Shannon McWeeney

Shannon McWeeney

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Shannon McWeeney

Publications by authors named "Shannon McWeeney"

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Persistent Toll-like receptor 7 stimulation induces behavioral and molecular innate immune tolerance.

Brain Behav Immun 2019 Sep 6. Epub 2019 Sep 6.

Papé Family Pediatric Research Institute, Oregon Health & Science University, Portland, OR, USA; Knight Cancer Institute, Oregon Health & Science University, Portland, OR, USA; Brenden-Colson Center for Pancreatic Care, Oregon Health & Science University, Portland, OR, USA. Electronic address:

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http://dx.doi.org/10.1016/j.bbi.2019.09.004DOI Listing
September 2019

Controlling for Contaminants in Low-Biomass 16S rRNA Gene Sequencing Experiments.

mSystems 2019 Jun 4;4(4). Epub 2019 Jun 4.

Division of Bioinformatics and Computational Biology, Oregon Health and Science University, Portland, Oregon, USA.

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http://dx.doi.org/10.1128/mSystems.00290-19DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6550369PMC
June 2019

Visualization of drug target interactions in the contexts of pathways and networks with ReactomeFIViz.

F1000Res 2019 20;8:908. Epub 2019 Jun 20.

Division of Bioinformatics and Computational Biology, Department of Medical Informatics and Clinical Epidemiology, Oregon Health & Science University, Portland, OR, 97239, USA.

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http://dx.doi.org/10.12688/f1000research.19592.1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6644836PMC
June 2019

Natural Product Target Network Reveals Potential for Cancer Combination Therapies.

Front Pharmacol 2019 31;10:557. Epub 2019 May 31.

Division of Bioinformatics and Computational Biology, Department of Medical Informatics and Clinical Epidemiology, Portland, OR, United States.

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http://dx.doi.org/10.3389/fphar.2019.00557DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6555193PMC
May 2019

Salt-sensitive transcriptome of isolated kidney distal tubule cells.

Physiol Genomics 2019 Apr 15;51(4):125-135. Epub 2019 Mar 15.

Division of Nephrology and Hypertension, Department of Medicine, Oregon Health & Science University , Portland, Oregon.

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http://dx.doi.org/10.1152/physiolgenomics.00119.2018DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6485379PMC
April 2019

Functional genomic landscape of acute myeloid leukaemia.

Nature 2018 10 17;562(7728):526-531. Epub 2018 Oct 17.

Knight Cancer Institute, Oregon Health & Science University, Portland, OR, USA.

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http://dx.doi.org/10.1038/s41586-018-0623-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6280667PMC
October 2018

A Single-Cell Approach to the Elusive Latent Human Cytomegalovirus Transcriptome.

MBio 2018 06 12;9(3). Epub 2018 Jun 12.

Oregon Health and Sciences University, Portland, Oregon, USA.

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http://mbio.asm.org/lookup/doi/10.1128/mBio.01001-18
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http://dx.doi.org/10.1128/mBio.01001-18DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6016237PMC
June 2018

Network-Based Predictors of Progression in Head and Neck Squamous Cell Carcinoma.

Front Genet 2018 29;9:183. Epub 2018 May 29.

Division of Bioinformatics and Computational Biology, Department of Medical Informatics and Clinical Epidemiology, Oregon Health and Science University, Portland, OR, United States.

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http://dx.doi.org/10.3389/fgene.2018.00183DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5992410PMC
May 2018

Integrated functional and mass spectrometry-based flow cytometric phenotyping to describe the immune microenvironment in acute myeloid leukemia.

J Immunol Methods 2018 02 23;453:44-52. Epub 2017 Nov 23.

Molecular Microbiology & Immunology, Oregon Health & Science University, Portland, OR, United States. Electronic address:

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http://dx.doi.org/10.1016/j.jim.2017.11.010DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6107081PMC
February 2018

Evidence-Based Precision Oncology with the Cancer Targetome.

Trends Pharmacol Sci 2017 12 27;38(12):1085-1099. Epub 2017 Sep 27.

Division of Bioinformatics and Computational Biology, Department of Medical Informatics and Clinical Epidemiology, Oregon Health & Science University, Portland, OR, USA; Knight Cancer Institute, Oregon Health & Science University, Portland, OR, USA. Electronic address:

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http://dx.doi.org/10.1016/j.tips.2017.08.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5759325PMC
December 2017

Extensive Homeostatic T Cell Phenotypic Variation within the Collaborative Cross.

Cell Rep 2017 Nov;21(8):2313-2325

Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, WA 98109, USA; Department of Global Health, University of Washington, Seattle, WA 98195, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2017.10.093DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5728448PMC
November 2017

Human Mycobacterium tuberculosis CD8 T Cell Antigens/Epitopes Identified by a Proteomic Peptide Library.

PLoS One 2013 21;8(6):e67016. Epub 2013 Jun 21.

Division of Pulmonary and Critical Care Medicine, Oregon Health and Sciences University, Portland, Oregon ; Portland Veterans Administration Medical Center, Portland, Oregon.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0067016PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3689843PMC
October 2017

Does the Urinary Microbiome Play a Role in Urgency Urinary Incontinence and Its Severity?

Front Cell Infect Microbiol 2016 27;6:78. Epub 2016 Jul 27.

Division of Urogynecology, Oregon Health and Science UniversityPortland, OR, USA; Kaiser PermanenteClackamas, OR, USA.

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http://dx.doi.org/10.3389/fcimb.2016.00078DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4961701PMC
September 2017

and Loci Associate with Plasma Osmolality.

Authors:
Carsten A Böger Mathias Gorski Gearoid M McMahon Huichun Xu Yen-Pei C Chang Peter J van der Most Gerjan Navis Ilja M Nolte Martin H de Borst Weihua Zhang Benjamin Lehne Marie Loh Sian-Tsung Tan Eric Boerwinkle Morgan E Grams Peggy Sekula Man Li Beth Wilmot James G Moon Paul Scheet Francesco Cucca Xiangjun Xiao Leo-Pekka Lyytikäinen Graciela Delgado Tanja B Grammer Marcus E Kleber Sanaz Sedaghat Fernando Rivadeneira Tanguy Corre Zoltan Kutalik Sven Bergmann Carrie M Nielson Priya Srikanth Alexander Teumer Martina Müller-Nurasyid Anne Catharina Brockhaus Arne Pfeufer Wolfgang Rathmann Annette Peters Martha Matsumoto Mariza de Andrade Elizabeth J Atkinson Cassianne Robinson-Cohen Ian H de Boer Shih-Jen Hwang Iris M Heid Martin Gögele Maria Pina Concas Toshiko Tanaka Stefania Bandinelli Mike A Nalls Andrew Singleton Salman M Tajuddin Adebowale Adeyemo Jie Zhou Ayo Doumatey Shannon McWeeney Joanne Murabito Nora Franceschini Michael Flessner Michael Shlipak James G Wilson Guanjie Chen Charles N Rotimi Alan B Zonderman Michele K Evans Luigi Ferrucci Olivier Devuyst Mario Pirastu Alan Shuldiner Andrew A Hicks Peter Paul Pramstaller Bryan Kestenbaum Sharon L R Kardia Stephen T Turner LifeLines Cohort Study Tamara Ellefson Briske Christian Gieger Konstantin Strauch Christa Meisinger Thomas Meitinger Uwe Völker Matthias Nauck Henry Völzke Peter Vollenweider Murielle Bochud Gerard Waeber Mika Kähönen Terho Lehtimäki Winfried März Abbas Dehghan Oscar H Franco Andre G Uitterlinden Albert Hofman Herman A Taylor John C Chambers Jaspal S Kooner Caroline S Fox Robert Hitzemann Eric S Orwoll Cristian Pattaro David Schlessinger Anna Köttgen Harold Snieder Afshin Parsa David M Cohen

J Am Soc Nephrol 2017 Aug 30;28(8):2311-2321. Epub 2017 Mar 30.

Due to the number of contributing authors, the affiliations are listed in the supplemental material.

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http://dx.doi.org/10.1681/ASN.2016080892DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5533231PMC
August 2017

Unpaired Extracellular Cysteine Mutations of CSF3R Mediate Gain or Loss of Function.

Cancer Res 2017 08 26;77(16):4258-4267. Epub 2017 Jun 26.

Department of Cell, Developmental & Cancer Biology, Oregon Health & Science University Knight Cancer Institute, Portland, Oregon.

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http://dx.doi.org/10.1158/0008-5472.CAN-17-1052DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5763920PMC
August 2017

A MicroRNA Screen Identifies the Wnt Signaling Pathway as a Regulator of the Interferon Response during Flavivirus Infection.

J Virol 2017 04 29;91(8). Epub 2017 Mar 29.

Vaccine and Gene Therapy Institute, Oregon Health & Science University, Beaverton, Oregon, USA

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http://dx.doi.org/10.1128/JVI.02388-16DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5375670PMC
April 2017

Identification of Interleukin-1 by Functional Screening as a Key Mediator of Cellular Expansion and Disease Progression in Acute Myeloid Leukemia.

Cell Rep 2017 03;18(13):3204-3218

Division of Hematology and Medical Oncology, Knight Cancer Institute, Oregon Health & Science University, Portland, OR 97239, USA; Department of Molecular and Medical Genetics, Oregon Health & Science University, Portland, OR 97239, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2017.03.018DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5437102PMC
March 2017

Pathway analysis in attention deficit hyperactivity disorder: An ensemble approach.

Am J Med Genet B Neuropsychiatr Genet 2016 09 22;171(6):815-26. Epub 2016 Mar 22.

Division of Bioinformatics & Computational Biology, Department of Medical Informatics & Clinical Epidemiology, Oregon Health & Science University, Portland, Oregon.

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http://dx.doi.org/10.1002/ajmg.b.32446DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4983253PMC
September 2016

HitWalker2: visual analytics for precision medicine and beyond.

Bioinformatics 2016 04 26;32(8):1253-5. Epub 2015 Dec 26.

Knight Cancer Institute, Oregon Clinical and Translational Research Institute and Division of Bioinformatics and Computational Biology, Department of Medical Informatics and Clinical Epidemiology, Oregon Health and Science University, Portland OR 97239, USA.

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http://dx.doi.org/10.1093/bioinformatics/btv739DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4824131PMC
April 2016

Between pathways and networks lies context: implications for precision medicine.

Sci Prog 2015 ;98(Pt 3):253-63

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February 2016

IL-10 and integrin signaling pathways are associated with head and neck cancer progression.

BMC Genomics 2016 Jan 8;17:38. Epub 2016 Jan 8.

OHSU Knight Cancer Institute, Oregon Health & Science University, 3181 SW Sam Jackson Park Road, Portland, OR, 97239, USA.

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http://dx.doi.org/10.1186/s12864-015-2359-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4706689PMC
January 2016

Use of semantic workflows to enhance transparency and reproducibility in clinical omics.

Genome Med 2015 Jul 25;7:73. Epub 2015 Jul 25.

Division of Bioinformatics and Computational Biology, Department of Medical Informatics and Clinical Epidemiology, Oregon Health & Science University, Portland, OR, USA.

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http://dx.doi.org/10.1186/s13073-015-0202-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4545705PMC
July 2015

Cosplicing network analysis of mammalian brain RNA-Seq data utilizing WGCNA and Mantel correlations.

Front Genet 2015 13;6:174. Epub 2015 May 13.

Department of Behavioral Neuroscience, Oregon Health & Science University Portland, OR, USA ; Research Service, Veterans Affairs Medical Center Portland, OR, USA.

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http://dx.doi.org/10.3389/fgene.2015.00174DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4429622PMC
June 2015

Therapeutically Targetable ALK Mutations in Leukemia.

Cancer Res 2015 Jun;75(11):2146-50

Knight Cancer Institute, Oregon Health and Science University, Portland, Oregon. Department of Cell and Developmental Biology, Oregon Health and Science University, Portland, Oregon.

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http://cancerres.aacrjournals.org/content/75/11/2146.full.pd
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http://cancerres.aacrjournals.org/cgi/doi/10.1158/0008-5472.
Publisher Site
http://dx.doi.org/10.1158/0008-5472.CAN-14-1576DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4453002PMC
June 2015

Introduction to sequencing the brain transcriptome.

Int Rev Neurobiol 2014 ;116:1-19

Oregon Clinical and Translational Research Institute, Oregon Health & Science University, Portland, Oregon, USA; Division of Biostatistics, Public Health & Preventative Medicine, Oregon Health & Science University, Portland, Oregon, USA.

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http://dx.doi.org/10.1016/B978-0-12-801105-8.00001-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4773050PMC
May 2015

Data integration and reproducibility for high-throughput transcriptomics.

Int Rev Neurobiol 2014 ;116:55-71

Division of Bioinformatics & Computational Biology, Department of Medical Informatics & Clinical Epidemiology, Oregon Health & Science University, Portland, Oregon, USA.

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http://dx.doi.org/10.1016/B978-0-12-801105-8.00003-5DOI Listing
May 2015

Human Cytomegalovirus miR-UL112-3p Targets TLR2 and Modulates the TLR2/IRAK1/NFκB Signaling Pathway.

PLoS Pathog 2015 May 8;11(5):e1004881. Epub 2015 May 8.

Vaccine and Gene Therapy Institute, Oregon Health and Science University, Portland, Oregon, United States of America.

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http://dx.doi.org/10.1371/journal.ppat.1004881DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4425655PMC
May 2015

Influenza vaccination of pregnant women: attitudes and behaviors of Oregon physician prenatal care providers.

Matern Child Health J 2015 Apr;19(4):783-9

Department of Public Health and Preventive Medicine, Oregon Health and Sciences University, Portland, OR, USA,

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http://dx.doi.org/10.1007/s10995-014-1569-xDOI Listing
April 2015

plethy: management of whole body plethysmography data in R.

BMC Bioinformatics 2015 Apr 29;16:134. Epub 2015 Apr 29.

Oregon Clinical and Translational Research Institute, Oregon Health and Science University, 3181 SW Sam Jackson Park Rd97239, Portland, Oregon, US.

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http://dx.doi.org/10.1186/s12859-015-0547-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4434826PMC
April 2015

Splicing landscape of the eight collaborative cross founder strains.

BMC Genomics 2015 Feb 5;16:52. Epub 2015 Feb 5.

Department of Behavioral Neuroscience, Oregon Health & Science University, Portland, Oregon, USA.

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http://dx.doi.org/10.1186/s12864-015-1267-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4320832PMC
February 2015

Maternal high-fat diet and obesity compromise fetal hematopoiesis.

Mol Metab 2015 Jan 18;4(1):25-38. Epub 2014 Nov 18.

Papé Family Pediatric Research Institute, Oregon Health & Science University, Portland, OR 97239, USA ; Department of Pediatrics, Oregon Health & Science University, Portland, OR 97239, USA.

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http://dx.doi.org/10.1016/j.molmet.2014.11.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4314531PMC
January 2015

Dual-trait selection for ethanol consumption and withdrawal: genetic and transcriptional network effects.

Alcohol Clin Exp Res 2014 Dec;38(12):2915-24

Portland Alcohol Research Center, Veterans Affairs Medical Center, Portland, Oregon; Department of Behavioral Neuroscience, Oregon Health & Science University, Portland, Oregon.

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http://dx.doi.org/10.1111/acer.12574DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4500109PMC
December 2014

Functional and genomic context in pathway analysis of GWAS data.

Trends Genet 2014 Sep 22;30(9):390-400. Epub 2014 Aug 22.

Division of Bioinformatics and Computational Biology, Department of Medical Informatics and Clinical Epidemiology, Oregon Health & Science University, Portland, OR, USA; Oregon Clinical and Translational Research Institute, Portland, OR, USA; OHSU Knight Cancer Institute, Portland, OR, USA.

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http://dx.doi.org/10.1016/j.tig.2014.07.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4266582PMC
September 2014

Challenges in secondary analysis of high throughput screening data.

Pac Symp Biocomput 2014 :114-24

Division of Bioinformatics and Computational Biology, Oregon Health & Science University, Portland, OR 97203, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3976302PMC
August 2014

Comparison of methods to identify aberrant expression patterns in individual patients: augmenting our toolkit for precision medicine.

Genome Med 2013 29;5(11):103. Epub 2013 Nov 29.

Knight Cancer Institute, Oregon Health and Science University, 3181 SW Sam Jackson Park Road, Portland, OR 97239, USA ; Oregon Clinical and Translational Research Institute, Oregon Health and Science University, 3181 SW Sam Jackson Park Road, Portland, OR 97239, USA ; Division of Bioinformatics and Computational Biology, DMICE, Oregon Health and Science University, 3181 SW Sam Jackson Park Road, Portland, OR 97239, USA.

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http://dx.doi.org/10.1186/gm509DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3971350PMC
May 2014

The GA and the GWAS: using genetic algorithms to search for multilocus associations.

IEEE/ACM Trans Comput Biol Bioinform 2012 May-Jun;9(3):899-910. Epub 2011 Oct 19.

Oregon Health & Science University, Portland.

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http://ieeexplore.ieee.org/document/6060796/
Publisher Site
http://dx.doi.org/10.1109/TCBB.2011.145DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3748153PMC
March 2014

Multi-omic network signatures of disease.

Front Genet 2014 Jan 7;4:309. Epub 2014 Jan 7.

McWeeney Lab, Division of Bioinformatics and Computational Biology, Oregon Health & Science University Portland, OR, USA ; McWeeney Lab, OHSU Knight Cancer Institute, Oregon Health & Science University Portland, OR, USA.

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http://dx.doi.org/10.3389/fgene.2013.00309DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3882664PMC
January 2014

Androgen receptor promotes ligand-independent prostate cancer progression through c-Myc upregulation.

PLoS One 2013 21;8(5):e63563. Epub 2013 May 21.

Division of Hematology/Oncology, Knight Cancer Institute, Oregon Health and Science University, Portland, Oregon, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0063563PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3660401PMC
December 2013

Genetic factors involved in risk for methamphetamine intake and sensitization.

Mamm Genome 2013 Dec 13;24(11-12):446-58. Epub 2013 Nov 13.

Veterans Affairs Medical Center, Oregon Health & Science University, R&D 32, 3710 SW US Veterans Hospital Rd., Portland, OR, 97239, USA.

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http://dx.doi.org/10.1007/s00335-013-9484-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3880562PMC
December 2013

Differential network analysis reveals genetic effects on catalepsy modules.

PLoS One 2013 21;8(3):e58951. Epub 2013 Mar 21.

Department of Behavioral Neuroscience, Oregon Health & Science University, Portland, Oregon, USA.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0058951PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3605410PMC
October 2013

Selection for drinking in the dark alters brain gene coexpression networks.

Alcohol Clin Exp Res 2013 Aug 29;37(8):1295-303. Epub 2013 Mar 29.

Department of Behavioral Neuroscience, Oregon Health & Science University, Portland, OR, USA.

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http://dx.doi.org/10.1111/acer.12100DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3759151PMC
August 2013

Protein co-expression network analysis (ProCoNA).

J Clin Bioinforma 2013 Jun 1;3(1):11. Epub 2013 Jun 1.

Division of Bioinformatics and Computational Biology, Oregon Health & Science University, 3181 S,W, Sam Jackson Park Rd, Portland, OR 97239, USA.

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http://dx.doi.org/10.1186/2043-9113-3-11DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3695838PMC
June 2013

Systems immunogenetics of vaccines.

Semin Immunol 2013 Apr 22;25(2):124-9. Epub 2013 Jul 22.

Division of Bioinformatics & Computational Biology, Department of Medical Informatics & Clinical Epidemiology, Oregon Health & Science University, Oregon, United States.

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http://dx.doi.org/10.1016/j.smim.2013.06.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3815469PMC
April 2013

HitWalker: variant prioritization for personalized functional cancer genomics.

Bioinformatics 2013 Feb 9;29(4):509-10. Epub 2013 Jan 9.

Knight Cancer Institute, Oregon Health and Science University, Portland, OR 97239, USA.

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http://dx.doi.org/10.1093/bioinformatics/btt003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3570211PMC
February 2013

Utilizing RNA-Seq data for de novo coexpression network inference.

Bioinformatics 2012 Jun 3;28(12):1592-7. Epub 2012 May 3.

Department of Behavioral Neuroscience, Oregon Health & Science University, Portland, OR 97239-3098, USA.

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https://academic.oup.com/bioinformatics/article-lookup/doi/1
Publisher Site
http://dx.doi.org/10.1093/bioinformatics/bts245DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3493127PMC
June 2012

Occupancy classification of position weight matrix-inferred transcription factor binding sites.

PLoS One 2011 4;6(11):e26160. Epub 2011 Nov 4.

Division of Bioinformatics and Computational Biology, Department of Medical Informatics and Clinical Epidemiology, Oregon Health and Science University, Portland, Oregon, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0026160PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3208542PMC
March 2012

Microcephaly genes and risk of late-onset Alzheimer disease.

Alzheimer Dis Assoc Disord 2011 Jul-Sep;25(3):276-82

Portland Veterans Affairs Medical Center, Oregon Health and Science University, Portland, OR.

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http://dx.doi.org/10.1097/WAD.0b013e31820a1d32DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3136560PMC
December 2011

Host regulatory network response to infection with highly pathogenic H5N1 avian influenza virus.

J Virol 2011 Nov 24;85(21):10955-67. Epub 2011 Aug 24.

University of Wisconsin-Madison, School of Veterinary Medicine, Department of Pathobiological Sciences, Influenza Research Institute, 575 Science Drive, Madison, WI 53711, USA.

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http://dx.doi.org/10.1128/JVI.05792-11DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3194976PMC
November 2011

Protein database and quantitative analysis considerations when integrating genetics and proteomics to compare mouse strains.

J Proteome Res 2011 Jul 9;10(7):2905-12. Epub 2011 May 9.

Department of Medical Informatics and Clinical Epidemiology, Oregon Health & Science University, 3181 SW Sam Jackson Park Road, Portland, Oregon 97239, USA.

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http://dx.doi.org/10.1021/pr200133pDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3128464PMC
July 2011

Computational detection of alternative exon usage.

Front Neurosci 2011 13;5:69. Epub 2011 May 13.

Oregon Clinical Research and Translational Institute, Oregon Health and Science University Portland, OR, USA.

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http://dx.doi.org/10.3389/fnins.2011.00069DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3097375PMC
July 2011

The BioPAX community standard for pathway data sharing.

Nat Biotechnol 2010 Sep 9;28(9):935-42. Epub 2010 Sep 9.

Computational Biology, Memorial Sloan-Kettering Cancer Center, New York, New York, USA.

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http://dx.doi.org/10.1038/nbt.1666DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3001121PMC
September 2010

A viral microRNA down-regulates multiple cell cycle genes through mRNA 5'UTRs.

PLoS Pathog 2010 Jun 24;6(6):e1000967. Epub 2010 Jun 24.

Vaccine and Gene Therapy Institute, Oregon Health & Science University, Portland, Oregon, United States of America.

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http://dx.doi.org/10.1371/journal.ppat.1000967DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2891821PMC
June 2010