Katerina Kechris

Katerina Kechris

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Katerina Kechris

Katerina Kechris

Publications by authors named "Katerina Kechris"

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Unsupervised discovery of phenotype-specific multi-omics networks.

Bioinformatics 2019 Nov;35(21):4336-4343

Department of Biostatistics and Informatics, University of Colorado Anschutz Medical Campus, Aurora, CO, USA.

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http://dx.doi.org/10.1093/bioinformatics/btz226DOI Listing
November 2019

A prospective study of associations between in utero exposure to gestational diabetes mellitus and metabolomic profiles during late childhood and adolescence.

Diabetologia 2019 Nov 13. Epub 2019 Nov 13.

Lifecourse Epidemiology of Adiposity and Diabetes (LEAD) Center, Colorado School of Public Health, University of Colorado Anschutz Medical Campus, Room 208, 12474 E. 19th Ave, Aurora, CO, 80045, USA.

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http://dx.doi.org/10.1007/s00125-019-05036-zDOI Listing
November 2019

Insight into genetic regulation of miRNA in mouse brain.

BMC Genomics 2019 Nov 13;20(1):849. Epub 2019 Nov 13.

Department of Biostatistics and Informatics, Colorado School of Public Health, Aurora, CO, 80045, USA.

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http://dx.doi.org/10.1186/s12864-019-6110-6DOI Listing
November 2019

Prenatal exposure to per- and polyfluoroalkyl substances and infant growth and adiposity: the Healthy Start Study.

Environ Int 2019 Oct 5;131:104983. Epub 2019 Jul 5.

Department of Epidemiology, Colorado School of Public Health, Aurora, CO, USA; Lifecourse Epidemiology of Adiposity and Diabetes (LEAD) Center, University of Colorado Anschutz Medical Campus, Aurora, CO, USA; Department of Pediatrics, School of Medicine, University of Colorado Anschutz Medical Campus, Aurora, CO, USA.

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http://dx.doi.org/10.1016/j.envint.2019.104983DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6728170PMC
October 2019

Deep reinforcement learning based valve scheduling for pollution isolation in water distribution network.

Math Biosci Eng 2019 Sep;17(1):122-143

Department of Biostatistics and Informatics, Colorado School of Public Health, University of Colorado Denver Anschutz Medical Campus, Mail Stop B119, 13001 E. 17th Place, Aurora, 80045, USA.

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http://dx.doi.org/10.3934/mbe.2020007DOI Listing
September 2019

Meta-analysis of epigenome-wide association studies in neonates reveals widespread differential DNA methylation associated with birthweight.

Authors:
Leanne K Küpers Claire Monnereau Gemma C Sharp Paul Yousefi Lucas A Salas Akram Ghantous Christian M Page Sarah E Reese Allen J Wilcox Darina Czamara Anne P Starling Alexei Novoloaca Samantha Lent Ritu Roy Cathrine Hoyo Carrie V Breton Catherine Allard Allan C Just Kelly M Bakulski John W Holloway Todd M Everson Cheng-Jian Xu Rae-Chi Huang Diana A van der Plaat Matthias Wielscher Simon Kebede Merid Vilhelmina Ullemar Faisal I Rezwan Jari Lahti Jenny van Dongen Sabine A S Langie Tom G Richardson Maria C Magnus Ellen A Nohr Zongli Xu Liesbeth Duijts Shanshan Zhao Weiming Zhang Michelle Plusquin Dawn L DeMeo Olivia Solomon Joosje H Heimovaara Dereje D Jima Lu Gao Mariona Bustamante Patrice Perron Robert O Wright Irva Hertz-Picciotto Hongmei Zhang Margaret R Karagas Ulrike Gehring Carmen J Marsit Lawrence J Beilin Judith M Vonk Marjo-Riitta Jarvelin Anna Bergström Anne K Örtqvist Susan Ewart Pia M Villa Sophie E Moore Gonneke Willemsen Arnout R L Standaert Siri E Håberg Thorkild I A Sørensen Jack A Taylor Katri Räikkönen Ivana V Yang Katerina Kechris Tim S Nawrot Matt J Silver Yun Yun Gong Lorenzo Richiardi Manolis Kogevinas Augusto A Litonjua Brenda Eskenazi Karen Huen Hamdi Mbarek Rachel L Maguire Terence Dwyer Martine Vrijheid Luigi Bouchard Andrea A Baccarelli Lisa A Croen Wilfried Karmaus Denise Anderson Maaike de Vries Sylvain Sebert Juha Kere Robert Karlsson Syed Hasan Arshad Esa Hämäläinen Michael N Routledge Dorret I Boomsma Andrew P Feinberg Craig J Newschaffer Eva Govarts Matthieu Moisse M Daniele Fallin Erik Melén Andrew M Prentice Eero Kajantie Catarina Almqvist Emily Oken Dana Dabelea H Marike Boezen Phillip E Melton Rosalind J Wright Gerard H Koppelman Letizia Trevisi Marie-France Hivert Jordi Sunyer Monica C Munthe-Kaas Susan K Murphy Eva Corpeleijn Joseph Wiemels Nina Holland Zdenko Herceg Elisabeth B Binder George Davey Smith Vincent W V Jaddoe Rolv T Lie Wenche Nystad Stephanie J London Debbie A Lawlor Caroline L Relton Harold Snieder Janine F Felix

Nat Commun 2019 04 23;10(1):1893. Epub 2019 Apr 23.

The Generation R Study Group, Erasmus MC, University Medical Center Rotterdam, Rotterdam, The Netherlands.

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http://dx.doi.org/10.1038/s41467-019-09671-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6478731PMC
April 2019

Pre-analytic Considerations for Mass Spectrometry-Based Untargeted Metabolomics Data.

Methods Mol Biol 2019 ;1978:323-340

Department of Biostatistics and Informatics, Colorado School of Public Health, University of Colorado Anschutz Medical Campus, Aurora, CO, USA.

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http://link.springer.com/10.1007/978-1-4939-9236-2_20
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http://dx.doi.org/10.1007/978-1-4939-9236-2_20DOI Listing
January 2019

Metabolomics and transcriptomics pathway approach reveals outcome-specific perturbations in COPD.

Sci Rep 2018 11 20;8(1):17132. Epub 2018 Nov 20.

Department of Pharmaceutical Sciences, University of Colorado Anschutz Medical Campus, Aurora, CO, 80045, United States of America.

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http://dx.doi.org/10.1038/s41598-018-35372-wDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6244246PMC
November 2018

Condition-adaptive fused graphical lasso (CFGL): An adaptive procedure for inferring condition-specific gene co-expression network.

PLoS Comput Biol 2018 09 21;14(9):e1006436. Epub 2018 Sep 21.

Department of Statistics, Pennsylvania State University, State College, Pennsylvania, United States of America.

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http://dx.doi.org/10.1371/journal.pcbi.1006436DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6173447PMC
September 2018

Predictive modeling of miRNA-mediated predisposition to alcohol-related phenotypes in mouse.

BMC Genomics 2018 Aug 29;19(1):639. Epub 2018 Aug 29.

Department of Pharmaceutical Sciences, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of Colorado Anschutz Medical Campus, Aurora, 80045, CO, USA.

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https://bmcgenomics.biomedcentral.com/articles/10.1186/s1286
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http://dx.doi.org/10.1186/s12864-018-5004-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6114181PMC
August 2018

miR-MaGiC improves quantification accuracy for small RNA-seq.

BMC Res Notes 2018 May 15;11(1):296. Epub 2018 May 15.

Department of Biostatistics and Informatics, Colorado School of Public Health, Aurora, CO, 80045, USA.

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http://dx.doi.org/10.1186/s13104-018-3418-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5952827PMC
May 2018

Cohort Profile: Pregnancy And Childhood Epigenetics (PACE) Consortium.

Authors:
Janine F Felix Bonnie R Joubert Andrea A Baccarelli Gemma C Sharp Catarina Almqvist Isabella Annesi-Maesano Hasan Arshad Nour Baïz Marian J Bakermans-Kranenburg Kelly M Bakulski Elisabeth B Binder Luigi Bouchard Carrie V Breton Bert Brunekreef Kelly J Brunst Esteban G Burchard Mariona Bustamante Leda Chatzi Monica Cheng Munthe-Kaas Eva Corpeleijn Darina Czamara Dana Dabelea George Davey Smith Patrick De Boever Liesbeth Duijts Terence Dwyer Celeste Eng Brenda Eskenazi Todd M Everson Fahimeh Falahi M Daniele Fallin Sara Farchi Mariana F Fernandez Lu Gao Tom R Gaunt Akram Ghantous Matthew W Gillman Semira Gonseth Veit Grote Olena Gruzieva Siri E Håberg Zdenko Herceg Marie-France Hivert Nina Holland John W Holloway Cathrine Hoyo Donglei Hu Rae-Chi Huang Karen Huen Marjo-Riitta Järvelin Dereje D Jima Allan C Just Margaret R Karagas Robert Karlsson Wilfried Karmaus Katerina J Kechris Juha Kere Manolis Kogevinas Berthold Koletzko Gerard H Koppelman Leanne K Küpers Christine Ladd-Acosta Jari Lahti Nathalie Lambrechts Sabine A S Langie Rolv T Lie Andrew H Liu Maria C Magnus Per Magnus Rachel L Maguire Carmen J Marsit Wendy McArdle Erik Melén Phillip Melton Susan K Murphy Tim S Nawrot Lorenza Nisticò Ellen A Nohr Björn Nordlund Wenche Nystad Sam S Oh Emily Oken Christian M Page Patrice Perron Göran Pershagen Costanza Pizzi Michelle Plusquin Katri Raikkonen Sarah E Reese Eva Reischl Lorenzo Richiardi Susan Ring Ritu P Roy Peter Rzehak Greet Schoeters David A Schwartz Sylvain Sebert Harold Snieder Thorkild I A Sørensen Anne P Starling Jordi Sunyer Jack A Taylor Henning Tiemeier Vilhelmina Ullemar Marina Vafeiadi Marinus H Van Ijzendoorn Judith M Vonk Annette Vriens Martine Vrijheid Pei Wang Joseph L Wiemels Allen J Wilcox Rosalind J Wright Cheng-Jian Xu Zongli Xu Ivana V Yang Paul Yousefi Hongmei Zhang Weiming Zhang Shanshan Zhao Golareh Agha Caroline L Relton Vincent W V Jaddoe Stephanie J London

Int J Epidemiol 2018 02;47(1):22-23u

National Institute of Environmental Health Sciences, National Institutes of Health, Department of Health and Human Services, Research Triangle Park, USA.

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http://dx.doi.org/10.1093/ije/dyx190DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5837319PMC
February 2018

The value of blood cytokines and chemokines in assessing COPD.

Respir Res 2017 10 24;18(1):180. Epub 2017 Oct 24.

Division of Pulmonary, Critical Care, and Sleep Medicine, Department of Medicine, National Jewish Health, 1400 Jackson St., K715, Denver, CO, 80206, USA.

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http://dx.doi.org/10.1186/s12931-017-0662-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5655820PMC
October 2017

Gene and metabolite time-course response to cigarette smoking in mouse lung and plasma.

PLoS One 2017 2;12(6):e0178281. Epub 2017 Jun 2.

Department of Biostatistics & Informatics, Colorado School of Public Health, University of Colorado Anschutz Medical Campus, Aurora, Colorado, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0178281PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5456044PMC
September 2017

Metabolomic similarities between bronchoalveolar lavage fluid and plasma in humans and mice.

Sci Rep 2017 07 11;7(1):5108. Epub 2017 Jul 11.

Department of Pharmaceutical Sciences, University of Colorado Anschutz Medical Campus, Aurora, CO, 80045, USA.

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http://dx.doi.org/10.1038/s41598-017-05374-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5505974PMC
July 2017

Multiple biomarkers predict disease severity, progression and mortality in COPD.

Respir Res 2017 06 13;18(1):117. Epub 2017 Jun 13.

Division of Pulmonary, Critical Care, and Sleep Medicine, Department of Medicine, National Jewish Health, 1400 Jackson St., Denver, CO, 80206, USA.

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http://dx.doi.org/10.1186/s12931-017-0597-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5470282PMC
June 2017

Model based heritability scores for high-throughput sequencing data.

BMC Bioinformatics 2017 Mar 2;18(1):143. Epub 2017 Mar 2.

Department of Biostatistics and Informatics, University of Colorado School of Public Health, Aurora, CO 80045, USA.

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http://dx.doi.org/10.1186/s12859-017-1539-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5333443PMC
March 2017

Differential correlation for sequencing data.

BMC Res Notes 2017 Jan 19;10(1):54. Epub 2017 Jan 19.

Department of Biostatistics and Informatics, Colorado School of Public Health, University of Colorado Anschutz Medical Campus, Aurora, CO, USA.

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http://dx.doi.org/10.1186/s13104-016-2331-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5244536PMC
January 2017

Uncovering the liver's role in immunity through RNA co-expression networks.

Mamm Genome 2016 10 11;27(9-10):469-84. Epub 2016 Jul 11.

Department of Pharmaceutical Sciences, University of Colorado Skaggs School of Pharmacy and Pharmaceutical Sciences, Aurora, CO, 80045, USA.

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http://dx.doi.org/10.1007/s00335-016-9656-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5002042PMC
October 2016

Post-GWAS Prioritization Through Data Integration Provides Novel Insights on Chronic Obstructive Pulmonary Disease.

Stat Biosci 2016 13;2016:1-17. Epub 2016 Jun 13.

Department of Biostatistics, Yale School of Public Health, New Haven, CT, USA; Program of Computational Biology and Bioinformatics, Yale University, New Haven, CT, USA; VA Cooperative Studies Program Coordinating Center, West Haven, CT, USA.

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http://dx.doi.org/10.1007/s12561-016-9151-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5087812PMC
June 2016

The multiMiR R package and database: integration of microRNA-target interactions along with their disease and drug associations.

Nucleic Acids Res 2014 24;42(17):e133. Epub 2014 Jul 24.

Department of Surgery, School of Medicine, University of Colorado Denver, Aurora, CO 80045, USA Department of Pharmacology, School of Medicine, University of Colorado Denver, Aurora, CO 80045, USA University of Colorado Comprehensive Cancer Center, Aurora, CO 80045, USA

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http://dx.doi.org/10.1093/nar/gku631DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4176155PMC
February 2015

Genetic analysis of a murine QTL for diet restriction on chromosome 15.

Age (Dordr) 2015 Feb 5;37(1):9740. Epub 2015 Feb 5.

Institute for Behavioral Genetics, University of Colorado, 1480 30th St., Boulder, CO, 80303, USA,

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http://dx.doi.org/10.1007/s11357-014-9740-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4317404PMC
February 2015

Multiple amino acid sequence alignment nitrogenase component 1: insights into phylogenetics and structure-function relationships.

PLoS One 2013 3;8(9):e72751. Epub 2013 Sep 3.

Department of Biochemistry, Molecular Biology, and Biophysics, University of Minnesota, Minneapolis, Minnesota, United States of America ; Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0072751PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3760896PMC
May 2014

MSPrep--summarization, normalization and diagnostics for processing of mass spectrometry-based metabolomic data.

Bioinformatics 2014 Jan 29;30(1):133-4. Epub 2013 Oct 29.

Department of Biostatistics and Informatics, University of Colorado School of Public Health, Aurora, CO, Department of Immunology, National Jewish Health Center, Denver, CO, Department of Medicine, Indiana University School of Medicine, Indianapolis, IN and Department of Pulmonary Medicine, National Jewish Health Center, Denver, CO, USA.

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http://dx.doi.org/10.1093/bioinformatics/btt589DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3866554PMC
January 2014

Hands-on workshops as an effective means of learning advanced technologies including genomics, proteomics and bioinformatics.

Genomics Proteomics Bioinformatics 2013 Dec 6;11(6):368-77. Epub 2013 Dec 6.

Department of Medicine, Division of Pulmonary Sciences and Critical Care Medicine, University of Colorado School of Medicine, Aurora, CO 80045, USA.

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http://dx.doi.org/10.1016/j.gpb.2013.10.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4049090PMC
December 2013

Biphasic pro-melanogenic and pro-apoptotic effects of all-trans-retinoic acid (ATRA) on human melanocytes: time-course study.

J Dermatol Sci 2013 Nov 21;72(2):168-76. Epub 2013 Jun 21.

Department of Physiology, University of Medicine and Pharmacy "Iuliu Hatieganu", Cluj-Napoca, Romania.

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http://dx.doi.org/10.1016/j.jdermsci.2013.06.004DOI Listing
November 2013

Modeling considerations for using expression data from multiple species.

Stat Med 2013 Oct 23;32(23):4057-70. Epub 2013 May 23.

Department of Biostatistics and Informatics, Colorado School of Public Health, University of Colorado Denver, Denver, Colorado, USA.

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http://dx.doi.org/10.1002/sim.5850DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4964853PMC
October 2013

A graphical model method for integrating multiple sources of genome-scale data.

Stat Appl Genet Mol Biol 2013 Aug;12(4):469-87

Computational Bioscience Program, University of Colorado School of Medicine, 12801 E. 17th Ave., Aurora, CO 80045–0511, USA.

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http://dx.doi.org/10.1515/sagmb-2012-0051DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4867227PMC
August 2013

Exposure to Maternal Diabetes in Utero and DNA Methylation Patterns in the Offspring.

Immunometabolism 2013 Mar;1:1-9

Department of Epidemiology, University of Colorado Anschutz Medical Campus, Aurora, Colorado, USA.

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http://dx.doi.org/10.2478/immun-2013-0001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3670583PMC
March 2013

Comb-p: software for combining, analyzing, grouping and correcting spatially correlated P-values.

Bioinformatics 2012 Nov 5;28(22):2986-8. Epub 2012 Sep 5.

Department of Medicine, University of Colorado, Denver, Anschutz Medical Campus, Aurora, CO 80045, USA.

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http://dx.doi.org/10.1093/bioinformatics/bts545DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3496335PMC
November 2012

Gene expression changes in C57BL/6J and DBA/2J mice following prenatal alcohol exposure.

Alcohol Clin Exp Res 2012 Sep 24;36(9):1519-29. Epub 2012 Apr 24.

Department of Biomedical and Pharmaceutical Sciences, College of Pharmacy, Idaho State University, Pocatello, USA.

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http://dx.doi.org/10.1111/j.1530-0277.2012.01757.xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3407322PMC
September 2012

Bayesian analysis of high-throughput quantitative measurement of protein-DNA interactions.

PLoS One 2011 1;6(11):e26105. Epub 2011 Nov 1.

Department of Biochemistry and Molecular Genetics, University of Colorado School of Medicine, Aurora, Colorado, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0026105PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3206046PMC
March 2012

Genetical genomic analysis of complex phenotypes using the PhenoGen website.

Behav Genet 2011 Jul 24;41(4):625-8. Epub 2010 Dec 24.

Department of Pharmacology, University of Colorado Denver School of Medicine, Aurora, CO 80045-0511, USA.

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http://dx.doi.org/10.1007/s10519-010-9427-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3121939PMC
July 2011

A systems genetic analysis of alcohol drinking by mice, rats and men: influence of brain GABAergic transmission.

Neuropharmacology 2011 Jun 23;60(7-8):1269-80. Epub 2010 Dec 23.

Department of Pharmacology, University of Colorado Denver School of Medicine, PO Box 6511, Mail Stop 8303, Aurora, CO 80045, USA.

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http://dx.doi.org/10.1016/j.neuropharm.2010.12.019DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3079014PMC
June 2011

Generalizing moving averages for tiling arrays using combined p-value statistics.

Stat Appl Genet Mol Biol 2010 6;9:Article29. Epub 2010 Aug 6.

University of Colorado Denver, CO, USA.

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http://dx.doi.org/10.2202/1544-6115.1434DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2942027PMC
December 2010

Hedgehog targets in the Drosophila embryo and the mechanisms that generate tissue-specific outputs of Hedgehog signaling.

Development 2010 Nov;137(22):3887-98

Cardiovascular Research Institute and Department of Biochemistry and Biophysics, University of California, San Francisco, CA 94143-2711, USA.

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http://dev.biologists.org/cgi/doi/10.1242/dev.055871
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http://dx.doi.org/10.1242/dev.055871DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3049281PMC
November 2010

Prediction of motifs based on a repeated-measures model for integrating cross-species sequence and expression data.

Stat Appl Genet Mol Biol 2009 9;8:Article 36. Epub 2009 Sep 9.

University of Colorado, Denver, USA.

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http://dx.doi.org/10.2202/1544-6115.1464DOI Listing
November 2009

Conserved amino acid sequence features in the alpha subunits of MoFe, VFe, and FeFe nitrogenases.

PLoS One 2009 Jul 3;4(7):e6136. Epub 2009 Jul 3.

Department of Molecular and Cell Biology, University of California, Berkeley, CA, USA.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0006136PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2700964PMC
July 2009

Prediction of alternatively skipped exons and splicing enhancers from exon junction arrays.

BMC Genomics 2008 Nov 20;9:551. Epub 2008 Nov 20.

Department of Biostatistics and Informatics, Colorado School of Public Health, University of Colorado Denver, 4200 East 9th Avenue, B-119, Denver, CO 80262, USA.

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http://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2
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http://dx.doi.org/10.1186/1471-2164-9-551DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2631580PMC
November 2008

c-REDUCE: incorporating sequence conservation to detect motifs that correlate with expression.

BMC Bioinformatics 2008 Nov 28;9:506. Epub 2008 Nov 28.

Department of Biostatistics and Informatics, Colorado School of Public Health, University of Colorado Denver, 4200 East Ninth Avenue, B-119, Denver, CO 80262, USA.

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http://dx.doi.org/10.1186/1471-2105-9-506DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2626603PMC
November 2008