j.mito.2014.05.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4149223PMC
July 2014
44 Reads
18 Citations
3.250 Impact Factor

Epidermal nerve fiber density, oxidative stress, and mitochondrial haplogroups in HIV-infected Thais initiating therapy.

AIDS 2014 Jul;28(11):1625-33

aVanderbilt University, Nashville, Tennessee bUniversity of Hawaii, Honolulu, Hawaii, USA cSouth East Asia Research Collaboration with Hawaii dThai Red Cross AIDS Research Centre eHIV-NAT, Bangkok fQueen Savang Vadhana Memorial Hospital, Chonburi, Thailand gThe Johns Hopkins University, Baltimore, Maryland, USA.

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http://dx.doi.org/10.1097/QAD.0000000000000297DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4427899PMC
July 2014
21 Reads
2 Citations
5.554 Impact Factor

Comparative study of exome copy number variation estimation tools using array comparative genomic hybridization as control.

Biomed Res Int 2013 4;2013:915636. Epub 2013 Nov 4.

Center for Quantitative Sciences, Vanderbilt University, Nashville, TN 37027, USA.

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http://dx.doi.org/10.1155/2013/915636DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3835197PMC
June 2014
24 Reads
17 Citations

Data from artificial models of mitochondrial DNA disorders are not always applicable to humans.

Cell Rep 2014 May;7(4):933-4

Université Paris-Descartes; Sorbonne Paris Cité, Institut IMAGINE and INSERM U781; Hôpital Necker-Enfants Malades, 149 rue de Sèvres, 75743 Paris, Cedex 15, France.

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http://dx.doi.org/10.1016/j.celrep.2014.05.005DOI Listing
May 2014
23 Reads
3 Citations
7.210 Impact Factor

Large scale comparison of gene expression levels by microarrays and RNAseq using TCGA data.

PLoS One 2013 20;8(8):e71462. Epub 2013 Aug 20.

Center for Quantitative Sciences, Vanderbilt University, Nashville, Tennessee, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0071462PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3748065PMC
April 2014
7 Reads
70 Citations
3.234 Impact Factor

Mitochondrial DNA rearrangements in health and disease--a comprehensive study.

Hum Mutat 2014 Jan 18;35(1):1-14. Epub 2013 Oct 18.

Institute of Molecular Pathology and Immunology of the University of Porto (IPATIMUP), Rua Dr. Roberto Frias s/n, Porto, Portugal.

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http://dx.doi.org/10.1002/humu.22452DOI Listing
January 2014
6 Reads
16 Citations
5.144 Impact Factor

Recurrent tissue-specific mtDNA mutations are common in humans.

PLoS Genet 2013 Nov 7;9(11):e1003929. Epub 2013 Nov 7.

Center for Human Genetics Research, Department of Molecular Physiology & Biophysics, Vanderbilt University School of Medicine, Nashville, Tennessee, United States of America.

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http://dx.doi.org/10.1371/journal.pgen.1003929DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3820769PMC
November 2013
33 Reads
39 Citations

Finding the lost treasures in exome sequencing data.

Trends Genet 2013 Oct 22;29(10):593-9. Epub 2013 Aug 22.

Center for Human Genetics Research, Vanderbilt University, Nashville, TN, 37232, USA.

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http://dx.doi.org/10.1016/j.tig.2013.07.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3926691PMC
October 2013
33 Reads
46 Citations
9.920 Impact Factor

Evaluation of allele frequency estimation using pooled sequencing data simulation.

ScientificWorldJournal 2013 7;2013:895496. Epub 2013 Feb 7.

Vanderbilt Ingram Cancer Center, Nashville, TN, USA.

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http://dx.doi.org/10.1155/2013/895496DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3582166PMC
September 2013
3 Reads
10 Citations
1.220 Impact Factor

Evaluating purifying selection in the mitochondrial DNA of various mammalian species.

PLoS One 2013 22;8(3):e58993. Epub 2013 Mar 22.

Instituto de Patologia e Imunologia Molecular da Universidade do Porto (IPATIMUP), Porto, Portugal.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0058993PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3606437PMC
September 2013
22 Reads
10 Citations
3.234 Impact Factor

Mitochondrial genomics and antiretroviral therapy-associated metabolic complications in HIV-infected Black South Africans: a pilot study.

AIDS Res Hum Retroviruses 2013 Jul 15;29(7):1031-9. Epub 2013 Mar 15.

University of Cape Town Medical School, Department of Medicine, University of Cape Town, Cape Town, South Africa.

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http://dx.doi.org/10.1089/aid.2012.0373DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3685683PMC
July 2013
4 Reads
8 Citations
2.330 Impact Factor

Mutation dependance of the mitochondrial DNA copy number in the first stages of human embryogenesis.

Hum Mol Genet 2013 May 5;22(9):1867-72. Epub 2013 Feb 5.

Institut Imagine and INSERM U781, Sorbonne Paris Cité, Hôpital Necker-Enfants Malades, Université Paris-Descartes, 149 rue de Sèvres, Paris cedex 15, France.

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http://dx.doi.org/10.1093/hmg/ddt040DOI Listing
May 2013
27 Reads
16 Citations
6.393 Impact Factor

MitoSeek: extracting mitochondria information and performing high-throughput mitochondria sequencing analysis.

Bioinformatics 2013 May 6;29(9):1210-1. Epub 2013 Mar 6.

Center for Quantitative Sciences, Vanderbilt University, Nashville, TN 37232, USA.

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http://dx.doi.org/10.1093/bioinformatics/btt118DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4492415PMC
May 2013
55 Reads
35 Citations
4.981 Impact Factor

Preventing the transmission of pathogenic mitochondrial DNA mutations: Can we achieve long-term benefits from germ-line gene transfer?

Hum Reprod 2013 Mar 7;28(3):554-9. Epub 2013 Jan 7.

Department of Molecular Physiology and Biophysics, Center for Human Genetics Research, Vanderbilt University Medical Center, Nashville, TN, USA.

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http://dx.doi.org/10.1093/humrep/des439DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3571501PMC
March 2013
2 Reads
9 Citations
4.570 Impact Factor

Universal heteroplasmy of human mitochondrial DNA.

Hum Mol Genet 2013 Jan 16;22(2):384-90. Epub 2012 Oct 16.

Wellcome Trust Centre for Mitochondrial Research, Institute of Genetic Medicine, Newcastle University, Newcastleupon-Tyne NE1 3BZ, UK.

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http://dx.doi.org/10.1093/hmg/dds435DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3526165PMC
January 2013
9 Reads
91 Citations
6.393 Impact Factor

The effect of strand bias in Illumina short-read sequencing data.

BMC Genomics 2012 Nov 24;13:666. Epub 2012 Nov 24.

Vanderbilt Ingram Cancer Center, Nashville, TN, USA.

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http://dx.doi.org/10.1186/1471-2164-13-666DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3532123PMC
November 2012
55 Reads
26 Citations
3.990 Impact Factor

Mitochondrial DNA deletions are associated with non-B DNA conformations.

Nucleic Acids Res 2012 Sep 31;40(16):7606-21. Epub 2012 May 31.

Institute of Molecular Pathology and Immunology, University of Porto (IPATIMUP), Rua Dr Roberto Frias s/n, 4200-465 Porto, Portugal.

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http://dx.doi.org/10.1093/nar/gks500DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3439893PMC
September 2012
15 Reads
21 Citations
9.112 Impact Factor

Adult-onset spinocerebellar ataxia syndromes due to MTATP6 mutations.

J Neurol Neurosurg Psychiatry 2012 Sep 10;83(9):883-6. Epub 2012 May 10.

Institute of Genetic Medicine, Central Parkway, Newcastle, UK.

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http://dx.doi.org/10.1136/jnnp-2012-302568DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4034166PMC
September 2012
8 Reads
7 Citations
6.810 Impact Factor

Unique mitochondrial DNA in highly inbred feral cattle.

Mitochondrion 2012 Jul 17;12(4):438-40. Epub 2012 May 17.

Institute of Genetic Medicine, Newcastle University, Newcastle upon Tyne, UK.

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http://dx.doi.org/10.1016/j.mito.2012.05.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3485552PMC
July 2012
22 Reads
1 Citation
3.250 Impact Factor

Correlated tissue expression of genes of cytoplasmic and mitochondrial nucleotide metabolisms in normal tissues is disrupted in transformed tissues.

Nucleosides Nucleotides Nucleic Acids 2012 ;31(2):112-29

Center for Human Genetics Research, Department of Molecular Physiology and Biophysics, Vanderbilt University Medical Center, Nashville, Tennessee 37232-0700, USA.

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http://dx.doi.org/10.1080/15257770.2011.644101DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3464496PMC
June 2012
4 Reads
2 Citations
1.020 Impact Factor

Epigenetics, epidemiology and mitochondrial DNA diseases.

Int J Epidemiol 2012 Feb 28;41(1):177-87. Epub 2012 Jan 28.

Institute of Genetic Medicine, Newcastle University, Newcastle upon Tyne NE1 3BZ, UK.

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http://dx.doi.org/10.1093/ije/dyr232DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3304530PMC
February 2012
41 Reads
33 Citations
9.180 Impact Factor

Somatic mitochondrial DNA mutations in cancer escape purifying selection and high pathogenicity mutations lead to the oncocytic phenotype: pathogenicity analysis of reported somatic mtDNA mutations in tumors.

BMC Cancer 2012 Feb 2;12:53. Epub 2012 Feb 2.

Center for Human Genetics Research, Department of Molecular Physiology and Biophysics, Vanderbilt University Medical Center, Nashville, TN, USA.

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http://dx.doi.org/10.1186/1471-2407-12-53DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3342922PMC
February 2012
1 Read
19 Citations
3.362 Impact Factor

Replication pauses of the wild-type and mutant mitochondrial DNA polymerase gamma: a simulation study.

PLoS Comput Biol 2011 Nov 17;7(11):e1002287. Epub 2011 Nov 17.

Center for Human Genetic Research, Vanderbilt University Medical Center, Nashville, Tennessee, USA.

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http://dx.doi.org/10.1371/journal.pcbi.1002287DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3219627PMC
November 2011
2 Reads
2 Citations

Enzyme kinetics of the mitochondrial deoxyribonucleoside salvage pathway are not sufficient to support rapid mtDNA replication.

PLoS Comput Biol 2011 Aug 4;7(8):e1002078. Epub 2011 Aug 4.

Center for Human Genetics Research, Department of Molecular Biology and Biophysics, Vanderbilt University Medical Center, Nashville, Tennessee, USA.

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http://dx.doi.org/10.1371/journal.pcbi.1002078DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3150320PMC
August 2011
4 Reads
7 Citations

Mitochondrial aging is accelerated by anti-retroviral therapy through the clonal expansion of mtDNA mutations.

Nat Genet 2011 Jun 26;43(8):806-10. Epub 2011 Jun 26.

Mitochondrial Research Group, Institute of Genetic Medicine, Newcastle University, Newcastle upon Tyne, UK.

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http://dx.doi.org/10.1038/ng.863DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3223397PMC
June 2011
9 Reads
62 Citations
29.352 Impact Factor

A review comparing deoxyribonucleoside triphosphate (dNTP) concentrations in the mitochondrial and cytoplasmic compartments of normal and transformed cells.

Nucleosides Nucleotides Nucleic Acids 2011 May;30(5):317-39

Center for Human Genetics Research, Department of Molecular Physiology and Biophysics, Vanderbilt University Medical Center, Nashville, TN 37232-0700, USA.

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http://dx.doi.org/10.1080/15257770.2011.586955DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3210641PMC
May 2011
9 Reads
22 Citations
1.020 Impact Factor

Comparing phylogeny and the predicted pathogenicity of protein variations reveals equal purifying selection across the global human mtDNA diversity.

Am J Hum Genet 2011 Apr 31;88(4):433-9. Epub 2011 Mar 31.

Instituto de Patologia e Imunologia Molecular da Universidade do Porto (IPATIMUP), Porto 4200-465, Portugal.

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http://dx.doi.org/10.1016/j.ajhg.2011.03.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3071914PMC
April 2011
6 Reads
39 Citations
10.931 Impact Factor

Poor correlations in the levels of pathogenic mitochondrial DNA mutations in polar bodies versus oocytes and blastomeres in humans.

Am J Hum Genet 2011 Apr;88(4):494-8

Université Paris-Descartes, Faculté de Médecine, Unité INSERM U781, Service de Génétique Médicale, Hôpital Necker-Enfants Malades (Assistance Publique-Hôpitaux de Paris), 149 rue de Sèvres, 75743 Paris Cedex 15, France.

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http://dx.doi.org/10.1016/j.ajhg.2011.03.010DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3071907PMC
April 2011
18 Reads
8 Citations
10.931 Impact Factor

POLG mutations cause decreased mitochondrial DNA repopulation rates following induced depletion in human fibroblasts.

Biochim Biophys Acta 2011 Mar 5;1812(3):321-5. Epub 2010 Dec 5.

Mitochondrial Research Group, Institute of Human Genetics, Newcastle University, Central Parkway, Newcastle upon Tyne, NE1 3BZ, UK.

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http://dx.doi.org/10.1016/j.bbadis.2010.11.012DOI Listing
March 2011
19 Reads
9 Citations

The Bcl-2-associated death promoter (BAD) lowers the threshold at which the Bcl-2-interacting domain death agonist (BID) triggers mitochondria disintegration.

J Theor Biol 2011 Feb 3;271(1):114-23. Epub 2010 Dec 3.

Integrated Cellular Responses Laboratory-Virginia Polytechnic Institute & State University, Department of Biological Sciences, Blacksburg, VA 24061, USA.

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http://dx.doi.org/10.1016/j.jtbi.2010.11.040DOI Listing
February 2011
4 Reads
8 Citations
2.120 Impact Factor

Analysis of enzyme kinetic data for mtDNA replication.

Methods 2010 Aug 25;51(4):385-91. Epub 2010 Feb 25.

Center for Human Genetics Research, Department of Molecular Physiology and Biophysics, Vanderbilt University Medical Center, Nashville, TN 37232, USA.

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http://dx.doi.org/10.1016/j.ymeth.2010.02.019DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2903644PMC
August 2010
3 Reads
1 Citation
3.645 Impact Factor

Reassessing evidence for a postnatal mitochondrial genetic bottleneck.

Nat Genet 2010 Jun;42(6):471-2; author reply 472-3

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http://dx.doi.org/10.1038/ng0610-471DOI Listing
June 2010
1 Read
13 Citations
29.352 Impact Factor

Previous estimates of mitochondrial DNA mutation level variance did not account for sampling error: comparing the mtDNA genetic bottleneck in mice and humans.

Am J Hum Genet 2010 Apr 1;86(4):540-50. Epub 2010 Apr 1.

Center of Human Genetics Research, Department of Molecular Physiology and Biophysics, Vanderbilt University Medical Center, Nashville, TN 37232, USA.

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http://dx.doi.org/10.1016/j.ajhg.2010.02.023DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2850432PMC
April 2010
1 Read
16 Citations
10.931 Impact Factor

Detecting new neurodegenerative disease genes: does phenotype accuracy limit the horizon?

Trends Genet 2009 Nov 12;25(11):486-8. Epub 2009 Oct 12.

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http://dx.doi.org/10.1016/j.tig.2009.09.008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2824109PMC
November 2009
2 Reads
7 Citations
9.920 Impact Factor

The diversity present in 5140 human mitochondrial genomes.

Am J Hum Genet 2009 May 7;84(5):628-40. Epub 2009 May 7.

Instituto de Patologia e Imunologia Molecular Universidade do Porto, Porto 4200-465, Portugal.

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http://dx.doi.org/10.1016/j.ajhg.2009.04.013DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2681004PMC
May 2009
32 Reads
53 Citations
10.931 Impact Factor

Discrete stochastic simulation methods for chemically reacting systems.

Methods Enzymol 2009 ;454:115-40

Department of Computer Science, Virginia Tech, Blacksburg, Virginia, USA.

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http://dx.doi.org/10.1016/S0076-6879(08)03805-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3492891PMC
April 2009
6 Reads
4 Citations
2.090 Impact Factor

An analysis of enzyme kinetics data for mitochondrial DNA strand termination by nucleoside reverse transcription inhibitors.

PLoS Comput Biol 2009 Jan 9;5(1):e1000261. Epub 2009 Jan 9.

Virginia Bioinformatics Institute, Virginia Polytechnic Institute and State University, Virginia, United States of America.

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http://dx.doi.org/10.1371/journal.pcbi.1000261DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2603287PMC
January 2009
1 Read
5 Citations

Evidence for variable selective pressures at a large secondary structure of the human mitochondrial DNA control region.

Mol Biol Evol 2008 Dec 9;25(12):2759-70. Epub 2008 Oct 9.

Instituto de Patologia e Imunologia Molecular da Universidade do Porto, Porto, Portugal.

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http://dx.doi.org/10.1093/molbev/msn225DOI Listing
December 2008
2 Reads
15 Citations
9.110 Impact Factor

The distribution of mitochondrial DNA heteroplasmy due to random genetic drift.

Am J Hum Genet 2008 Nov 30;83(5):582-93. Epub 2008 Oct 30.

Virginia Bioinformatics Institute, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061, USA.

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http://dx.doi.org/10.1016/j.ajhg.2008.10.007DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2668051PMC
November 2008
19 Citations
10.931 Impact Factor

Pathogenic mitochondrial DNA mutations are common in the general population.

Am J Hum Genet 2008 Aug;83(2):254-60

Mitochondrial Research Group, Newcastle University, Newcastle upon Tyne, UK.

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http://dx.doi.org/10.1016/j.ajhg.2008.07.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2495064PMC
August 2008
4 Reads
133 Citations
10.931 Impact Factor

The evidence that the DNC (SLC25A19) is not the mitochondrial deoxyribonucleotide carrier.

Mitochondrion 2008 Mar 18;8(2):103-8. Epub 2008 Jan 18.

Virginia Bioinformatics Institute, Virginia Polytechnic and State University, Washington Street, MC 0477, Blacksburg, VA 24061, USA.

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http://dx.doi.org/10.1016/j.mito.2008.01.001DOI Listing
March 2008
5 Reads
13 Citations
3.250 Impact Factor

What causes mitochondrial DNA deletions in human cells?

Nat Genet 2008 Mar;40(3):275-9

Mitochondrial Research Group, The Medical School, Newcastle University, Newcastle upon Tyne, NE2 4HH, UK.

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http://dx.doi.org/10.1038/ng.f.94DOI Listing
March 2008
12 Reads
118 Citations
29.352 Impact Factor

Selection against pathogenic mtDNA mutations in a stem cell population leads to the loss of the 3243A-->G mutation in blood.

Am J Hum Genet 2008 Feb;82(2):333-43

Virginia Bioinformatics Institute, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061, USA.

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http://dx.doi.org/10.1016/j.ajhg.2007.10.007DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2427290PMC
February 2008
30 Citations
10.931 Impact Factor

A reduction of mitochondrial DNA molecules during embryogenesis explains the rapid segregation of genotypes.

Nat Genet 2008 Feb 27;40(2):249-54. Epub 2008 Jan 27.

Mitochondrial Research Group, Newcastle University, Newcastle NE2 4HH, UK.

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http://dx.doi.org/10.1038/ng.2007.63DOI Listing
February 2008
11 Reads
112 Citations
29.352 Impact Factor

Normal levels of wild-type mitochondrial DNA maintain cytochrome c oxidase activity for two pathogenic mitochondrial DNA mutations but not for m.3243A-->G.

Am J Hum Genet 2007 Jul 23;81(1):189-95. Epub 2007 May 23.

Mitochondrial Research Group, Newcastle University, Newcastle, UK.

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http://dx.doi.org/10.1086/518901DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1950909PMC
July 2007
4 Reads
18 Citations
10.931 Impact Factor

Computational models of antiviral toxicity.

Authors:
David C Samuels

Curr Opin Drug Discov Devel 2007 Jan;10(1):43-8

Virginia Polytechnic Institute and State University, Virginia Bioinformatics Institute, Washington Street, MC 0477, Blacksburg, VA 24061, USA.

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January 2007
1 Read

Mitochondrial AZT metabolism.

Authors:
David C Samuels

IUBMB Life 2006 Jul;58(7):403-8

Virginia Bioinformatics Institute, Virginia Polytechnic Institute and State University, Virginia, USA.

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http://dx.doi.org/10.1080/15216540600791571DOI Listing
July 2006
6 Citations
3.143 Impact Factor

The power to detect disease associations with mitochondrial DNA haplogroups.

Am J Hum Genet 2006 Apr 17;78(4):713-20. Epub 2006 Feb 17.

Virginia Bioinformatics Institute, Virginia Polytechnic Institute and State University, Blacksburg, USA.

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http://dx.doi.org/10.1086/502682DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1424681PMC
April 2006
1 Read
31 Citations
10.931 Impact Factor

A computational model of mitochondrial AZT metabolism.

Biochem J 2005 Dec;392(Pt 2):363-73

Virginia Bioinformatics Institute, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061, USA.

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http://dx.doi.org/10.1042/BJ20050749DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1316272PMC
December 2005
11 Reads
3 Citations
4.400 Impact Factor

Life span is related to the free energy of mitochondrial DNA.

Authors:
David C Samuels

Mech Ageing Dev 2005 Oct;126(10):1123-9

Virginia Bioinformatics Institute, Virginia Polytechnic Institute and State University, Bioinformatics Facility I, Blacksburg, VA 24063, USA.

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http://dx.doi.org/10.1016/j.mad.2005.05.003DOI Listing
October 2005
2 Reads
6 Citations
3.400 Impact Factor

Mitochondrial-encoded membrane protein transcripts are pyrimidine-rich while soluble protein transcripts and ribosomal RNA are purine-rich.

BMC Genomics 2005 Sep 26;6:136. Epub 2005 Sep 26.

Virginia Bioinformatics Institute, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061, USA.

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http://dx.doi.org/10.1186/1471-2164-6-136DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1262711PMC
September 2005
16 Reads
3.990 Impact Factor

A computational model of mitochondrial deoxynucleotide metabolism and DNA replication.

Am J Physiol Cell Physiol 2005 May 5;288(5):C989-1002. Epub 2005 Jan 5.

Virginia Bioinformatics Institute, Virginia Polytechnic and State Univ., Bioinformatics Facility I (0477 Blacksburg, VA 24061, USA.

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http://dx.doi.org/10.1152/ajpcell.00530.2004DOI Listing
May 2005
8 Reads
12 Citations
3.780 Impact Factor

Two direct repeats cause most human mtDNA deletions.

Trends Genet 2004 Sep;20(9):393-8

Virginia Bioinformatics Institute, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061, USA.

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http://dx.doi.org/10.1016/j.tig.2004.07.003DOI Listing
September 2004
36 Citations
9.920 Impact Factor

Mitochondrial DNA repeats constrain the life span of mammals.

Authors:
David C Samuels

Trends Genet 2004 May;20(5):226-9

Virginia Bioinformatics Institute, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061, USA.

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http://dx.doi.org/10.1016/j.tig.2004.03.003DOI Listing
May 2004
5 Reads
13 Citations
9.920 Impact Factor

Mitochondrial DNA mutations in human colonic crypt stem cells.

J Clin Invest 2003 Nov;112(9):1351-60

Department of Neurology, The Medical School, University of Newcastle upon Tyne, United Kingdom.

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http://dx.doi.org/10.1172/JCI19435DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC228466PMC
November 2003
6 Reads
141 Citations
13.215 Impact Factor

A compositional segmentation of the human mitochondrial genome is related to heterogeneities in the guanine mutation rate.

Nucleic Acids Res 2003 Oct;31(20):6043-52

Virginia Bioinformatics Institute, Virginia Polytechnic and State University, Blacksburg, VA 24061, USA.

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http://dx.doi.org/10.1093/nar/gkg784DOI Listing
October 2003
3 Reads
3 Citations
9.112 Impact Factor

A model of the nuclear control of mitochondrial DNA replication.

J Theor Biol 2003 Apr;221(4):565-83

Department of Mathematics, University of Newcastle, Newcastle upon Tyne, NE1 7RU, UK.

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http://dx.doi.org/10.1006/jtbi.2003.3207DOI Listing
April 2003
2 Reads
16 Citations
2.120 Impact Factor

Polarization of superfluid turbulence.

Phys Rev Lett 2002 Dec 16;89(27):275301. Epub 2002 Dec 16.

Mathematics Department, University of Newcastle, Newcastle NE1 7RU, United Kingdom.

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http://dx.doi.org/10.1103/PhysRevLett.89.275301DOI Listing
December 2002
3 Reads
1 Citation
7.510 Impact Factor

The length of cytochrome c oxidase-negative segments in muscle fibres in patients with mtDNA myopathy.

Neuromuscul Disord 2002 Nov;12(9):858-64

Department of Neurology, University of Newcastle upon Tyne, The Medical School, Framlington Place, NE2 4HH, Newcastle upon Tyne, UK.

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http://dx.doi.org/10.1016/s0960-8966(02)00047-0DOI Listing
November 2002
7 Reads
11 Citations
2.640 Impact Factor

Evaporation of a packet of quantized vorticity.

Phys Rev Lett 2002 Oct 24;89(15):155302. Epub 2002 Sep 24.

Mathematics Department, University of Newcastle, United Kingdom.

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http://dx.doi.org/10.1103/PhysRevLett.89.155302DOI Listing
October 2002
4 Reads
7.510 Impact Factor

Accumulation of mitochondrial DNA mutations in ageing, cancer, and mitochondrial disease: is there a common mechanism?

Lancet 2002 Oct;360(9342):1323-5

Departments of Neurology, University of Newcastle upon Tyne, NE2 4HH, Newcastle upon Tyne, UK.

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http://dx.doi.org/10.1016/S0140-6736(02)11310-9DOI Listing
October 2002
3 Reads
44 Citations
45.220 Impact Factor

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