Publications by authors named "Thomas J Hoffmann"

73Publications

Association of genetic risk for Alzheimer disease and hearing impairment.

Neurology 2020 10 2;95(16):e2225-e2234. Epub 2020 Sep 2.

From the Department of Psychiatry and Behavioral Sciences (W.D.B., K.Y.), Department of Epidemiology and Biostatistics (K.Y., S.F.A., T.J.H., M.M.G.), Department of Neurology (K.Y.), and Institute for Human Genetics (T.J.H.), University of California, San Francisco; 23andMe (T.J.F.), Mountain View; San Francisco VA Health Care System (K.Y.), CA; Department of Medicine and Public Health (S.W.), Rey Juan Carlos University, Madrid, Spain; Kaiser Permanente Northern California Division of Research (E.J.), Oakland; and Public Health Sciences (R.A.W.), Division of Epidemiology, Alzheimer's Disease Research Center, UC Davis School of Medicine, CA.

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http://dx.doi.org/10.1212/WNL.0000000000010709DOI Listing
October 2020

Meta-Analysis of 26 638 Individuals Identifies Two Genetic Loci Associated With Left Ventricular Ejection Fraction.

Circ Genom Precis Med 2020 Aug 30;13(4):e002804. Epub 2020 Jun 30.

Division of Research, Kaiser Permanente Northern California (KPNC), Oakland, CA (H.C., K.K.T., C.J., D.K.R., A.S.G., N.R., C.S.).

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http://dx.doi.org/10.1161/CIRCGEN.119.002804DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7446727PMC
August 2020

Association of Genetic Variants With Primary Open-Angle Glaucoma Among Individuals With African Ancestry.

Authors:
Michael A Hauser R Rand Allingham Tin Aung Carly J Van Der Heide Kent D Taylor Jerome I Rotter Shih-Hsiu J Wang Pieter W M Bonnemaijer Susan E Williams Sadiq M Abdullahi Khaled K Abu-Amero Michael G Anderson Stephen Akafo Mahmoud B Alhassan Ifeoma Asimadu Radha Ayyagari Saydou Bakayoko Prisca Biangoup Nyamsi Donald W Bowden William C Bromley Donald L Budenz Trevor R Carmichael Pratap Challa Yii-Der Ida Chen Chimdi M Chuka-Okosa Jessica N Cooke Bailey Vital Paulino Costa Dianne A Cruz Harvey DuBiner John F Ervin Robert M Feldman Miles Flamme-Wiese Douglas E Gaasterland Sarah J Garnai Christopher A Girkin Nouhoum Guirou Xiuqing Guo Jonathan L Haines Christopher J Hammond Leon Herndon Thomas J Hoffmann Christine M Hulette Abba Hydara Robert P Igo Eric Jorgenson Joyce Kabwe Ngoy Janvier Kilangalanga Nkiru Kizor-Akaraiwe Rachel W Kuchtey Hasnaa Lamari Zheng Li Jeffrey M Liebmann Yutao Liu Ruth J F Loos Monica B Melo Sayoko E Moroi Joseph M Msosa Robert F Mullins Girish Nadkarni Abdoulaye Napo Maggie C Y Ng Hugo Freire Nunes Ebenezer Obeng-Nyarkoh Anthony Okeke Suhanya Okeke Olusegun Olaniyi Olusola Olawoye Mariana Borges Oliveira Louise R Pasquale Rodolfo A Perez-Grossmann Margaret A Pericak-Vance Xue Qin Michele Ramsay Serge Resnikoff Julia E Richards Rui Barroso Schimiti Kar Seng Sim William E Sponsel Paulo Vinicius Svidnicki Alberta A H J Thiadens Nkechinyere J Uche Cornelia M van Duijn José Paulo Cabral de Vasconcellos Janey L Wiggs Linda M Zangwill Neil Risch Dan Milea Adeyinka Ashaye Caroline C W Klaver Robert N Weinreb Allison E Ashley Koch John H Fingert Chiea Chuen Khor

JAMA 2019 11;322(17):1682-1691

Singapore Eye Research Institute, Singapore.

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http://dx.doi.org/10.1001/jama.2019.16161DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6865235PMC
November 2019

Association of imputed prostate cancer transcriptome with disease risk reveals novel mechanisms.

Nat Commun 2019 07 15;10(1):3107. Epub 2019 Jul 15.

Program in Biological and Medical Informatics, University of California San Francisco, San Francisco, CA, 94158, USA.

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http://dx.doi.org/10.1038/s41467-019-10808-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6629701PMC
July 2019

A genome-wide association study of prostate cancer in Latinos.

Int J Cancer 2020 04 3;146(7):1819-1826. Epub 2019 Jul 3.

Department of Preventative Medicine, Keck School of Medicine, University of Southern California, Norris Comprehensive Cancer Center, Los Angeles, CA.

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http://dx.doi.org/10.1002/ijc.32525DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7028127PMC
April 2020

Identification of Pleiotropic Cancer Susceptibility Variants from Genome-Wide Association Studies Reveals Functional Characteristics.

Cancer Epidemiol Biomarkers Prev 2018 01 17;27(1):75-85. Epub 2017 Nov 17.

Department of Epidemiology and Biostatistics, University of California San Francisco, San Francisco, California.

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http://dx.doi.org/10.1158/1055-9965.EPI-17-0516DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5760292PMC
January 2018

Genome-wide association analyses using electronic health records identify new loci influencing blood pressure variation.

Nat Genet 2017 01 14;49(1):54-64. Epub 2016 Nov 14.

Department of Epidemiology and Biostatistics, University of California at San Francisco, San Francisco, California, USA.

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http://dx.doi.org/10.1038/ng.3715DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5370207PMC
January 2017

A Large Genome-Wide Association Study of Age-Related Hearing Impairment Using Electronic Health Records.

PLoS Genet 2016 Oct 20;12(10):e1006371. Epub 2016 Oct 20.

Department of Otolaryngology-Head and Neck Surgery, Columbia University Medical Center, Columbia, United States of America.

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http://dx.doi.org/10.1371/journal.pgen.1006371DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5072625PMC
October 2016

Impact of genetic variants on the upstream efficacy of renin-angiotensin system inhibitors for the prevention of atrial fibrillation.

Am Heart J 2016 05 13;175:9-17. Epub 2016 Feb 13.

Section of Cardiac Electrophysiology, Division of Cardiology, Department of Medicine, University of California San Francisco, San Francisco, CA.

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http://dx.doi.org/10.1016/j.ahj.2016.02.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4873713PMC
May 2016

Oxytocin and vasopressin hormone genes in children's externalizing problems: A cognitive endophenotype approach.

Horm Behav 2016 06 4;82:78-86. Epub 2016 May 4.

Department of Applied Psychology and Human Development, University of Toronto, Canada. Electronic address:

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http://dx.doi.org/10.1016/j.yhbeh.2016.05.002DOI Listing
June 2016

Genome-Wide Estimates of Heritability for Social Demographic Outcomes.

Biodemography Soc Biol 2016 ;62(1):1-18

b Department of Sociology, Institute of Behavioral Science & Institute for Behavioral Genetics , University of Colorado-Boulder , Boulder , Colorado , USA.

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http://dx.doi.org/10.1080/19485565.2015.1068106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4918078PMC
January 2017

Mutational Landscape of Aggressive Prostate Tumors in African American Men.

Cancer Res 2016 04 26;76(7):1860-8. Epub 2016 Feb 26.

Department of Epidemiology and Biostatistics, University of California San Francisco, San Francisco, California. Department of Urology, University of California San Francisco, San Francisco, California. Institute for Human Genetics, University of California San Francisco, San Francisco, California. Helen Diller Family Comprehensive Cancer Center, University of California San Francisco, San Francisco, California.

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http://cancerres.aacrjournals.org/content/early/2016/02/26/0
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http://cancerres.aacrjournals.org/content/76/7/1860.full.pdf
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http://cancerres.aacrjournals.org/content/early/2016/02/26/0
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http://cancerres.aacrjournals.org/cgi/doi/10.1158/0008-5472.
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http://dx.doi.org/10.1158/0008-5472.CAN-15-1787DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4772140PMC
April 2016

Strategies for Imputing and Analyzing Rare Variants in Association Studies.

Trends Genet 2015 Oct;31(10):556-563

Department of Epidemiology and Biostatistics, University of California San Francisco, San Francisco, CA 94158, USA; Institute for Human Genetics, University of California San Francisco, San Francisco, CA, 94143 USA; Department of Urology, University of California San Francisco, San Francisco, CA 94158, USA; UCSF Helen Diller Family Comprehensive Cancer Center, University of California San Francisco, San Francisco, CA 94158, USA.

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http://www.cell.com/trends/genetics/pdf/S0168-9525(15)00145-
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http://linkinghub.elsevier.com/retrieve/pii/S016895251500145
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http://dx.doi.org/10.1016/j.tig.2015.07.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4600126PMC
October 2015

A large multiethnic genome-wide association study of prostate cancer identifies novel risk variants and substantial ethnic differences.

Cancer Discov 2015 Aug 1;5(8):878-91. Epub 2015 Jun 1.

Department of Epidemiology and Biostatistics, University of California, San Francisco, San Francisco, California. Institute for Human Genetics, University of California, San Francisco, San Francisco, California. Department of Urology, University of California, San Francisco, San Francisco, California. UCSF Helen Diller Family Comprehensive Cancer Center, University of California, San Francisco, San Francisco, California.

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http://dx.doi.org/10.1158/2159-8290.CD-15-0315DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4527942PMC
August 2015

Detecting gene-environment interactions in human birth defects: Study designs and statistical methods.

Birth Defects Res A Clin Mol Teratol 2015 Aug 23;103(8):692-702. Epub 2015 May 23.

Department of Epidemiology and Biostatistics, University of California San Francisco, San Francisco, California.

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http://doi.wiley.com/10.1002/bdra.23382
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http://dx.doi.org/10.1002/bdra.23382DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4537677PMC
August 2015

Gene-environment interaction between the oxytocin receptor (OXTR) gene and parenting behaviour on children's theory of mind.

Soc Cogn Affect Neurosci 2015 Dec 14;10(12):1749-57. Epub 2015 May 14.

Department of Applied Psychology and Human Development, University of Toronto, 252 Bloor Street West, Toronto, Ontario, Canada M5S 1V6 and

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http://dx.doi.org/10.1093/scan/nsv064DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4666114PMC
December 2015

Replication and heritability of prostate cancer risk variants: impact of population-specific factors.

Cancer Epidemiol Biomarkers Prev 2015 Jun 25;24(6):938-43. Epub 2015 Mar 25.

Department of Epidemiology and Biostatistics, University of California, San Francisco, California. Institute for Human Genetics, University of California, San Francisco, California. Department of Urology, University of California, San Francisco, California. UCSF Helen Diller Family Comprehensive Cancer Center, University of California, San Francisco, California.

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http://dx.doi.org/10.1158/1055-9965.EPI-14-1372DOI Listing
June 2015

Imputation of the rare HOXB13 G84E mutation and cancer risk in a large population-based cohort.

PLoS Genet 2015 Jan 28;11(1):e1004930. Epub 2015 Jan 28.

Department of Epidemiology and Biostatistics, University of California San Francisco, San Francisco, California, United States of America; Institute for Human Genetics, University of California San Francisco, San Francisco, California, United States of America; Department of Urology, University of California San Francisco, San Francisco, California, United States of America.

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http://dx.plos.org/10.1371/journal.pgen.1004930
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http://dx.doi.org/10.1371/journal.pgen.1004930DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4309593PMC
January 2015

Genome-wide discovery of drug-dependent human liver regulatory elements.

PLoS Genet 2014 Oct 2;10(10):e1004648. Epub 2014 Oct 2.

Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, California, United States of America; Institute for Human Genetics, University of California, San Francisco, San Francisco, California, United States of America.

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http://dx.doi.org/10.1371/journal.pgen.1004648DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4183418PMC
October 2014

Genome-wide association and admixture analysis of glaucoma in the Women's Health Initiative.

Hum Mol Genet 2014 Dec 15;23(24):6634-43. Epub 2014 Jul 15.

Department of Epidemiology and Biostatistics and Institute for Human Genetics, University of California San Francisco, San Francisco, CA 94143, USA, Division of Research, Kaiser Permanente, Oakland, CA 94612, USA.

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http://dx.doi.org/10.1093/hmg/ddu364DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4240199PMC
December 2014

Association between the arginine vasopressin receptor 1A (AVPR1A) gene and preschoolers' executive functioning.

Brain Cogn 2014 Oct 11;90:116-23. Epub 2014 Jul 11.

Department of Applied Psychology and Human Development, University of Toronto, 252 Bloor Street West, Toronto, Ontario M5S 1V6, Canada. Electronic address:

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http://dx.doi.org/10.1016/j.bandc.2014.06.002DOI Listing
October 2014

Copy number variation in bronchopulmonary dysplasia.

Am J Med Genet A 2014 Oct 26;164A(10):2672-5. Epub 2014 Jun 26.

Department of Epidemiology and Biostatistics and Institute for Human Genetics, University of California San Francisco, San Francisco, California.

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http://dx.doi.org/10.1002/ajmg.a.36659DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4167221PMC
October 2014

Familial recurrence of autism spectrum disorder: evaluating genetic and environmental contributions.

Am J Psychiatry 2014 Nov;171(11):1206-13

From the Institute for Human Genetics and the Department of Epidemiology and Biostatistics, University of California, San Francisco; the Division of Research, Kaiser Permanente, Oakland, Calif.; and the Environmental Health Investigations Branch, California Department of Public Health, Richmond.

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http://dx.doi.org/10.1176/appi.ajp.2014.13101359DOI Listing
November 2014

Evidence of reproductive stoppage in families with autism spectrum disorder: a large, population-based cohort study.

JAMA Psychiatry 2014 Aug;71(8):943-51

Institute for Human Genetics, University of California, San Francisco2Department of Epidemiology and Biostatistics, University of California, San Francisco4Division of Research, Kaiser Permanente, Oakland, California.

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http://dx.doi.org/10.1001/jamapsychiatry.2014.420DOI Listing
August 2014

Functional characterization of SIM1-associated enhancers.

Hum Mol Genet 2014 Apr 7;23(7):1700-8. Epub 2013 Nov 7.

Department of Bioengineering and Therapeutic Sciences.

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http://dx.doi.org/10.1093/hmg/ddt559DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3943516PMC
April 2014

African American race but not genome-wide ancestry is negatively associated with atrial fibrillation among postmenopausal women in the Women's Health Initiative.

Am Heart J 2013 Sep 7;166(3):566-72. Epub 2013 Aug 7.

Division of Cardiovascular Medicine, Department of Medicine, Stanford University School of Medicine, Stanford, CA. Electronic address:

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http://dx.doi.org/10.1016/j.ahj.2013.05.024DOI Listing
September 2013

Adiponectin pathway polymorphisms and risk of breast cancer in African Americans and Hispanics in the Women's Health Initiative.

Breast Cancer Res Treat 2013 Jun 30;139(2):461-8. Epub 2013 Apr 30.

Division Hematology/Oncology, Department of Medicine, Northwestern University, Chicago, IL 60611, USA.

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http://dx.doi.org/10.1007/s10549-013-2546-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3773607PMC
June 2013

The impact of improved microarray coverage and larger sample sizes on future genome-wide association studies.

Genet Epidemiol 2013 May 25;37(4):383-92. Epub 2013 Mar 25.

Department of Epidemiology and Biostatistics, University of California, San Francisco, CA 94158-9001, USA.

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http://dx.doi.org/10.1002/gepi.21724DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4291231PMC
May 2013

Estimating kinship in admixed populations.

Am J Hum Genet 2012 Jul 28;91(1):122-38. Epub 2012 Jun 28.

Department of Biostatistics, University of Washington, Seattle, 98195, USA.

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http://dx.doi.org/10.1016/j.ajhg.2012.05.024DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3397261PMC
July 2012

Low voltage vagal nerve stimulation reduces bronchoconstriction in guinea pigs through catecholamine release.

Neuromodulation 2012 Nov-Dec;15(6):527-36. Epub 2012 May 2.

ElectroCore LLC, Morris Plains, NJ, USA; and Department of Anesthesiology, Columbia University, New York, NY, USA.

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http://dx.doi.org/10.1111/j.1525-1403.2012.00454.xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3710689PMC
May 2013

Feasibility of percutaneous vagus nerve stimulation for the treatment of acute asthma exacerbations.

Acad Emerg Med 2012 Apr;19(4):421-9

Department of Emergency Medicine, Hennepin County Medical Center, Minneapolis, MN, USA.

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http://doi.wiley.com/10.1111/j.1553-2712.2012.01329.x
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http://dx.doi.org/10.1111/j.1553-2712.2012.01329.xDOI Listing
April 2012

Use of principal components to aggregate rare variants in case-control and family-based association studies in the presence of multiple covariates.

BMC Proc 2011 Nov 29;5 Suppl 9:S29. Epub 2011 Nov 29.

Department of Epidemiology and Biostatistics and Institute for Human Genetics, University of California San Francisco, 1450 Third Street, Box 3110, San Francisco, CA 94148-3110, USA.

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http://dx.doi.org/10.1186/1753-6561-5-S9-S29DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3287864PMC
November 2011

A genetic signature of spina bifida risk from pathway-informed comprehensive gene-variant analysis.

PLoS One 2011 30;6(11):e28408. Epub 2011 Nov 30.

Department of Molecular and Cellular Biology, California Institute for Quantitative Biosciences, University of California, Berkeley, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0028408PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3227667PMC
April 2012

Parallel biocomputing.

Source Code Biol Med 2011 Mar 18;6. Epub 2011 Mar 18.

Department of Epidemiology and Biostatistics and Institute for Human Genetics, University of California San Francisco, San Francisco, CA, USA.

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http://dx.doi.org/10.1186/1751-0473-6-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3068083PMC
March 2011

Combining disease models to test for gene-environment interaction in nuclear families.

Biometrics 2011 Dec 14;67(4):1260-70. Epub 2011 Mar 14.

Department of Biostatistics, Harvard School of Public Health, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1111/j.1541-0420.2011.01581.xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3120904PMC
December 2011

Polygenic modeling of genome-wide association studies: an application to prostate and breast cancer.

OMICS 2011 Jun 24;15(6):393-8. Epub 2011 Feb 24.

Institute for Human Genetics, Department of Epidemiology & Biostatistics, University of California, San Francisco, San Francisco, California, USA.

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http://dx.doi.org/10.1089/omi.2010.0090DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3125548PMC
June 2011

Comprehensive approach to analyzing rare genetic variants.

PLoS One 2010 Nov 3;5(11):e13584. Epub 2010 Nov 3.

Department of Epidemiology and Biostatistics and Institute of Human Genetics, University of California San Francisco, San Francisco, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0013584PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2972202PMC
November 2010

Parsing the effects of individual SNPs in candidate genes with family data.

Hum Hered 2010 4;69(2):91-103. Epub 2009 Dec 4.

Department of Biostatistics, Harvard School of Public Health, Boston, Mass. 02115, USA.

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http://dx.doi.org/10.1159/000264447DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2956011PMC
February 2010

Inhibition of histamine-induced bronchoconstriction in Guinea pig and Swine by pulsed electrical vagus nerve stimulation.

Neuromodulation 2009 Oct 20;12(4):261-9. Epub 2009 Aug 20.

Electrocore LLC, Morris Plains, NJ, USA; Department of Anesthesiology and Critical Care Medicine, Johns Hopkins Medical Institutions, Baltimore, MD, USA; and Department of Anesthesiology, Columbia University, New York, NY, USA.

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http://doi.wiley.com/10.1111/j.1525-1403.2009.00234.x
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http://dx.doi.org/10.1111/j.1525-1403.2009.00234.xDOI Listing
October 2009

Gene-environment interaction tests for dichotomous traits in trios and sibships.

Genet Epidemiol 2009 Dec;33(8):691-9

Department of Biostatistics, Harvard School of Public Health, Boston, Massachusetts 02115, USA.

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http://doi.wiley.com/10.1002/gepi.20421
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http://dx.doi.org/10.1002/gepi.20421DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3082448PMC
December 2009

fgui: A Method for Automatically Creating Graphical User Interfaces for Command-Line R Packages.

J Stat Softw 2009 Apr;30(2)

Department of Biostatistics, Harvard School of Public Health, Boston, MA 02115, United States of America, URL: http://www.people.fas.harvard.edu/∼tjhoffm/fgui.html.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3103229PMC
http://dx.doi.org/10.18637/jss.v030.i02DOI Listing
April 2009

Morphological and functional platelet abnormalities in Berkeley sickle cell mice.

Blood Cells Mol Dis 2008 Jul-Aug;41(1):109-18. Epub 2008 Apr 18.

The Laboratory of Blood and Vascular Biology, Rockefeller University, 1230 York Avenue, New York, NY 10065, USA.

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http://dx.doi.org/10.1016/j.bcmd.2008.01.008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2692374PMC
August 2008

How I Manage Athlete's Foot.

Phys Sportsmed 1995 Apr;23(4):29-32

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http://dx.doi.org/10.1080/00913847.1995.11947772DOI Listing
April 1995