Markus Ringnér

Markus Ringnér

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Markus Ringnér

Publications by authors named "Markus Ringnér"

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Author Correction: Landscape of somatic mutations in 560 breast cancer whole-genome sequences.

Nature 2019 02;566(7742):E1

Wellcome Trust Sanger Institute, Hinxton, Cambridge, CB10 1SA, UK.

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http://www.nature.com/articles/s41586-019-0883-2
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http://dx.doi.org/10.1038/s41586-019-0883-2DOI Listing
February 2019

Author Correction: A comprehensive map coupling histone modifications with gene regulation in adult dopaminergic and serotonergic neurons.

Nat Commun 2018 11 2;9(1):4639. Epub 2018 Nov 2.

Department of Cell and Molecular Biology, Ludwig Institute for Cancer Research, Karolinska Institutet, Nobels väg 3, 171 77, Stockholm, Sweden.

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http://www.nature.com/articles/s41467-018-07154-5
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http://dx.doi.org/10.1038/s41467-018-07154-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6214921PMC
November 2018

A comprehensive map coupling histone modifications with gene regulation in adult dopaminergic and serotonergic neurons.

Nat Commun 2018 03 26;9(1):1226. Epub 2018 Mar 26.

Department of Cell and Molecular Biology, Ludwig Institute for Cancer Research, Karolinska Institutet, Nobels väg 3, 171 77, Stockholm, Sweden.

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http://dx.doi.org/10.1038/s41467-018-03538-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5964330PMC
March 2018

Mutational and putative neoantigen load predict clinical benefit of adoptive T cell therapy in melanoma.

Nat Commun 2017 11 23;8(1):1738. Epub 2017 Nov 23.

Division of Oncology and Pathology, Department of Clinical Sciences Lund, Faculty of Medicine, Lund University, Scheelegatan 2, Medicon Village, 22185, Lund, Sweden.

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http://dx.doi.org/10.1038/s41467-017-01460-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5701046PMC
November 2017

Consensus of gene expression phenotypes and prognostic risk predictors in primary lung adenocarcinoma.

Oncotarget 2016 Aug;7(33):52957-52973

Division of Oncology and Pathology, Department of Clinical Sciences Lund, Lund University, Medicon Village, SE 22381, Lund, Sweden.

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http://dx.doi.org/10.18632/oncotarget.10641DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5288161PMC
August 2016

Landscape of somatic mutations in 560 breast cancer whole-genome sequences.

Nature 2016 06 2;534(7605):47-54. Epub 2016 May 2.

Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK.

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http://dx.doi.org/10.1038/nature17676DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4910866PMC
June 2016

Prognostic and Chemotherapy Predictive Value of Gene-Expression Phenotypes in Primary Lung Adenocarcinoma.

Clin Cancer Res 2016 Jan 11;22(1):218-29. Epub 2015 Aug 11.

Division of Oncology and Pathology, Department of Clinical Sciences Lund, Lund University, Lund, Sweden. CREATE Health Strategic Center for Translational Cancer Research, Lund University, Lund, Sweden.

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http://clincancerres.aacrjournals.org/cgi/doi/10.1158/1078-0
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http://dx.doi.org/10.1158/1078-0432.CCR-15-0529DOI Listing
January 2016

DNA methylation subgroups in melanoma are associated with proliferative and immunological processes.

BMC Med Genomics 2015 Nov 6;8:73. Epub 2015 Nov 6.

Department of Oncology and Pathology, Clinical Sciences, Lund University Hospital, Lund University, Lund, 221 85, Sweden.

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http://bmcmedgenomics.biomedcentral.com/articles/10.1186/s12
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http://dx.doi.org/10.1186/s12920-015-0147-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4636848PMC
November 2015

Genome methylation patterns in male breast cancer - Identification of an epitype with hypermethylation of polycomb target genes.

Mol Oncol 2015 Oct 8;9(8):1565-79. Epub 2015 May 8.

Department of Oncology and Pathology, Clinical Sciences, and CREATE Health Strategic Center for Translational Cancer Research, Lund University, Lund, Sweden. Electronic address:

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http://dx.doi.org/10.1016/j.molonc.2015.04.013DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5528783PMC
October 2015

Genome-Wide DNA Methylation Analysis in Melanoma Reveals the Importance of CpG Methylation in MITF Regulation.

J Invest Dermatol 2015 Jul 23;135(7):1820-1828. Epub 2015 Feb 23.

Department of Clinical Sciences, Division of Oncology and Pathology, Lund University, Lund, Sweden; CREATE Health Strategic Center for Translational Cancer Research, Lund University, Lund, Sweden. Electronic address:

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http://dx.doi.org/10.1038/jid.2015.61DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4720161PMC
July 2015

MicroRNA-200c-141 and ∆Np63 are required for breast epithelial differentiation and branching morphogenesis.

Dev Biol 2015 Jul 9;403(2):150-61. Epub 2015 May 9.

Stem Cell Research Unit, Biomedical Center, Department of Anatomy, Faculty of Medicine, School of Health Sciences, University of Iceland, Iceland; Department of Laboratory Hematology, Landspitali-University Hospital, Iceland. Electronic address:

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http://dx.doi.org/10.1016/j.ydbio.2015.05.007DOI Listing
July 2015

Integrative epigenomic analysis of differential DNA methylation in urothelial carcinoma.

Genome Med 2015 10;7(1):23. Epub 2015 Mar 10.

Division of Oncology and Pathology, Department of Clinical Sciences Lund, Lund University, Lund, Sweden.

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http://dx.doi.org/10.1186/s13073-015-0144-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4373102PMC
March 2015

The landscape of candidate driver genes differs between male and female breast cancer.

PLoS One 2013 23;8(10):e78299. Epub 2013 Oct 23.

Division of Oncology, Department of Clinical Sciences, Lund and CREATE Health Strategic Center for Translational Cancer Research, Lund University, Lund, Sweden.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0078299PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3806766PMC
February 2015

Making breast cancer molecular subtypes robust?

J Natl Cancer Inst 2015 Jan 4;107(1):386. Epub 2014 Dec 4.

Division of Oncology and Pathology, Department of Clinical Sciences, Lund University, Lund, Sweden.

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http://dx.doi.org/10.1093/jnci/dju386DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4301705PMC
January 2015

Primary melanoma tumors from CDKN2A mutation carriers do not belong to a distinct molecular subclass.

J Invest Dermatol 2014 Dec 7;134(12):3000-3003. Epub 2014 Jul 7.

Division of Oncology and Pathology, Department of Clinical Sciences Lund, Lund University, Lund, Sweden. Electronic address:

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http://dx.doi.org/10.1038/jid.2014.272DOI Listing
December 2014

Genome-wide DNA methylation analysis of lung carcinoma reveals one neuroendocrine and four adenocarcinoma epitypes associated with patient outcome.

Clin Cancer Res 2014 Dec 2;20(23):6127-40. Epub 2014 Oct 2.

Division of Oncology and Pathology, Department of Clinical Sciences Lund, Lund University, Lund, Sweden. CREATE Health Strategic Center for Translational Cancer Research, Lund University, Lund, Sweden.

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http://clincancerres.aacrjournals.org/cgi/doi/10.1158/1078-0
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http://dx.doi.org/10.1158/1078-0432.CCR-14-1087DOI Listing
December 2014

Genomic and transcriptional alterations in lung adenocarcinoma in relation to smoking history.

Clin Cancer Res 2014 Sep 18;20(18):4912-24. Epub 2014 Jul 18.

Division of Oncology and Pathology, Department of Clinical Sciences Lund, Lund University, Lund, Sweden. CREATE Health Strategic Center for Translational Cancer Research, Lund University, Lund, Sweden.

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http://dx.doi.org/10.1158/1078-0432.CCR-14-0246DOI Listing
September 2014

Monitoring of technical variation in quantitative high-throughput datasets.

Cancer Inform 2013 23;12:193-201. Epub 2013 Sep 23.

Department of Oncology, Clinical Sciences, Lund University, Sweden.

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http://dx.doi.org/10.4137/CIN.S12862DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3785384PMC
October 2013

Nonfamilial breast cancer subtypes.

Methods Mol Biol 2013 ;973:279-95

Department of Oncology, Clinical Sciences, Lund University, Lund, Sweden.

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http://dx.doi.org/10.1007/978-1-62703-281-0_18DOI Listing
July 2013

Landscape of somatic allelic imbalances and copy number alterations in HER2-amplified breast cancer.

Breast Cancer Res 2011 14;13(6):R129. Epub 2011 Dec 14.

Department of Oncology, Clinical Sciences, Lund University and Skåne University Hospital, Barngatan 2B, SE 22185 Lund, Sweden.

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http://dx.doi.org/10.1186/bcr3075DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3326571PMC
June 2012

A molecular taxonomy for urothelial carcinoma.

Clin Cancer Res 2012 Jun 2;18(12):3377-86. Epub 2012 May 2.

Department of Oncology, Clinical Sciences, Lund University Hospital, Lund University, Lund, Sweden.

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http://dx.doi.org/10.1158/1078-0432.CCR-12-0077-TDOI Listing
June 2012

GOBO: gene expression-based outcome for breast cancer online.

PLoS One 2011 Mar 21;6(3):e17911. Epub 2011 Mar 21.

Department of Oncology, Clinical Sciences, Lund University and Skåne University Hospital, Lund, Sweden.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0017911PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3061871PMC
March 2011

Molecular subtypes of breast cancer are associated with characteristic DNA methylation patterns.

Breast Cancer Res 2010 18;12(3):R36. Epub 2010 Jun 18.

Department of Oncology, Clinical Sciences, Lund University, Barngatan 2B, Lund, Sweden.

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http://dx.doi.org/10.1186/bcr2590DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2917031PMC
November 2010

Multiple metastases from cutaneous malignant melanoma patients may display heterogeneous genomic and epigenomic patterns.

Melanoma Res 2010 Oct;20(5):381-91

Department of Oncology, Lund Strategic Research Center for Stem Cell Biology and Cell Therapy, Lund University, Lund, Sweden.

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October 2010

Prediction of stage, grade, and survival in bladder cancer using genome-wide expression data: a validation study.

Clin Cancer Res 2010 Sep 24;16(17):4421-33. Epub 2010 Aug 24.

Department of Oncology, Clinical Sciences, Lund University, Lund, Sweden.

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http://dx.doi.org/10.1158/1078-0432.CCR-10-0606DOI Listing
September 2010

Genome-wide transcription factor binding site/promoter databases for the analysis of gene sets and co-occurrence of transcription factor binding motifs.

BMC Genomics 2010 Mar 1;11:145. Epub 2010 Mar 1.

Department of Oncology, Clinical Sciences, Lund University and Lund University Hospital, SE-22185 LUND, Sweden.

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http://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2
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http://dx.doi.org/10.1186/1471-2164-11-145DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2841680PMC
March 2010

High Myc pathway activity and low stage of neuronal differentiation associate with poor outcome in neuroblastoma.

Proc Natl Acad Sci U S A 2008 Sep 9;105(37):14094-9. Epub 2008 Sep 9.

Center for Molecular Pathology, Department of Laboratory Medicine, CREATE Health, University Hospital MAS, Lund University, SE-205 02 Malmö, Sweden.

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http://dx.doi.org/10.1073/pnas.0804455105DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2544584PMC
September 2008

What is principal component analysis?

Authors:
Markus Ringnér

Nat Biotechnol 2008 Mar;26(3):303-4

Markus Ringnér is in the Division of Oncology, Department of Clinical Sciences, Barngatan 2, Lund University, 221 85, Lund, Sweden.

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http://dx.doi.org/10.1038/nbt0308-303DOI Listing
March 2008

Normalization of array-CGH data: influence of copy number imbalances.

BMC Genomics 2007 Oct 22;8:382. Epub 2007 Oct 22.

Division of Oncology, Department of Clinical Sciences, Lund University, 221 85 Lund, Sweden.

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http://dx.doi.org/10.1186/1471-2164-8-382DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2190775PMC
October 2007

Revealing signaling pathway deregulation by using gene expression signatures and regulatory motif analysis.

Genome Biol 2007 ;8(5):R77

Computational Biology and Biological Physics, Department of Theoretical Physics, Lund University, SE-221 85, Sweden.

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http://dx.doi.org/10.1186/gb-2007-8-5-r77DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1929148PMC
September 2007

Osteopontin is a downstream effector of the PI3-kinase pathway in melanomas that is inversely correlated with functional PTEN.

Carcinogenesis 2006 Sep 29;27(9):1778-86. Epub 2006 Mar 29.

Human Genetics Laboratory, Queensland Institute of Medical Research, Herston 4006, QLD, Australia.

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http://dx.doi.org/10.1093/carcin/bgl016DOI Listing
September 2006

Detection and identification of protein isoforms using cluster analysis of MALDI-MS mass spectra.

J Proteome Res 2006 Apr;5(4):785-92

Department of Biochemistry, Lund University, Sweden.

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http://dx.doi.org/10.1021/pr050354vDOI Listing
April 2006

Folding free energies of 5'-UTRs impact post-transcriptional regulation on a genomic scale in yeast.

PLoS Comput Biol 2005 Dec 9;1(7):e72. Epub 2005 Dec 9.

Complex Systems Division, Department of Theoretical Physics, Lund University, Lund, Sweden.

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http://dx.doi.org/10.1371/journal.pcbi.0010072DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1309706PMC
December 2005

ACID: a database for microarray clone information.

Bioinformatics 2004 Sep 12;20(14):2305-6. Epub 2004 Feb 12.

Complex Systems Division, Lund University, Sweden.

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http://dx.doi.org/10.1093/bioinformatics/bth089DOI Listing
September 2004

Multiclass discovery in array data.

BMC Bioinformatics 2004 Jun 4;5:70. Epub 2004 Jun 4.

Department of Theoretical Physics, Lund University, Sölvegatan 14A, SE-223 62 Lund, Sweden.

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http://dx.doi.org/10.1186/1471-2105-5-70DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC434495PMC
June 2004

Predicting continuous values of prognostic markers in breast cancer from microarray gene expression profiles.

Mol Cancer Ther 2004 Feb;3(2):161-8

Department of Oncology and Complex Systems Division, Lund University, Lund, Sweden.

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February 2004

The gene expression response of breast cancer to growth regulators: patterns and correlation with tumor expression profiles.

Cancer Res 2003 Nov;63(21):7158-66

Cancer Genetics Branch, National Human Genome Research Institute/NIH, 50 South Drive, Bethesda, MD 20892, USA.

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November 2003

Matching protein structures with fuzzy alignments.

Proc Natl Acad Sci U S A 2003 Oct 2;100(21):11936-40. Epub 2003 Oct 2.

Stanford Linear Accelerator Center, P.O. Box 4349, Stanford, CA 94309, USA.

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http://dx.doi.org/10.1073/pnas.1635048100DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC218691PMC
October 2003

Gene expression profile in multiple sclerosis patients and healthy controls: identifying pathways relevant to disease.

Hum Mol Genet 2003 Sep 8;12(17):2191-9. Epub 2003 Jul 8.

Cancer Genetics Branch, National Human Genome Research Institute, National Institutes of Health, 50 South Drive, Bldg 50 Room 5150, Bethesda, MD 20892-8000, USA.

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http://dx.doi.org/10.1093/hmg/ddg221DOI Listing
September 2003

Gene expression profiles in a panel of childhood leukemia cell lines mirror critical features of the disease.

Mol Cancer Ther 2003 Jul;2(7):671-7

Telethon Institute for Child Health Research, The University of Western Australia, Perth, Australia and National Human Genome Research Institute, NIH, Bethesda, Maryland 20892, USA.

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July 2003

Expression profiling to predict outcome in breast cancer: the influence of sample selection.

Breast Cancer Res 2003 11;5(1):23-6. Epub 2002 Oct 11.

Department of Oncology, The Jubileum Institute, Lund University Hospital, Lund, Sweden.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC154130PMC
May 2003

Analyzing tumor gene expression profiles.

Artif Intell Med 2003 May;28(1):59-74

Complex Systems Division, Department of Theoretical Physics, Lund University, Sölvegatan 14A, SE-223 62, Lund, Sweden.

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May 2003

Molecular classification of familial non-BRCA1/BRCA2 breast cancer.

Proc Natl Acad Sci U S A 2003 Mar 27;100(5):2532-7. Epub 2003 Feb 27.

Cancer Genetics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892, USA.

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http://dx.doi.org/10.1073/pnas.0533805100DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC151375PMC
March 2003

Microarray-based cancer diagnosis with artificial neural networks.

Biotechniques 2003 Mar;Suppl:30-5

Complex Systems Division, Department of Theoretical Physics, Lund University, Sweden.

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March 2003

Impact of DNA amplification on gene expression patterns in breast cancer.

Cancer Res 2002 Nov;62(21):6240-5

Howard Hughes Medical Institute-NIH Research Scholar, Bethesda, Maryland 20892, USA.

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November 2002

Gene expression in inherited breast cancer.

Adv Cancer Res 2002 ;84:1-34

Cancer Genetics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, Maryland 20892, USA.

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http://cbbp.thep.lu.se/~markus/publications/papers/acr_revie
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August 2002

Analyzing array data using supervised methods.

Pharmacogenomics 2002 May;3(3):403-15

Cancer Genetics Branch, National Human Genome Research Institute, National Institutes of Health, Building 50, Room 5142,50 South Drive MSC 8000, Bethesda, MD 20892, USA.

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http://dx.doi.org/10.1517/14622416.3.3.403DOI Listing
May 2002