Sek Won Kong

Sek Won Kong

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Sek Won Kong

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Assessment of coverage for endogenous metabolites and exogenous chemical compounds using an untargeted metabolomics platform.

Pac Symp Biocomput 2020 ;25:587-598

Computational Health Informatics Program, Boston Children's Hospital, 300 Longwood Avenue, Boston, MA 02115, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6910716PMC
January 2020

An Improved Prediction Model for Ovarian Cancer Using Urinary Biomarkers and a Novel Validation Strategy.

Int J Mol Sci 2019 Oct 5;20(19). Epub 2019 Oct 5.

Department of Obstetrics & Gynecology, University of Ulsan, ASAN Medical Center, Seoul 05505, Korea.

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http://dx.doi.org/10.3390/ijms20194938DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6801627PMC
October 2019

Solving for X: Evidence for sex-specific autism biomarkers across multiple transcriptomic studies.

Am J Med Genet B Neuropsychiatr Genet 2019 09 6;180(6):377-389. Epub 2018 Dec 6.

Centre for Pattern Recognition and Data Analytics (PRaDA), Deakin University, Geelong, Australia.

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http://doi.wiley.com/10.1002/ajmg.b.32701
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http://dx.doi.org/10.1002/ajmg.b.32701DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6551334PMC
September 2019

Highly differentiated cytotoxic T cells in inclusion body myositis.

Brain 2019 Sep;142(9):2590-2604

Brigham and Women's Hospital Department of Neurology, Division of Neuromuscular Disease, and Harvard Medical School, Boston, MA, USA.

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http://dx.doi.org/10.1093/brain/awz207DOI Listing
September 2019

The Pediatric Cell Atlas: Defining the Growth Phase of Human Development at Single-Cell Resolution.

Dev Cell 2019 04 28;49(1):10-29. Epub 2019 Mar 28.

Department of Biomedical Informatics, University of Cincinnati College of Medicine, and Cincinnati Children's Hospital Medical Center, Division of Biomedical Informatics, Cincinnati, OH 45229, USA.

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http://dx.doi.org/10.1016/j.devcel.2019.03.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6616346PMC
April 2019

Comparative analysis of whole-genome sequencing pipelines to minimize false negative findings.

Sci Rep 2019 Mar 1;9(1):3219. Epub 2019 Mar 1.

Computational Health Informatics Program, Boston Children's Hospital, Boston, MA, 02115, USA.

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http://dx.doi.org/10.1038/s41598-019-39108-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6397176PMC
March 2019

Measuring coverage and accuracy of whole-exome sequencing in clinical context.

Genet Med 2018 12 12;20(12):1617-1626. Epub 2018 Apr 12.

Computational Health Informatics Program, Boston Children's Hospital, Boston, Massachusetts, USA.

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http://dx.doi.org/10.1038/gim.2018.51DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6185824PMC
December 2018

Pluripotent stem cell-based therapy for Parkinson's disease: Current status and future prospects.

Prog Neurobiol 2018 09 11;168:1-20. Epub 2018 Apr 11.

Department of Psychiatry, McLean Hospital, Harvard Medical School, United States; Molecular Neurobiology Laboratory, Program in Neuroscience and Harvard Stem Cell Institute, McLean Hospital, Harvard Medical School, 115 Mill Street, Belmont, MA, 02478, United States. Electronic address:

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http://dx.doi.org/10.1016/j.pneurobio.2018.04.005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6077089PMC
September 2018

Altered vulnerability to asthma at various levels of ambient Benzo[a]Pyrene by CTLA4, STAT4 and CYP2E1 polymorphisms.

Environ Pollut 2017 Dec 12;231(Pt 1):1134-1144. Epub 2017 Aug 12.

Department of Genetic Ecotoxicology, Institute of Experimental Medicine, Academy of Sciences of the Czech Republic, v.v.i., Vídeňská 1083, 142 20, Prague 4, Czech Republic. Electronic address:

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http://dx.doi.org/10.1016/j.envpol.2017.07.057DOI Listing
December 2017

Learning a Comorbidity-Driven Taxonomy of Pediatric Pulmonary Hypertension.

Circ Res 2017 Aug 13;121(4):341-353. Epub 2017 Jun 13.

From the Computational Health Informatics Program (M.-S.O., M.D.N., A.G., S.W.K., K.D.M.), Department of Cardiology (M.P.M.), Division of Critical Care Medicine, Department of Anesthesiology, Perioperative, and Pain Medicine (A.G.), and Department of Anesthesia (A.G.), Harvard School of Medicine, Boston Children's Hospital, MA; Department of Pediatrics, Vanderbilt University Medical Center, Nashville, TN (E.D.A.); Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, Cambridge (P.S.); Department of Pediatrics, Massachusetts General Hospital, Boston (M.D.N.); and Department of Biostatistics, Harvard School of Public Health, Boston, MA. (T.C.).

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http://dx.doi.org/10.1161/CIRCRESAHA.117.310804DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5559726PMC
August 2017

Comprehensive Analysis of Tissue-wide Gene Expression and Phenotype Data Reveals Tissues Affected in Rare Genetic Disorders.

Cell Syst 2017 08 16;5(2):140-148.e2. Epub 2017 Aug 16.

Computational Health Informatics Program, Boston Children's Hospital, Boston, MA 02115, USA; Department of Pediatrics, Harvard Medical School, Boston, MA 02115, USA.

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http://dx.doi.org/10.1016/j.cels.2017.06.016DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5928498PMC
August 2017

Blood transcriptomic comparison of individuals with and without autism spectrum disorder: A combined-samples mega-analysis.

Am J Med Genet B Neuropsychiatr Genet 2017 Apr 11;174(3):181-201. Epub 2016 Nov 11.

Departments of Psychiatry and Behavioral Sciences and Neuroscience and Physiology, Psychiatric Genetic Epidemiology and Neurobiology Laboratory (PsychGENe Lab), SUNY Upstate Medical University, Syracuse, New York.

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http://doi.wiley.com/10.1002/ajmg.b.32511
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http://dx.doi.org/10.1002/ajmg.b.32511DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5499528PMC
April 2017

ksRepo: a generalized platform for computational drug repositioning.

BMC Bioinformatics 2016 Feb 9;17:78. Epub 2016 Feb 9.

Department of Biomedical Informatics, Harvard Medical School, Boston, MA, 02115, USA.

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http://dx.doi.org/10.1186/s12859-016-0931-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4746802PMC
February 2016

I148M variant in PNPLA3 reduces central adiposity and metabolic disease risks while increasing nonalcoholic fatty liver disease.

Liver Int 2015 Dec 23;35(12):2537-46. Epub 2015 Jul 23.

Informatics Program, Boston Children's Hospital, Boston, MA, USA.

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http://dx.doi.org/10.1111/liv.12909DOI Listing
December 2015

Gene expression analysis in Fmr1KO mice identifies an immunological signature in brain tissue and mGluR5-related signaling in primary neuronal cultures.

Mol Autism 2015 21;6:66. Epub 2015 Dec 21.

Department of Biomedical Informatics, Harvard Medical School, Boston, MA USA ; Children's Hospital Informatics Program, Boston Children's Hospital, Boston, MA USA ; Department of Pediatrics, Harvard Medical School, Boston, MA USA.

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http://www.molecularautism.com/content/6/1/66
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http://dx.doi.org/10.1186/s13229-015-0061-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4687343PMC
December 2015

Mitf is a master regulator of the v-ATPase, forming a control module for cellular homeostasis with v-ATPase and TORC1.

J Cell Sci 2015 Aug 19;128(15):2938-50. Epub 2015 Jun 19.

Department of Ophthalmology, Center for Vision Research and SUNY Eye Institute, Upstate Medical University, Syracuse, 13210 NY, USA Departments of Neuroscience and Physiology, Biochemistry and Molecular Biology, Upstate Medical University, Syracuse, 13210 NY, USA

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http://dx.doi.org/10.1242/jcs.173807DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4540953PMC
August 2015

Summarizing polygenic risks for complex diseases in a clinical whole-genome report.

Genet Med 2015 Jul 23;17(7):536-44. Epub 2014 Oct 23.

1] Harvard Medical School, Boston, Massachusetts, USA [2] Division of Genetics, Department of Medicine, Brigham and Women's Hospital, Boston, Massachusetts, USA [3] Cardiovascular Division, Brigham and Women's Hospital, Boston, Massachusetts, USA.

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http://dx.doi.org/10.1038/gim.2014.143DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4547452PMC
July 2015

Reducing false-positive incidental findings with ensemble genotyping and logistic regression based variant filtering methods.

Hum Mutat 2014 Aug 24;35(8):936-44. Epub 2014 Jun 24.

Children's Hospital Informatics Program at the Harvard-MIT Division of Health Sciences and Technology, Boston Children's Hospital, Boston, Massachusetts; School of Computer Science and Engineering, Soongsil University, Seoul, 156-743, South Korea.

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http://dx.doi.org/10.1002/humu.22587DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4112476PMC
August 2014

Prioritizing disease-linked variants, genes, and pathways with an interactive whole-genome analysis pipeline.

Hum Mutat 2014 May 6;35(5):537-47. Epub 2014 Mar 6.

Children's Hospital Informatics Program at the Harvard-MIT Division of Health Sciences and Technology, Department of Medicine, Boston Children's Hospital, Boston, Massachusetts, 02115.

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http://dx.doi.org/10.1002/humu.22520DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4130156PMC
May 2014

Pathway-based outlier method reveals heterogeneous genomic structure of autism in blood transcriptome.

BMC Med Genomics 2013 Sep 24;6:34. Epub 2013 Sep 24.

Center for Biomedical Informatics, Harvard Medical School, 10 Shattuck Street, Boston, MA 02115, USA.

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http://dx.doi.org/10.1186/1755-8794-6-34DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3849321PMC
September 2013

Cytosolic 5'-nucleotidase 1A autoimmunity in sporadic inclusion body myositis.

Ann Neurol 2013 Mar;73(3):408-18

Department of Genetics, Harvard University Medical School, Division of Genetics, Department of Medicine, Brigham and Women's Hospital, Boston, MA 02115, USA.

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http://dx.doi.org/10.1002/ana.23840DOI Listing
March 2013

gSearch: a fast and flexible general search tool for whole-genome sequencing.

Bioinformatics 2012 Aug 23;28(16):2176-7. Epub 2012 Jun 23.

School of Computer Science and Engineering, Soongsil University, Seoul 156-743, South Korea.

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https://academic.oup.com/bioinformatics/article-lookup/doi/1
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http://dx.doi.org/10.1093/bioinformatics/bts358DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3413394PMC
August 2012

Taxonomizing, sizing, and overcoming the incidentalome.

Genet Med 2012 Apr 9;14(4):399-404. Epub 2012 Feb 9.

Children's Hospital Informatics Program, Children's Hospital, Boston, Massachusetts, USA.

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http://www.nature.com/articles/gim201168
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http://dx.doi.org/10.1038/gim.2011.68DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3821385PMC
April 2012

Co-occupancy by multiple cardiac transcription factors identifies transcriptional enhancers active in heart.

Proc Natl Acad Sci U S A 2011 Apr 17;108(14):5632-7. Epub 2011 Mar 17.

Department of Cardiology and Children's Hospital Informatics Program, Children's Hospital Boston, Boston, MA 02115, USA.

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http://www.pnas.org/cgi/doi/10.1073/pnas.1016959108
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http://dx.doi.org/10.1073/pnas.1016959108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3078411PMC
April 2011

CompleteMOTIFs: DNA motif discovery platform for transcription factor binding experiments.

Bioinformatics 2011 Mar 23;27(5):715-7. Epub 2010 Dec 23.

Children's Hospital Informatics Program at the Harvard-MIT, Division of Health Sciences and Technology, Department of Medicine, Children's Hospital Boston, Boston, MA 02115, USA.

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http://dx.doi.org/10.1093/bioinformatics/btq707DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3105477PMC
March 2011

Integration of heterogeneous expression data sets extends the role of the retinol pathway in diabetes and insulin resistance.

Bioinformatics 2009 Dec 28;25(23):3121-7. Epub 2009 Sep 28.

Children's Hospital Informatics Program at the Harvard-MIT Division of Health Sciences and Technology, Center of Biomedical Informatics, Harvard Medical School, Boston, MA 02115, USA.

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https://academic.oup.com/bioinformatics/article-lookup/doi/1
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http://dx.doi.org/10.1093/bioinformatics/btp559DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2778339PMC
December 2009

Fog2 is critical for cardiac function and maintenance of coronary vasculature in the adult mouse heart.

J Clin Invest 2009 Jun;119(6):1462-76

Department of Cardiology, Children's Hospital Boston and Department of Genetics, Harvard Medical School, Boston, Massachusetts 02115, USA.

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http://www.jci.org/articles/view/38723
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http://dx.doi.org/10.1172/JCI38723DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2689123PMC
June 2009

MicroRNA-1 negatively regulates expression of the hypertrophy-associated calmodulin and Mef2a genes.

Mol Cell Biol 2009 Apr 2;29(8):2193-204. Epub 2009 Feb 2.

Department of Cardiology, Children's Hospital Boston, Department of Genetics, Harvard Medical School, Boston, Massachusetts 021151, USA.

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http://dx.doi.org/10.1128/MCB.01222-08DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2663304PMC
April 2009

GATA4 is a direct transcriptional activator of cyclin D2 and Cdk4 and is required for cardiomyocyte proliferation in anterior heart field-derived myocardium.

Mol Cell Biol 2008 Sep 30;28(17):5420-31. Epub 2008 Jun 30.

Genentech Hall, 600 16th Street, Mail Code 2240, University of California, San Francisco, San Francisco, CA 94158-2517, USA.

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http://mcb.asm.org/content/28/17/5420.full.pdf
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http://mcb.asm.org/cgi/doi/10.1128/MCB.00717-08
Publisher Site
http://dx.doi.org/10.1128/MCB.00717-08DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2519727PMC
September 2008

Integrative analysis reveals the direct and indirect interactions between DNA copy number aberrations and gene expression changes.

Bioinformatics 2008 Apr 8;24(7):889-96. Epub 2008 Feb 8.

Harvard-Partners Center for Genetics and Genomics, Informatics Program, Children's Hospital, Department of Cardiology, Children's Hospital, Boston, MA, USA.

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http://dx.doi.org/10.1093/bioinformatics/btn034DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2600603PMC
April 2008

Analysis of the Otd-dependent transcriptome supports the evolutionary conservation of CRX/OTX/OTD functions in flies and vertebrates.

Dev Biol 2008 Mar 31;315(2):521-34. Epub 2008 Jan 31.

Department of Ophthalmology, Harvard Medical School and the Massachusetts Eye and Ear Infirmary, 243 Charles Street MEEI 507, Boston, MA 02445, USA.

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http://dx.doi.org/10.1016/j.ydbio.2007.12.017DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2329912PMC
March 2008

Altered microRNA expression in human heart disease.

Physiol Genomics 2007 Nov 21;31(3):367-73. Epub 2007 Aug 21.

Department of Cardiology, Children's Hospital Boston, Boston, MA 02115, USA.

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http://dx.doi.org/10.1152/physiolgenomics.00144.2007DOI Listing
November 2007

Statistical methods in cardiac gene expression profiling: from image to function.

Authors:
Sek Won Kong

Methods Mol Biol 2007 ;366:75-105

Department of Cardiology, Children's Hospital Boston, Harvard Medical School, Boston, MA, USA.

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http://dx.doi.org/10.1007/978-1-59745-030-0_5DOI Listing
July 2007

Phenotypic diversity and altered environmental plasticity in Arabidopsis thaliana with reduced Hsp90 levels.

PLoS One 2007 Jul 25;2(7):e648. Epub 2007 Jul 25.

Committee on Genetics, University of Chicago, Chicago, Illinois, United States of America; Whitehead Institute for Biomedical Research, Cambridge, Massachusetts, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0000648PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1920555PMC
July 2007

Network-based analysis of affected biological processes in type 2 diabetes models.

PLoS Genet 2007 Jun;3(6):e96

Department of Biomedical Engineering, Boston University, Boston, Massachusetts, United States of America.

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http://dx.doi.org/10.1371/journal.pgen.0030096DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1904360PMC
June 2007

A multivariate approach for integrating genome-wide expression data and biological knowledge.

Bioinformatics 2006 Oct 28;22(19):2373-80. Epub 2006 Jul 28.

Department of Cardiology 300 Longwood Avenue, Boston, MA 02115, USA.

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https://academic.oup.com/bioinformatics/article-lookup/doi/1
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http://dx.doi.org/10.1093/bioinformatics/btl401DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2813864PMC
October 2006

Development of heart valves requires Gata4 expression in endothelial-derived cells.

Development 2006 Sep 16;133(18):3607-18. Epub 2006 Aug 16.

Department of Genetics, Harvard Medical School, Boston, MA 02115, USA.

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http://dx.doi.org/10.1242/dev.02519DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2735081PMC
September 2006

Discovering statistically significant pathways in expression profiling studies.

Proc Natl Acad Sci U S A 2005 Sep 8;102(38):13544-9. Epub 2005 Sep 8.

Department of Preventive Medicine, Feinberg School of Medicine, Northwestern University, 680 North Lake Shore Drive, Chicago, IL 60611, USA.

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http://dx.doi.org/10.1073/pnas.0506577102DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1200092PMC
September 2005

CrossChip: a system supporting comparative analysis of different generations of Affymetrix arrays.

Bioinformatics 2005 May 31;21(9):2116-7. Epub 2005 Jan 31.

Bauer Center for Genomics Research, Harvard University, Cambridge, MA, USA.

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http://dx.doi.org/10.1093/bioinformatics/bti288DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2819168PMC
May 2005

Genetic expression profiles during physiological and pathological cardiac hypertrophy and heart failure in rats.

Physiol Genomics 2005 Mar 28;21(1):34-42. Epub 2004 Dec 28.

Cardiovascular Division, Beth Israel Deaconess Medical Center and Harvard Medical School, Boston, Massachusetts 02215, USA.

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http://dx.doi.org/10.1152/physiolgenomics.00226.2004DOI Listing
March 2005

Combining gene expression data from different generations of oligonucleotide arrays.

BMC Bioinformatics 2004 Oct 25;5:159. Epub 2004 Oct 25.

School of Computer Science and Engineering, Seoul National University, Seoul 151-742, Korea.

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http://dx.doi.org/10.1186/1471-2105-5-159DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC528726PMC
October 2004