Terry A Braun

Terry A Braun

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Terry A Braun

Terry A Braun

Publications by authors named "Terry A Braun"

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Structural Insights into Hearing Loss Genetics from Polarizable Protein Repacking.

Biophys J 2019 Aug 3;117(3):602-612. Epub 2019 Jul 3.

Department of Biomedical Engineering, University of Iowa, Iowa City, Iowa; Department of Biochemistry, University of Iowa, Iowa City, Iowa. Electronic address:

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http://dx.doi.org/10.1016/j.bpj.2019.06.030DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6697528PMC
August 2019

Machine learning with the TCGA-HNSC dataset: improving usability by addressing inconsistency, sparsity, and high-dimensionality.

BMC Bioinformatics 2019 Jun 17;20(1):339. Epub 2019 Jun 17.

Department of Electrical and Computer Engineering, Center for Bioinformatics and Computational Biology, University of Iowa, 5017 Seamans Center, Iowa City, IA, 52242, USA.

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http://dx.doi.org/10.1186/s12859-019-2929-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6580485PMC
June 2019

Changes in gene expression in small bowel neuroendocrine tumors associated with progression to metastases.

Surgery 2018 01 16;163(1):232-239. Epub 2017 Nov 16.

Department of Surgery, University of Iowa Carver College of Medicine, Iowa City, IA. Electronic address:

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http://dx.doi.org/10.1016/j.surg.2017.07.031DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5736454PMC
January 2018

Clinically Focused Molecular Investigation of 1000 Consecutive Families with Inherited Retinal Disease.

Ophthalmology 2017 09 27;124(9):1314-1331. Epub 2017 May 27.

Department of Ophthalmology and Visual Sciences, University of Iowa Carver College of Medicine, Iowa City, Iowa; Stephen A. Wynn Institute for Vision Research, the University of Iowa, Iowa City, Iowa.

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http://dx.doi.org/10.1016/j.ophtha.2017.04.008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5565704PMC
September 2017

A Comparison of Gene Expression Profiles between Glucocorticoid Responder and Non-Responder Bovine Trabecular Meshwork Cells Using RNA Sequencing.

PLoS One 2017 9;12(1):e0169671. Epub 2017 Jan 9.

North Texas Eye Research Institute, University of North Texas Health Science Center, 3500 Camp Bowie Blvd. Fort Worth, TX, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0169671PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5222504PMC
August 2017

A Comparison of Gene Expression Profiles between Glucocorticoid Responder and Non-Responder Bovine Trabecular Meshwork Cells Using RNA Sequencing.

PLoS One 2017 9;12(1):e0169671. Epub 2017 Jan 9.

North Texas Eye Research Institute, University of North Texas Health Science Center, 3500 Camp Bowie Blvd. Fort Worth, TX, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0169671PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5222504PMC
August 2017

Audioprofile Surfaces: The 21st Century Audiogram.

Ann Otol Rhinol Laryngol 2016 May 3;125(5):361-8. Epub 2015 Nov 3.

Department of Electrical and Computer Engineering, University of Iowa, Iowa City, Iowa, USA Center for Bioinformatics and Computational Biology, University of Iowa, Iowa City, Iowa, USA Department of Ophthalmology and Visual Sciences, University of Iowa, Iowa City, Iowa, USA.

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http://dx.doi.org/10.1177/0003489415614863DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4821702PMC
May 2016

Esophageal cancer in a family with hamartomatous tumors and germline PTEN frameshift and SMAD7 missense mutations.

Cancer Genet 2015 Jan-Feb;208(1-2):41-6. Epub 2014 Nov 15.

Department of General Surgery, University of Iowa Carver College of Medicine, Iowa City, IA, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cancergen.2014.11.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4355394PMC
May 2015

Cordova: web-based management of genetic variation data.

Bioinformatics 2014 Dec 14;30(23):3438-9. Epub 2014 Aug 14.

Department of Biomedical Engineering, Department of Ophthalmology and Visual Sciences, Department of Electrical and Computer Engineering, Department of Otolaryngology-Head & Neck Surgery, Carver College of Medicine, Department of Molecular Physiology & Biophysics, Carver College of Medicine, Interdisciplinary Graduate Program in Genetics and Iowa Institute for Human Genetics, Carver College of Medicine, The University of Iowa, Iowa City, IA 52242, USA.

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http://bioinformatics.oxfordjournals.org/content/early/2014/
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http://bioinformatics.oxfordjournals.org/cgi/doi/10.1093/bio
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http://dx.doi.org/10.1093/bioinformatics/btu539DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4296146PMC
December 2014

Transcriptomic analysis across nasal, temporal, and macular regions of human neural retina and RPE/choroid by RNA-Seq.

Exp Eye Res 2014 Dec 5;129:93-106. Epub 2014 Nov 5.

Stephen A. Wynn Institute for Vision Research, The University of Iowa, Iowa City, IA, USA; Department of Ophthalmology and Visual Sciences, Carver College of Medicine, The University of Iowa, Iowa City, IA, USA; Department of Biomedical Engineering, College of Engineering, The University of Iowa, Iowa City, IA, USA. Electronic address:

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http://dx.doi.org/10.1016/j.exer.2014.11.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4259842PMC
December 2014

Utilizing ethnic-specific differences in minor allele frequency to recategorize reported pathogenic deafness variants.

Am J Hum Genet 2014 Oct 25;95(4):445-53. Epub 2014 Sep 25.

Molecular Otolaryngology & Renal Research Labs, Department of Otolaryngology-Head and Neck Surgery, University of Iowa Carver College of Medicine, Iowa City, IA 52242, USA; Interdepartmental PhD Program in Genetics, University of Iowa, Iowa City, IA 52242, USA; Department of Molecular Physiology & Biophysics, University of Iowa Carver College of Medicine, Iowa City, IA 52242, USA. Electronic address:

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http://dx.doi.org/10.1016/j.ajhg.2014.09.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4185121PMC
October 2014

Altered gene expression in dry age-related macular degeneration suggests early loss of choroidal endothelial cells.

Mol Vis 2013 16;19:2274-97. Epub 2013 Nov 16.

Department of Ophthalmology and Visual Sciences, The University of Iowa, Iowa City, IA ; Stephen A. Wynn Institute for Vision Research, The University of Iowa, Iowa City, IA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3834599PMC
March 2014

An international effort towards developing standards for best practices in analysis, interpretation and reporting of clinical genome sequencing results in the CLARITY Challenge.

Authors:
Catherine A Brownstein Alan H Beggs Nils Homer Barry Merriman Timothy W Yu Katherine C Flannery Elizabeth T DeChene Meghan C Towne Sarah K Savage Emily N Price Ingrid A Holm Lovelace J Luquette Elaine Lyon Joseph Majzoub Peter Neupert David McCallie Peter Szolovits Huntington F Willard Nancy J Mendelsohn Renee Temme Richard S Finkel Sabrina W Yum Livija Medne Shamil R Sunyaev Ivan Adzhubey Christopher A Cassa Paul I W de Bakker Hatice Duzkale Piotr Dworzyński William Fairbrother Laurent Francioli Birgit H Funke Monica A Giovanni Robert E Handsaker Kasper Lage Matthew S Lebo Monkol Lek Ignaty Leshchiner Daniel G MacArthur Heather M McLaughlin Michael F Murray Tune H Pers Paz P Polak Soumya Raychaudhuri Heidi L Rehm Rachel Soemedi Nathan O Stitziel Sara Vestecka Jochen Supper Claudia Gugenmus Bernward Klocke Alexander Hahn Max Schubach Mortiz Menzel Saskia Biskup Peter Freisinger Mario Deng Martin Braun Sven Perner Richard J H Smith Janeen L Andorf Jian Huang Kelli Ryckman Val C Sheffield Edwin M Stone Thomas Bair E Ann Black-Ziegelbein Terry A Braun Benjamin Darbro Adam P DeLuca Diana L Kolbe Todd E Scheetz Aiden E Shearer Rama Sompallae Kai Wang Alexander G Bassuk Erik Edens Katherine Mathews Steven A Moore Oleg A Shchelochkov Pamela Trapane Aaron Bossler Colleen A Campbell Jonathan W Heusel Anne Kwitek Tara Maga Karin Panzer Thomas Wassink Douglas Van Daele Hela Azaiez Kevin Booth Nic Meyer Michael M Segal Marc S Williams Gerard Tromp Peter White Donald Corsmeier Sara Fitzgerald-Butt Gail Herman Devon Lamb-Thrush Kim L McBride David Newsom Christopher R Pierson Alexander T Rakowsky Aleš Maver Luca Lovrečić Anja Palandačić Borut Peterlin Ali Torkamani Anna Wedell Mikael Huss Andrey Alexeyenko Jessica M Lindvall Måns Magnusson Daniel Nilsson Henrik Stranneheim Fulya Taylan Christian Gilissen Alexander Hoischen Bregje van Bon Helger Yntema Marcel Nelen Weidong Zhang Jason Sager Lu Zhang Kathryn Blair Deniz Kural Michael Cariaso Greg G Lennon Asif Javed Saloni Agrawal Pauline C Ng Komal S Sandhu Shuba Krishna Vamsi Veeramachaneni Ofer Isakov Eran Halperin Eitan Friedman Noam Shomron Gustavo Glusman Jared C Roach Juan Caballero Hannah C Cox Denise Mauldin Seth A Ament Lee Rowen Daniel R Richards F Anthony San Lucas Manuel L Gonzalez-Garay C Thomas Caskey Yu Bai Ying Huang Fang Fang Yan Zhang Zhengyuan Wang Jorge Barrera Juan M Garcia-Lobo Domingo González-Lamuño Javier Llorca Maria C Rodriguez Ignacio Varela Martin G Reese Francisco M De La Vega Edward Kiruluta Michele Cargill Reece K Hart Jon M Sorenson Gholson J Lyon David A Stevenson Bruce E Bray Barry M Moore Karen Eilbeck Mark Yandell Hongyu Zhao Lin Hou Xiaowei Chen Xiting Yan Mengjie Chen Cong Li Can Yang Murat Gunel Peining Li Yong Kong Austin C Alexander Zayed I Albertyn Kym M Boycott Dennis E Bulman Paul M K Gordon A Micheil Innes Bartha M Knoppers Jacek Majewski Christian R Marshall Jillian S Parboosingh Sarah L Sawyer Mark E Samuels Jeremy Schwartzentruber Isaac S Kohane David M Margulies

Genome Biol 2014 Mar 25;15(3):R53. Epub 2014 Mar 25.

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http://dx.doi.org/10.1186/gb-2014-15-3-r53DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4073084PMC
March 2014

Patient-specific iPSC-derived photoreceptor precursor cells as a means to investigate retinitis pigmentosa.

Elife 2013 Aug 27;2:e00824. Epub 2013 Aug 27.

Department of Ophthalmology and Visual Sciences , University of Iowa Carver College of Medicine , Iowa City , United States.

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http://dx.doi.org/10.7554/eLife.00824DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3755341PMC
August 2013

Prioritization of retinal disease genes: an integrative approach.

Hum Mutat 2013 Jun 12;34(6):853-9. Epub 2013 Apr 12.

Department of Biomedical Engineering, University of Iowa, Iowa City, Iowa 52242, USA.

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http://dx.doi.org/10.1002/humu.22317DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4509594PMC
June 2013

Progressive morphological changes and impaired retinal function associated with temporal regulation of gene expression after retinal ischemia/reperfusion injury in mice.

Mol Neurodegener 2013 Jun 22;8:21. Epub 2013 Jun 22.

The North Texas Eye Research Institute, University of North Texas Health Science Center, Fort Worth, TX 76107, USA.

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http://dx.doi.org/10.1186/1750-1326-8-21DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3695831PMC
June 2013

Informatics methods to enable sharing of quantitative imaging research data.

Magn Reson Imaging 2012 Nov 6;30(9):1249-56. Epub 2012 Jul 6.

Department of Biomedical Informatics and Medicine, Division of Hematology and Oncology, Vanderbilt University School of Medicine, Nashville, TN 37232-6838, USA.

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http://dx.doi.org/10.1016/j.mri.2012.04.007DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3466343PMC
November 2012

Using the phenome and genome to improve genetic diagnosis for deafness.

Otolaryngol Head Neck Surg 2012 Nov 11;147(5):975-7. Epub 2012 Jul 11.

Department of Otolaryngology-Head and Neck Surgery, University of Iowa Hospitals and Clinics, Iowa City, IA, USA.

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http://dx.doi.org/10.1177/0194599812454271DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3694170PMC
November 2012

Multi-granularity Parallel Computing in a Genome-Scale Molecular Evolution Application.

J Supercomput 2009 Jan;5698:49-59

Coordinated Laboratory for Computational Genomics, University of Iowa, Iowa City, IA 52242 USA.

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http://dx.doi.org/10.1007/978-3-642-03275-2_6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3155254PMC
January 2009

Regulation of gene expression in the mammalian eye and its relevance to eye disease.

Proc Natl Acad Sci U S A 2006 Sep 18;103(39):14429-34. Epub 2006 Sep 18.

Departments of Ophthalmology and Biomedical Engineering, Howard Hughes Medical Institute, University of Iowa, Iowa City, IA 52242, USA.

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http://dx.doi.org/10.1073/pnas.0602562103DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1636701PMC
September 2006

Genome-wide identification of pseudogenes capable of disease-causing gene conversion.

Hum Mutat 2006 Jun;27(6):545-52

Coordinated Laboratory for Computational Genomics, The University of Iowa, Iowa City, Iowa 52240, USA.

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http://dx.doi.org/10.1002/humu.20335DOI Listing
June 2006

Protein expression in a transformed trabecular meshwork cell line: proteome analysis.

Mol Vis 2006 Apr 18;12:372-83. Epub 2006 Apr 18.

Alcon Research, Ltd., Fort Worth, TX 76134, USA.

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April 2006

Prioritizing regions of candidate genes for efficient mutation screening.

Hum Mutat 2006 Feb;27(2):195-200

Department of Biomedical Engineering, University of Iowa, Iowa City, IA 52242, USA.

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http://doi.wiley.com/10.1002/humu.20247
Publisher Site
http://dx.doi.org/10.1002/humu.20247DOI Listing
February 2006

Genetic characterization of commonly used glioma cell lines in the rat animal model system.

Neurosurg Focus 2005 Oct 15;19(4):E1. Epub 2005 Oct 15.

Department of Neurosurgery, University of Iowa Hospitals, Iowa City, Iowa 52242, USA.

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October 2005

Missense variations in the fibulin 5 gene and age-related macular degeneration.

N Engl J Med 2004 Jul;351(4):346-53

Center for Macular Degeneration, University of Iowa, Carver College of Medicine, Iowa City 52242, USA.

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http://dx.doi.org/10.1056/NEJMoa040833DOI Listing
July 2004

ESTprep: preprocessing cDNA sequence reads.

Bioinformatics 2003 Jul;19(11):1318-24

Center for Bioinformatics and Computational Biology, The University of Iowa, Iowa City, IA 52242, USA.

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http://dx.doi.org/10.1093/bioinformatics/btg159DOI Listing
July 2003