Publications for Harry Hochheiser, PhD

2020

Grizzle AJ, Hines LE, Malone DC, Kravchenko O, Hochheiser H, Boyce RD. Testing the face validity and inter-rater agreement of a simple approach to drug-drug interaction evidence assessment. J Biomed Inform. 2020 Jan;101:103355. doi: 10.1016/j.jbi.2019.103355. Epub 2019 Dec 12. PMID: 31838211; DOI: 10.1016/j.jbi.2019.103355.

Zhou Yuan, Sean Finan, Jeremy Warner, Guergana Savova, Harry Hochheiser. Interactive Exploration of Longitudinal Cancer Patient Histories Extracted from Clinical Text. JCO Cancer Clinical Informatics  May 2020 DOI: 10.1200/CCI.19.00115 PMID: 32383981 PMCID In progress

Amie J. Barda, Christopher M. Horvat, Harry Hochheiser. A qualitative research framework for the design of user-centered display of explanations for machine learning model predictions in healthcare. BMC Informatics and Decision Making. 2020 Oct 8;20(1):257.  doi: 10.1186/s12911-020-01276-x. PMID: 33032582

Chu JH, Zang W, Vukmirovic M, Yan X, Adams T, Deluliis G, Hu B, Mihaljinec A, Schupp JC, Becich MJ, Hochheiser H, Gibson KF, Chen ES, Morris A, Leader JK, Wisniewski SR, Zhang Y, Sciurba FC, Collman RG, Sandhaus R, Herzog EL, Patterson KC, Sauler M, Strange C, Kaminski N, GRADS Investigators. Gene coexpression networks reveal novel molecular endotypes in alpha-1 antitrypsin deficiency. Thorax 2020 Dec 10;thoraxjnl-2019-214301. doi:10.1136/thoraxjnl-2019-214301. PMCID: 33303696 PMCID: In Progress

2019

Cai C, Cooper GF, Lu KN, Ma X, Xu S, Zhao Z, Chen X, Xue Y, Lee AV, Clark N, Chen V, Lu S, Chen L, Yu L, Hochheiser HS, Jiang X, Wang JQ, Lu X. Systematic discovery of the functional impact of somatic genome alterations in individual tumors through tumor-specific causal inference. PLOS Comput Biol, 2019 Jul 15(7):e1007088. doi: 10.1371/journal.pcbi.1007088. [Epub ahead of print] PMID: 31276486; PMCID: PMC6650088.

Schnetz MP, Hochheiser HS, Danks DJ, Landsittel DP, Vogt KM, Ibinson JW, Whitehurst SL, McDermott SP, Duque MG, Kaynar AM. The triple variable index combines information generated over time from common monitoring variables to identify patients expressing distinct patterns of intraoperative physiology. BMC Med Res Methodol. 2019 Jan 14;19(1):17. doi: 10.1186/s12874-019-0660-9. PMID: 30642260. PMCID: PMC6332613.

Wu DTY, Chen AT, Manning JD, Levy-Fix G, Backonja U, Borland D, Caban JJ, Dowding DW, Hochheiser H, Kagan V, Kandaswamy S, Kumar M, Nunez A, Pan E, Gotz D. Evaluating visual analytics for health informatics applications: a systematic review from the American Medical Informatics Association Visual Analytics Working Group Task Force on Evaluation. J Am Med Inform Assoc. 2019 Apr 1;26(4):314-323. doi: 10.1093/jamia/ocy90. PubMed PMID: 30840080. 

Trivedi G, Hong C, Dadashzadeh ER, Handzel RM, Hochheiser H, Visweswaran S. Identifying incidental findings from radiology reports of trauma patients: An evaluation of automated feature representation methods. International Journal of Medical Informatics. 2019 Sept 129; 81-7. DOI: 10.1016/j.ijmedinf.2019.05.021 PMID:31445293 PMCID: PMC 6717529

King A, Cooper GF, Clermont G, Hochheiser H, Hauskrecht M, Sittig DF, Visweswaran S. Using machine learning to selectively highlight patient information. Journal of Biomedical Informatics.  2019; Oct 29;100:103327. DOI: 1016/j.jbi.2019.103329. PMID: 31676461; PMCID: PMC6932869 [Available on 2020-12-01].

Warner JL, Dymshyts D, Reich CG, Gurley MJ, Hochheiser H, Moldwin ZH, Belenkaya R,  Williams AE, Yang PC. HemOnc: A New Standard Vocabulary for Chemotherapy Regimen Representation in the OMOP Common Data Model. J Biomed Inform. 2019 Jun 22. doi: 10.1016/j.jbi.2019.103239 PMID:31238109; PMCID: PMC6697579 [Available on 2020-08-01].

Trivedi G, Dadashzadh ER, Handzel RM, Chapman WW, Visweswaran S, Hochheiser H. Interactive NLP in Clinical Care: Identifying Incidental Findings in Radiology Reports. Appl Clin Inform 2019;10:4, 655–69. DOI:https://www.thieme-connect.de/products/ejournals/abstract/10.1055/s-0039-1695791 PMID: 31486057; PMCID: PMC6727024 [Available on 2020-08-01]

2018

Markham H, Hochheiser H, Kuntoro K, Notobroto HB. Exploring Midwives' Need and Intention to Adopt Electronic Integrated Antenatal Care. Perspect Health Inf Manag. 2018 Jan 1;15(Winter):1e. eCollection 2018 Winter. PMID: 29618961. PMCID: PMC5869442.

Ogoe HA, Asamani JA, Hochheiser H, Douglas GP. Assessing Ghana's eHealth Workforce: implications for planning and training. Human Resources for Health. 2018 Nov 27;16(1):65. doi: https://doi.org/10.1186/s12960-018-0330-8. PMID: 30482223. PMCID: PMC6260724.

King AJ, Cooper GF, Hochheiser H, Clermont G, Hausrecht M, Visweswaran S. Using Machine Learning to Predict the Information Seeking Behavior of Clinicians Using an Electronic Medical Record System. AMIA Annual Symp Proc. 2018 Dec 5;2018:673-682. eCollection 2018. PubMed PMID: 30815109. PMCID: PMC6371238.

2017

Romagnoli KM, Boyce RD, Empey PE, Ning Y, Adams S, Hochheiser H. Design and evaluation of a pharmacogenomics information resource for pharmacists. J Am Med Inform Assoc. 2017 Jul 1;24(4):822-831. doi: 10.1093/jamia/ocx007. PMID: 28339805.

Trivedi G, Pham P, Chapman WW, Hwa R, Wiebe J, Hochheiser H. NLPReViz: an interactive tool for natural language processing on clinical text. J Am Med Inform Assoc. 2017 Jul 22. doi: 10.1093/jamia/ocx070. [Epub ahead of print] PMID: 29016825.

King AJ, Hochheiser H, Visweswaran S, Clermont G, Cooper GF. Eye-tracking for Clinical Decision Support: A Method to Capture Automatically What Physicians Are Viewing in the EMR. AMIA Jt Summits Transl Sci Proc. 2017 Jul 26;2017:512-521. eCollection 2017. PMID: 28815151. PMCID: PMC5543363.

Savova GK, Tseytlin E, Finan S, Castine M, Miller T, Medvedeva O, Harris D, Hochheiser H, Lin C, Chavan G, Jacobson RS. DeepPhe: A Natural Language Processing System for Extracting Cancer Phenotypes from Clinical Records. Cancer Res. 2017 Nov 1;77(21):e115-e118. doi: 10.1158/0008-5472.CAN-17-0615. PMID: 29092954. PMCID: PMC5690492 [Available on 2018-11-01].

Calvitti A, Hochheiser H, Ashfaq S, Bell K, Chen Y, El Kareh R, Gabuzda MT, Liu L, Mortensen S, Pandey B, Rick S, Street RL, Weibel N, Weir C, Agha Z. Physician activity during outpatient visits and subjective workload. J. Biomed. Inf. 2017 May;69:135-149. doi: 10.1016/j.jbi.2017.03.011. Epub 2017 Mar 18. PubMed PMID: 28323144.

Romagnoli KM, Nelson SD, Hines L, Empey P, Boyce RD, Hochheiser, H. Information Needs for Making Clinical Recommendations about Potential Drug-Drug Interactions: a Synthesis of Literature Review and Interviews. BMC Med Inform Decis Mak. 2017 Feb 22;17(1):21. doi: 10.1186/s12911-017-0419-3. Review. PubMed PMID: 28228132. PubMed Central PMCID: PMC5322613.

Mungall CJ, McMurry JA, Köhler S, Balhoff JP, Borromeo C, Brush M, Carbon S, Conlin T, Dunn N, Engelstad M, Foster E, Gourdine JP, Jacobson JOB, Keith D, Laraway B, Lewis SE, NguyenXuan J, Shefchek K, Vasilevsky N, Yuan Z, Washington N, Hochheiser H, Groza T, Smedley D, Robinson PN, Haendel MA. The Monarch Initiative: An Integrative Data and Analytic Platform Connecting Phenotypes to Genotypes across Species. Nucleic Acids Res. 2017 Jan 4;45(D1):D712-D722. doi: 10.1093/nar/gkw1128. Epub 2016 Nov 29. PubMed PMID: 27899636. PubMed Central PMCID: PMC5210586.

2016

Stein CD, Xiao X, Levine S, Schleyer TK, Hochheiser H, Thyvalikakath TP. A prototype mobile application for triaging dental emergencies. J Am Dent Assoc. 2016 Oct;247(10):782-791.e1. doi: 10.1016/j.adaj.2016.03.021. Epub 2016 May 17. PMID: 27206728. PMCID: PMC50405825.

Fisher A. Ding M, Hochheiser H, Douglas G. (2016) Measuring time utilization of pharmacists in the Birmingham Free Clinic dispensary. BMC Health Services Research 16(1-7) DOI: 10.1186/s12913-016-17. PMID: 27687973. PMCID: PMC5043635.

Romagnoli KM, Boyce RD, Empey PE, Adams S, Hochheiser H. Bringing clinical pharmacogenomics information to pharmacists: A qualitative study of information needs and resource requirements. Int J Med Inform. 2016 Feb;86:54-61. doi: 10.1016/j.ijmedinf.2015.11.015. Epub 2015 Nov 30. PMID: 26725696. PMCID: PMC4720137.

Lazar J, Abascal J, Barbosa S, Barksdale J, Friedman B, Grossklags J, Gulliksen J, Johnson J, McEwan T, Martínez-Normand L, Michalk W, Tsai J, van der Veer G, von Axelson H, Walldius A, Whitney G, Winckler M, Wulf V, Churchill EF, Cranor L, Davis J, Hedge A, Hochheiser H, Hourcade JP, Lewis C, Nathan L, Paterno F, Reid B, Quesenbery W, Selker T, Wentz B. (2016), "Human–Computer Interaction and International Public Policymaking: A Framework for Understanding and Taking Future Actions", Foundations and Trends® Human–Computer Interaction: Vol. 9: No. 2, pp 69-149. http://dx.doi.org/10.1561/1100000062.

McMurry JA, Köhler S, Washington NL, Balhoff JP, Borromeo C, Brush M, Carbon S, Conlin T, Dunn N, Engelstad M, Foster E, Gourdine JP, Jacobsen JO, Keith D, Laraway B, Xuan JN, Shefchek K, Vasilevsky NA, Yuan Z, Lewis SE, Hochheiser H, Groza T, Smedley D, Robinson PN, Mungall CJ, Haendel MA. Navigating the Phenotype Frontier: The Monarch Initiative. Genetics. 2016 Aug;203(4):1491-5. PMID: 27516611 PMCID: PMC4981258.

Hochheiser H, Ning Y, Hernandez A, Horn, JR, Jacobson R, Boyce RD. Using Nonexperts for Annotating Pharmacokinetic Drug-Drug Interaction Mentions in Product Labeling: A Feasibility Study. JMIR Res Protoc. 2016 Apr 11;5(2):e40. doi: 10.2196/resprot.5028. PMID: 27066806 PMCID: PMC4844909.

Hochheiser H, Castine M, Harris D, Savova G, Jacobson RS.  An information model for computable cancer phenotypes. BMC Medical Informatics and Decision Making. Sept. 2016: 1-15. doi=10.1186/s12911-016-0358-4.

2015

Cooper GF, Bahar I, Becich MJ, Benos PV, Berg J, Espino JU, Jacobson RC, Kienholz M, Lee AV, Lu X, Scheines R, Center for Causal Discovery team. The Center for causal discovery of biomedical knowledge from Big Data. J Am Med Inform Assoc. 2015 Nov;22(6): 1132-6. doi: 10.1093/jamia/ocv059. Epub 2015 Jul 2.  PMID: 26138794. PMCID: PMC5009908.

King AJ, Cooper GF, Hochheiser H, Clermont G. Development and preliminary evaluation of a prototype of a learning electronic medical record system. AMIA Annu Symp Proc. 2015 Nov 5;2015:1967-75. eCollection 2015. PMID: 26958296 PMCID: PMC4765593.

Landis-Lewis Z, Brehaut JC, Hochheiser H, Douglas GP, Jacobson RS. (2015). Computer-supported feedback message tailoring: theory-informed adaptation of clinical audit and feedback for learning and behavior change. Implementation Science. 2015 Jan 25; 10(12). doi: 10.1186/s13012-014-0203-z.

Haendel MA, Vasilevsky N, Brush M, Hochheiser HS, Jacobsen J, Oellrich A, … Smedley D. (2015). Disease insights through cross-species phenotype comparisons. Mammalian Genome, 26(9-10), 548–555. http://doi.org/10.1007/s00335-015-9577-8  PMID: 26092691  PMCID: PMC4602072

Strange C, Senior RM, Sciurba F, O'Neal S, Morris A, Wisniewski SR, Bowler R, Hochheiser HS, Becich MJ, Zhang Y, Leader JK, Methé BA, Kaminski N, Sandhaus RA; GRADS Alpha-1 Study Group. Rationale and Design of the Genomic Research in Alpha-1 Antitrypsin Deficiency and Sarcoidosis Study. Alpha-1 Protocol.  Ann Am Thorac Soc. 2015 Oct; 12(10): 1551-60. doi: 10.1513/AnnalsATS.201503-143OC. PMID: 26153726. PMCID: PMC4627425.

Moller DR, Koth LL, Maier LA, Morris A, Drake W, Rossman M, Leader JK, Collman RG, Hamzeh N, Sweiss NJ, Zhang Y, O'Neal S, Senior RM, Becich M, Hochheiser HS, Kaminski N, Wisniewski SR, Gibson KF; GRADS Sarcoidosis Study Group. Rationale and Design of the Genomic Research in Alpha-1 Antitrypsin Deficiency and Sarcoidosis (GRADS) Study. Sarcoidosis Protocol. Ann Am Thorac Soc. 2015 Oct: 12(10): 1561-71. doi: 10.1513/AnnalsATS.201503-172OT  PMID: 26193069. PMCID: PMC4627423.

Mungall CJ, Washington NL, Nguyen-Xuan J, Condit C, Smedley D, Köhler S, Groza T, Shefchek K., Hochheiser H, Robinson PN, Lewis SE and Haendel MA. (2015), Use of Model Organism and Disease Databases to Support Matchmaking for Human Disease Gene Discovery. Human Mutation, 36: 979–984. doi:10.1002/humu.22857  PMID:  26269093

Landis-Lewis Z, Douglas GP, Hochheiser H, Kam M, Gadabu O, Bwanali M, Jacobson RS. (2015). Computer-Supported Feedback Message Tailoring for Healthcare Providers in Malawi: Proof-of-Concept. AMIA Annual Symposium Proceedings, 2015, 814–823.

2014

Borromeo CD, Schleyer TK, Becich MJ, Hochheiser H.  Finding Collaborators: Toward Interactive Discovery Tools for Research Network Systems. J Med Internet Res 2014;16(11):e244 DOI: 10.2196/jmir.3444 PMID: 25370463

Ayvaz S, Zhu Q, Hochheiser H, Brochhausen M, Horn J, Dumontier M, … Boyce RD. (2014). Drug-Drug Interaction Data Source Survey and Linking. AMIA Summits on Translational Science Proceedings, 2014, 16. PMID: 25717393 PMCID: PMC4333686

Ligons FM, Mello-Thoms C, Handler SM, Romagnoli KM, Hochheiser H. (2014). Assessing the impact of cognitive impairment on the usability of an electronic medication delivery unit in an assisted living population. International Journal of Medical Informatics, 83(11), 841–848. http://doi.org/10.1016/j.ijmedinf.2014.07.004 PMID: 25153770 PMCID: PMC4268135

2013

Lazar J, Hochheiser H. Legal Aspects of Interface Accessibility in the U.S. Communications of the ACM. 2013 Dec; 56 (12):74-80.

Handler SM, Boyce RD, Ligons FM, Perera S, Nace DA, Hochheiser H. Use and Perceived Benefits of Mobile Devices by Physicians in Preventing Adverse Drug Events in the Nursing Home. Journal of The American Medical Directors Association. 2013 Oct 2. PMID: 24094901.

Romagnoli KM, Handler SM, Ligons FM, Hochheiser H. Home-care nurses’ perceptions of unmet information needs and communication difficulties of older patients in the immediate post-hospital discharge period. BMJ quality & safety. 2013 Apr; 22 (4):324-32. PMCID: PMC3694324. PMID: 23362507.

Boyce RD, Freimuth RR, Romagnoli KM, Pummer T, Hochheiser H, Empey PE. Toward semantic modeling of pharmacogenomic knowledge for clinical and translational decision support. 2013; 28-32. PMCID: PMC3814496. PMID: 24303292.

Clayton M, Borromeo C, Hess S, Hochheiser H, Schleyer T. An initial, qualitative investigation of patient-centered education in dentistry. Studies in health technology and informatics. 2013; 183:314-8. PMID: 23388305.

Wentz B, Hochheiser H, Lazar J. 2013. A survey of blind users on the usability of email applications. Univers. Access Inf. Soc. 12, 3 (August 2013), 327-336. DOI=http://dx.doi.org/10.1007/s10209-012-0285-9

Handler SM, Boyce RD, Ligons F, Perera S, Nace DA, Hochheiser H. (2013). Use and Perceived Benefits of Mobile Devices by Physicians in Preventing Adverse Drug Events in the Nursing Home. Journal of the American Medical Directors Association, 14(12), 906–910. http://doi.org/10.1016/j.jamda.2013.08.014 PMID: 24094901 PMCID: PMC4351260

Brinkley, J. F., Borromeo, C., Clarkson, M., Cox, T. C., Cunningham, M. J., Detwiler, L. T., … Shapiro, L. G. (2013). The Ontology of Craniofacial Development and Malformation for translational craniofacial research. American Journal of Medical Genetics. Part C, Seminars in Medical Genetics, 0(4), 232–245. http://doi.org/10.1002/ajmg.c.31377 PMID: 24124010 PMCID: PMC4041627

2012

Kohle-Ersher A, Chatterjee P, Osmanbeyoglu HU, Hochheiser H, Bartos CE. Evaluating the Barriers to Point-of-Care Documentation for Nursing Staff. Comput Inform Nurs2012 Mar;30(3):126-33. doi: 10.1097/NCN.0b013e3182343f14. PubMed PMID: 22024972

2011

The FaceBase Consortium: A Comprehensive Program to Facilitate Craniofacial Research. Harry Hochheiser, Bruce J. Aronow, Kristin Artinger, Terri H.Beaty, James F. Brinkley, Yang Chai, David Clouthier, Michael L. Cunningham, Michael Dixon, Leah Rae Donahue, Scott E. Fraser, Junichi Iwata, Mary L. Marazita11, Jeffrey C. Murray, Stephen Murray, John Postlethwait, Steven Potter, Linda Shapiro, Richard Spritz, Axel Visel, Seth M. Weinberg and Paul A. Trainor*, for the FaceBase Consortium.

Osmanbeyoglu HU, Ganapathiraju MK. N-gram analysis of 970 microbial organisms reveals presence of biological language models. BMC Bioinformatics. 2011 Jan 10;12:12. doi: 10.1186/1471-2105-12-12. PubMed PMID: 21219653. PMCID: PMC3027111. 

2010

Hochheiser H, Shneiderman B. From Bowling Alone to Tweeting Together: Technology- Mediated Social Participation. interactions. 2010; 17(2):64-67. (Invited)

Lazar J, Feng J,Hochheiser H. Research Methods in Human-Computer Interaction. London: Wiley; 2010.

Hochheiser H, Lazar J. Revisiting breadth vs. depth in menu structures for blind users of screen readers. Interacting with Computers. 2010; 22 (5):389-398.

Sauer G, Lazar J, Hochheiser H, Feng J. Towards A Universally Usable Human Interaction Proof: Evaluation of Task Completion Strategies. ACM Transactions on Accessible Computing. 2010; 2(4):15:1-15:32.

2009

Taylor B, Hochheiser H, Azadegan A, O'Leary M. Cross-site Security Integration: Preliminary Experiences across Curricula and Institutions. The 13th Colloquium for Information Systems Security Education; Seattle Washington. 2009.

Turner C, Hochheiser H, Feng J, Taylor B, Lazar J, Azadegan A, O'Leary M. Cooperative Information Assurance Capacity Building. The 13th Colloquium for Information Systems Security Education; 2009 Jun; Seattle Washington. 2009.

2008

Jerome GJ, Durm J, Hochheiser H, Appel LJ. Accessibility of Physical Activity Promotion Websites For Persons With Visual Impairments. 2nd International Congress on Physical Activity and Public Health; Amsterdam, The Netherlands. 2008.
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