Publications

2011 Publications

Anders S, Miller A, Joseph P, Fortenberry T, Woods M, Booker R, Slaughter J, Weinger MB, France D. Blood product positive patient identification: comparative simulation-based usability test of two commercial products. Transfusion 2011 May 20; PMID: 21599676 

Bhatia H, Levy M. Automated plan-recognition of chemotherapy protocols. AMIA Annu Symp Proc 2011;2011:108-14 PMID: 22195061 

Birdwell KA, Grady B, Choi L, Xu H, Bian A, Denny JC, Jiang M, Vranic G, Basford M, Cowan JD, Richardson DM, Robinson MP, Ikizler TA, Ritchie MD, Stein CM, Haas DW. The use of a DNA biobank linked to electronic medical records to characterize pharmacogenomic predictors of tacrolimus dose requirement in kidney transplant recipients. Pharmacogenet Genomics 2011 Nov 19; PMID: 22108237 

Bloomrosen M, Starren J, Lorenzi NM, Ash JS, Patel VL, Shortliffe EH. Anticipating and addressing the unintended consequences of health IT and policy: a report from the AMIA 2009 Health Policy Meeting. J Am Med Inform Assoc 2011 Jan 1;18(1):82-90 PMID: 21169620 

Bonatti HJ, Colon N, Ott M, Morris JA, Miller RS, Riordan WP, May AK. Trimethoprim-Associated Hyperkalemia in a Young Trauma Victim. Surg Infect (Larchmt) 2011 Oct 17; PMID: 22004442 

Brożek JL, Akl EA, Compalati E, Kreis J, Terracciano L, Fiocchi A, Ueffing E, Andrews J, Alonso-Coello P, Meerpohl JJ, Lang DM, Jaeschke R, Williams Jr JW, Phillips B, Lethaby A, Bossuyt P, Glasziou P, Helfand M, Watine J, Afilalo M, Welch V. Grading quality of evidence and strength of recommendations in clinical practice guidelinesPart 3 of 3. The GRADE approach to developingrecommendations. Allergy 2011 Jan 17; PMID: 21241318 

Cai Q, Long J, Lu W, Qu S, Wen W, Kang D, Lee JY, Chen K, Shen H, Shen CY, Sung H, Matsuo K, Haiman CA, Khoo US, Ren Z, Iwasaki M, Gu K, Xiang YB, Choi JY, Park SK, Zhang L, Hu Z, Wu PE, Noh DY, Tajima K, Henderson BE, Chan KY, Su F, Kasuga Y, Wang W, Che Genome-wide association study identifies breast cancer risk variant at 10q21.2: results from the Asia Breast Cancer Consortium. Hum Mol Genet 2011 Sep 9; PMID: 21908515 

Campion TR Jr, May AK, Waitman LR, Ozdas A, Lorenzi NM, Gadd CS. Characteristics and effects of nurse dosing over-rides on computer-based intensive insulin therapy protocol performance. J Am Med Inform Assoc 2011 Mar 14; PMID: 21402737 

Campion TR Jr, Waitman LR, Lorenzi NM, May AK, Gadd CS. Barriers and facilitators to the use of computer-based intensive insulin therapy. Int J Med Inform 2011 Oct 20; PMID: 22019280 

Carnevale RJ, Talbot TR, Schaffner W, Bloch KC, Daniels TL, Miller RA. Evaluating the utility of syndromic surveillance algorithms for screening to detect potentially clonal hospital infection outbreaks. J Am Med Inform Assoc 2011 May 23; PMID: 21606134 

Carroll RJ, Eyler AE, Denny JC. Naïve electronic health record phenotype identification for rheumatoid arthritis. AMIA Annu Symp Proc 2011;2011:189-96 PMID: 22195070 

Chen Y, Mani S, Xu H. Applying active learning to assertion classification of concepts in clinical text. J Biomed Inform 2011 Nov 22; PMID: 22127105 

Cleeland CS, Wang XS, Shi Q, Mendoza TR, Wright SL, Berry MD, Malveaux D, Shah PK, Gning I, Hofstetter WL, Putnam JB Jr, Vaporciyan AA. Automated Symptom Alerts Reduce Postoperative Symptom Severity After Cancer Surgery: A Randomized Controlled Clinical Trial. J Clin Oncol 2011 Jan 31; PMID: 21282546 

Combs S, Kaufmann K, Field JR, Blakely RD, Meiler J. Y95 and e444 interaction required for high-affinity s-citalopram binding in the human serotonin transporter. ACS Chem Neurosci 2011 Feb 16;2(2):75-81 PMID: 22778858 

Connor RE, Marnett LJ, Liebler DC. Protein-Selective Capture to Analyze Electrophile Adduction of Hsp90 by 4-Hydroxynonenal. Chem Res Toxicol 2011 Jul 27; PMID: 21749116 

Cox ZL, Nelsen CL, Waitman LR, McCoy JA, Peterson JF. Effects of clinical decision support on initial dosing and monitoring of tobramycin and amikacin. Am J Health Syst Pharm 2011 Apr 1;68(7):624-32 PMID: 21411805 

Dasari S, Chambers MC, Codreanu SG, Liebler DC, Collins BC, Pennington SR, Gallagher WM, Tabb DL. Sequence Tagging Reveals Unexpected Modifications in Toxicoproteomics. Chem Res Toxicol 2011 Jan 7; PMID: 21214251 

De Moor G, O'Brien J, Fridsma D, Bean C, Devlies J, Cusack CM, Bloomrosen M, Lorenzi N, Coorevits P. Policy Brief on the Current Status of Certification of Electronic Health Records in the US and Europe. Stud Health Technol Inform 2011;170:83-106 PMID: 21893900 

Delaney JT, Ramirez AH, Bowton E, Pulley JM, Basford MA, Schildcrout JS, Shi Y, Zink R, Oetjens M, Xu H, Cleator JH, Jahangir E, Ritchie MD, Masys DR, Roden DM, Crawford DC, Denny JC. Predicting Clopidogrel Response Using DNA Samples Linked to an Electronic Health Record. Clin Pharmacol Ther 2011 Dec 21; PMID: 22190063 

Deluca S, Dorr B, Meiler J. Design of Native-like Proteins through an Exposure-Dependent Environment Potential. Biochemistry 2011 Sep 19; PMID: 21905701 

Denny JC, Crawford DC, Ritchie MD, Bielinski SJ, Basford MA, Bradford Y, Chai HS, Bastarache L, Zuvich R, Peissig P, Carrell D, Ramirez AH, Pathak J, Wilke RA, Rasmussen L, Wang X, Pacheco JA, Kho AN, Hayes MG, Weston N, Matsumoto M, Kopp PA, Newton KM, J Variants Near FOXE1 Are Associated with Hypothyroidism and Other Thyroid Conditions: Using Electronic Medical Records for Genome- and Phenome-wide Studies. Am J Hum Genet 2011 Oct 7;89(4):529-42 PMID: 21981779 

Deppen S, Putnam JB Jr, Andrade G, Speroff T, Nesbitt JC, Lambright ES, Massion PP, Walker R, Grogan EL. Accuracy of FDG-PET to diagnose lung cancer in a region of endemic granulomatous disease. Ann Thorac Surg 2011 Aug;92(2):428-32; discussion 433 PMID: 21592456 

Dexheimer JW, Talbot TR 3rd, Ye F, Shyr Y, Jones I, Gregg WM, Aronsky D. A computerized pneumococcal vaccination reminder system in the adult emergency department. Vaccine 2011 Jul 21; PMID: 21784117 

Diaz JJ Jr, Dutton WD, Ott MM, Cullinane DC, Alouidor R, Armen SB, Bilanuik JW, Collier BR, Gunter OL, Jawa R, Jerome R, Kerwin AJ, Kirby JP, Lambert AL, Riordan WP, Wohltmann CD. Eastern Association for the Surgery of Trauma: A Review of the Management of the Open Abdomen-Part 2 "Management of the Open Abdomen" J Trauma 2011 Aug;71(2):502-512 PMID: 21825951 

Diaz JJ Jr, Norris P, Gunter O, Collier B, Riordan W, Morris JA Jr. Triaging to a regional acute care surgery center: distance is critical. J Trauma 2011 Jan;70(1):116-9 PMID: 21217489 

Diaz JJ Jr, Norris PR, Gunter OL, Collier BR, Riordan WP, Morris JA Jr. Does regionalization of acute care surgery decrease mortality? J Trauma 2011 Aug;71(2):442-6 PMID: 21825946 

Drolet BC, Lorenzi NM. Translational research: understanding the continuum from bench to bedside. Transl Res 2011 Jan;157(1):1-5 PMID: 21146144 

Ehrenfeld JM, Cassedy EA, Forbes VE, Mercaldo ND, Sandberg WS. Modified Rapid Sequence Induction and Intubation: A Survey of United States Current Practice. Anesth Analg 2011 Oct 24; PMID: 22025487 

FitzHenry F, Doran J, Lobo B, Sullivan TM, Potts A, Feldott CC, Matheny ME, McCulloch G, Deppen S, Doulis J. Medication-error alerts for warfarin orders detected by a bar-code-assisted medication administration system. Am J Health Syst Pharm 2011 Mar 1;68(5):434-41 PMID: 21330686 

Fortenberry C, Bowman EA, Proffitt W, Dorr B, Combs S, Harp J, Mizoue L, Meiler J. Exploring Symmetry as an Avenue to the Computational Design of Large Protein Domains. J Am Chem Soc 2011 Oct 21; PMID: 21978247 

Frisse ME, Johnson KB, Nian H, Davison CL, Gadd CS, Unertl KM, Turri PA, Chen Q. The financial impact of health information exchange on emergency department care. J Am Med Inform Assoc 2011 Nov 4; PMID: 22058169 

Gadd CS, Ho YX, Cala CM, Blakemore D, Chen Q, Frisse ME, Johnson KB. User perspectives on the usability of a regional health information exchange. J Am Med Inform Assoc 2011 May 27; PMID: 21622933 

Ganguly S, Weiner BE, Meiler J. Membrane Protein Structure Determination using Paramagnetic Tags. Structure 2011 Apr 13;19(4):441-3 PMID: 21481766 

Gong X, Sun J, Zhao Z. Gene regulation in glioblastoma: a combinatorial analysis of microRNAs and transcription factors. Int J Comput Biol Drug Des 2011;4(2):111-26 PMID: 21712563 

Gordon J. Educating the patient: challenges and opportunities with current technology. Nurs Clin North Am 2011 Sep;46(3):341-50, vii PMID: 21791269 

Greelish JP, Leacche M, Solenkova N, Ahmad RM, Byrne JG. Improved midterm outcomes for type A (central) pulmonary emboli treated surgically. J Thorac Cardiovasc Surg 2011 Apr 8; PMID: 21481423 

Grogan EL, Weinstein JJ, Deppen SA, Putnam JB Jr, Nesbitt JC, Lambright ES, Walker RC, Dittus RS, Massion PP. Thoracic Operations for Pulmonary Nodules Are Frequently Not Futile in Patients with Benign Disease. J Thorac Oncol 2011 Jul 13; PMID: 21760552 

Guengerich FP, Cheng Q. Orphans in the Human Cytochrome P450 Superfamily: Approaches to Discovering Functions and Relevance in Pharmacology. Pharmacol Rev 2011 Jul 7; PMID: 21737533 

Haas DW, Kuritzkes DR, Ritchie MD, Amur S, Gage BF, Maartens G, Masys D, Fellay J, Phillips E, Ribaudo HJ, Freedberg KA, Petropoulos C, Manolio TA, Gulick RM, Haubrich R, Kim P, Dehlinger M, Abebe R, Telenti A, On Behalf Of Participants In The Workshop Ph Pharmacogenomics of HIV Therapy: Summary of a Workshop Sponsored by the National Institute of Allergy and Infectious Diseases. HIV Clin Trials 2011 Sep-Oct;12(5):277-85 PMID: 22180526 

Halvey PJ, Zhang B, Coffey RJ, Liebler DC, Slebos RJ. Proteomic Consequences of a Single Gene Mutation in a Colorectal Cancer Model. J Proteome Res 2011 Dec 13; PMID: 22103262 

Handel DA, Pines J, Aronsky D, Genes N, Ginde AA, Hackman J, Hilton JA, Hwang U, Kamali M, Powell E, Sattarian M, Fu R. Variations in Crowding and Ambulance Diversion in Nine Emergency Departments. Acad Emerg Med 2011 Sep;18(9):941-946 PMID: 21906203 

Harris PA, Scott KW, Lebo L, Hassan N, Lighter C, Pulley J. ResearchMatch: A National Registry to Recruit Volunteers for Clinical Research. Acad Med 2011 Nov 18; PMID: 22104055 

Harris PA, Swafford JA, Edwards TL, Zhang M, Nigavekar SS, Yarbrough TR, Lane LD, Helmer T, Lebo LA, Mayo G, Masys DR, Bernard GR, Pulley JM. StarBRITE: The Vanderbilt University Biomedical Research Integration, Translation and Education Portal. J Biomed Inform 2011 Feb 7; PMID: 21310264 

Hartmann KE, McPheeters ML, Chescheir NC, Gillam-Krakauer M, McKoy JN, Jerome R, Sathe NA, Meints L, Walsh WF. Evidence to Inform Decisions About Maternal-Fetal Surgery: Technical Brief. Obstet Gynecol 2011 Apr 5; PMID: 21471854 

Helfand M, Tunis S, Whitlock EP, Pauker SG, Basu A, Chilingerian J, Harrell Jr FE, Meltzer DO, Montori VM, Shepard DS, Kent DM. A CTSA Agenda to Advance Methods for Comparative Effectiveness Research. Clin Transl Sci 2011 Jun;4(3):188-198 PMID: 21707950 

Henry LK, Iwamoto H, Field JR, Kaufmann K, Dawson ES, Jacobs MT, Adams C, Felts B, Zdravkovic I, Armstrong V, Combs S, Solis E, Rudnick G, Noskov SY, DeFelice LJ, Meiler J, Blakely RD. A conserved asparagine residue in transmembrane segment 1 (TM1) of serotonin transporter dictates chloride-coupled neurotransmitter transport. J Biol Chem 2011 Sep 2;286(35):30823-36 PMID: 21730057 

Holden RJ. In reply. Ann Emerg Med 2011 Oct;58(4):399-400 PMID: 21943582 

Holden RJ. What Stands in the Way of Technology-Mediated Patient Safety Improvements? A Study of Facilitators and Barriers to Physicians' Use of Electronic Health Records. J Patient Saf 2011 Nov 4; PMID: 22064624 

Hwang U, McCarthy ML, Aronsky D, Asplin B, Crane PW, Craven CK, Epstein SK, Fee C, Handel DA, Pines JM, Rathlev NK, Schafermeyer RW, Zwemer Jr FL, Bernstein SL. Measures of Crowding in the Emergency Department: A Systematic Review. Acad Emerg Med 2011 May;18(5):527-538 PMID: 21569171 

Hyman SA, Michaels DR, Berry JM, Schildcrout JS, Mercaldo ND, Weinger MB. Risk of burnout in perioperative clinicians: a survey study and literature review. Anesthesiology 2011 Jan;114(1):194-204 PMID: 21178675 

Isbell JM, Deppen S, Putnam JB Jr, Nesbitt JC, Lambright ES, Dawes A, Massion PP, Speroff T, Jones DR, Grogan EL. Existing general population models inaccurately predict lung cancer risk in patients referred for surgical evaluation. Ann Thorac Surg 2011 Jan;91(1):227-33; discussion 233 PMID: 21172518 

Jia P, Ewers JM, Zhao Z. Prioritization of epilepsy associated candidate genes by convergent analysis. PLoS One 2011 Feb 24;6(2):e17162 PMID: 21390307 

Jia P, Jayathilake K, Zhao Z, Meltzer HY. Association of FAS, a TNF-α receptor gene, with treatment resistant schizophrenia. Schizophr Res 2011 May 4; PMID: 21549565 

Jia P, Kao CF, Kuo PH, Zhao Z. A comprehensive network and pathway analysis of candidate genes in major depressive disorder. BMC Syst Biol 2011 Dec 23;5 Suppl 3:S12 PMID: 22784618 

Jia P, Tian J, Zhao Z. Assessing gene length biases in gene set analysis of Genome-Wide Association Studies. Int J Comput Biol Drug Des 2011;3(4):297-310 PMID: 21297229 

Jia P, Wang L, Fanous AH, Chen X, Kendler KS, Zhao Z. A bias-reducing pathway enrichment analysis of genome-wide association data confirmed association of the MHC region with schizophrenia. J Med Genet 2011 Dec 20; PMID: 22187495 

Jia P, Zhao Z. Network-assisted Causal Gene Detection in Genome-wide Association Studies: An Improved Module Search Algorithm. IEEE Int Workshop Genomic Signal Process Stat 2011;:131-134 PMID: 22898890 

Jiang M, Chen Y, Liu M, Rosenbloom ST, Mani S, Denny JC, Xu H. A study of machine-learning-based approaches to extract clinical entities and their assertions from discharge summaries. J Am Med Inform Assoc 2011 Apr 20; PMID: 21508414 

Johnson KB, Culpepper D, Scott P, Gordon JS, Harris C. The utility of providing automated medication dose reminders to young children on chronic medication. J Telemed Telecare 2011 Oct 3; PMID: 21967999 

Johnson KB, Lee CK, Spooner SA, Davison CL, Helmke JS, Weinberg ST. Automated Dose-Rounding Recommendations for Pediatric Medications. Pediatrics 2011 Jul 25; PMID: 21788218 

Johnson KB, Unertl KM, Chen Q, Lorenzi NM, Nian H, Bailey J, Frisse M. Health information exchange usage in emergency departments and clinics: the who, what, and why. J Am Med Inform Assoc 2011 Sep 1;18(5):690-7 PMID: 21846788 

Khan NA, Peterson JF. A surveillance tool to support quality assurance and research in personalized medicine. AMIA Annu Symp Proc 2011;2011:701-8 PMID: 22195126 

Kinsinger CR, Apffel J, Baker M, Bian X, Borchers CH, Bradshaw R, Brusniak MY, Chan DW, Deutsch EW, Domon B, Gorman J, Grimm R, Hancock W, Hermjakob H, Horn D, Hunter C, Kolar P, Kraus HJ, Langen H, Linding R, Moritz RL, Omenn GS, Orlando R, Pandey A, Pin Recommendations for Mass Spectrometry Data Quality Metrics for Open Access Data (Corollary to the Amsterdam Principles). Mol Cell Proteomics 2011 Dec;10(12):O111.015446 PMID: 22052993 

Kinsinger CR, Apffel J, Baker M, Bian X, Borchers CH, Bradshaw R, Brusniak MY, Chan DW, Deutsch EW, Domon B, Gorman J, Grimm R, Hancock W, Hermjakob H, Horn D, Hunter C, Kolar P, Kraus HJ, Langen H, Linding R, Moritz RL, Omenn GS, Orlando R, Pandey A, Pin Recommendations for Mass Spectrometry Data Quality Metrics for Open Access Data (Corollary to the Amsterdam Principles). J Proteome Res 2011 Dec 8; PMID: 22053864 

Kocher KE, Shane SA, Venkatesh AK, Aronsky D, Asplin BR, Rathlev NK. Interventions to Safeguard System Effectiveness During Periods of Emergency Department Crowding. Acad Emerg Med 2011 Dec;18(12):1313-1317 PMID: 22168196 

Koehler J, Meiler J. Expanding the utility of NMR restraints with paramagnetic compounds: Background and practical aspects. Prog Nucl Magn Reson Spectrosc 2011 Nov;59(4):360-89 PMID: 22027343 

Koonce TY, Giuse NB, Storrow AB. A pilot study to evaluate learning style-tailored information prescriptions for hypertensive emergency department patients. J Med Libr Assoc 2011 Oct;99(4):280-9 PMID: 22022222 

Leung A, Cajigas I, Jia P, Ezhkova E, Brickner JH, Zhao Z, Geng F, Tansey WP. Histone H2B ubiquitylation and H3 lysine 4 methylation prevent ectopic silencing of euchromatic loci important for the cellular response to heat. Mol Biol Cell 2011 Jun 16; PMID: 21680712 

Levy MA, Giuse DA, Eck C, Holder G, Lippard G, Cartwright J, Rudge NK. Integrated information systems for electronic chemotherapy medication administration. J Oncol Pract 2011 Jul;7(4):226-30 PMID: 22043185 

Levy MA, Rubin DL. Current and future trends in imaging informatics for oncology. Cancer J 2011 Jul-Aug;17(4):203-10 PMID: 21799326 

Li J, Su Z, Ma ZQ, Slebos RJ, Halvey P, Tabb DL, Liebler DC, Pao W, Zhang B. A bioinformatics workflow for variant peptide detection in shotgun proteomics. Mol Cell Proteomics 2011 Mar 9; PMID: 21389108 

Liu M, Jiang M, Kawai VK, Stein CM, Roden DM, Denny JC, Xu H. Modeling drug exposure data in electronic medical records: an application to warfarin. AMIA Annu Symp Proc 2011;2011:815-23 PMID: 22195139 

Lorenzi N, Bloomrosen M. Accelerating the Deployment of a Health Information Technology and Informatics Workforce through Education, Training, Research, and Evaluation. Stud Health Technol Inform 2011;170:113-21 PMID: 21893902 

Lorenzi N, De Moor G, Bloomrosen M, Stroetmann K. A Proposed Vision: The Transatlantic Observatory for Meeting Global Health Policy Challenges through Information and Communications Technology-Enabled Solutions (ARGOS). Stud Health Technol Inform 2011;170:107-11 PMID: 21893901 

Lorenzi N. Flow control. Trends in hospital plumbing fixtures and fittings. Health Facil Manage 2011 Jan;24(1):30-4 PMID: 21323118 

Lorenzi N. Rolling it out. Selecting carpet for the health care environment. Health Facil Manage 2011 Apr;24(4):34-8 PMID: 21639065 

Lorenzi N. Flawless furnishings. Health care furniture makers stress cleanability. Health Facil Manage 2011 Mar;24(3):30-4 PMID: 21735810 

Lorenzi N. Wayfinding. Which way to radiology? Use the touchscreen wall. Hosp Health Netw 2011 Jul;85(7):14 PMID: 21837831 

Lorenzi N. Future directions. Vendors roll out the next generation of health care signage. Health Facil Manage 2011 Jun;24(6):32-6 PMID: 21882768 

Lorenzi N. Taking control. Building automation applications continue to expand. Health Facil Manage 2011 Oct;24(10):38-42 PMID: 22128489 

Lorenzi NM. [In Process Citation] J Am Med Inform Assoc 2011 Mar 1;18(2):203-8 PMID: 21385825 

Ma ZQ, Chambers MC, Ham AJ, Cheek KL, Whitwell CW, Aerni HR, Schilling B, Miller AW, Caprioli RM, Tabb DL. ScanRanker: Quality Assessment of Tandem Mass Spectra via Sequence Tagging. J Proteome Res 2011 Apr 26; PMID: 21520941 

Ma ZQ, Tabb DL, Burden J, Chambers MC, Cox MB, Cantrell MJ, Ham AJ, Litton MD, Oreto MR, Schultz WC, Sobecki SM, Tsui TY, Wernke GR, Liebler DC. Supporting Tool Suite for Production Proteomics. Bioinformatics 2011 Sep 29; PMID: 21965817 

Malin B, Benitez K, Masys D. Never too old for anonymity: a statistical standard for demographic data sharing via the HIPAA Privacy Rule. J Am Med Inform Assoc 2011 Jan 1;18(1):3-10 PMID: 21169618 

Malin B, Loukides G, Benitez K, Clayton EW. Identifiability in biobanks: models, measures, and mitigation strategies. Hum Genet 2011 Jul 8; PMID: 21739176 

Malin B, Nyemba S, Paulett J. Learning Relational Policies from Electronic Health Record Access Logs. J Biomed Inform 2011 Jan 25; PMID: 21277996 

Matheny ME, Normand SL, Gross TP, Marinac-Dabic D, Loyo-Berrios N, Vidi VD, Donnelly S, Resnic FS. Evaluation of an automated safety surveillance system using risk adjusted sequential probability ratio testing. BMC Med Inform Decis Mak 2011 Dec 14;11(1):75 PMID: 22168892 

McConnell RE, Benesh AE, Mao S, Tabb DL, Tyska MJ. Proteomic analysis of the enterocyte brush border. Am J Physiol Gastrointest Liver Physiol 2011 May;300(5):G914-26 PMID: 21330445 

McCormick MC, Flores G, Freed GL, Homer CJ, Johnson KB, Defriese GH. Challenge to Child Health Services Research: Report From the Committee on Pediatric Health and Health Care Quality Measures. Acad Pediatr 2011 July - August;11(4):257-259 PMID: 21764013 

McCoy AB, Waitman LR, Lewis JB, Wright JA, Choma DP, Miller RA, Peterson JF. A framework for evaluating the appropriateness of clinical decision support alerts and responses. J Am Med Inform Assoc 2011 Aug 17; PMID: 21849334 

Minnick AF, Donaghey B, Slagle J, Weinger MB. Operating Room Team Members' Views of Workload, Case Difficulty, and Nonroutine Events. J Healthc Qual 2011 Apr 7; PMID: 22059640 

Mitchell JK. Nursing informatics 101. Using technology to improve patient care. ONS Connect 2011 Apr;26(4):8-12 PMID: 21661279 

Morin A, Kaufmann KW, Fortenberry C, Harp JM, Mizoue LS, Meiler J. Computational design of an endo-1,4-{beta}-xylanase ligand binding site. Protein Eng Des Sel 2011 Feb 24; PMID: 21349882 

Morin A, Meiler J, Mizoue LS. Computational design of protein-ligand interfaces: potential in therapeutic development. Trends Biotechnol 2011 Feb 2; PMID: 21295366 

Mulvaney SA, Hood KK, Schlundt DG, Osborn CY, Johnson KB, Rothman RL, Wallston KA. Development and initial validation of the barriers to diabetes adherence measure for adolescents. Diabetes Res Clin Pract 2011 Jul 5; PMID: 21737172 

Mulvaney SA, Ritterband LM, Bosslet L. Mobile Intervention Design in Diabetes: Review and Recommendations. Curr Diab Rep 2011 Sep 30; PMID: 21960031 

Murff HJ, FitzHenry F, Matheny ME, Gentry N, Kotter KL, Crimin K, Dittus RS, Rosen AK, Elkin PL, Brown SH, Speroff T. Automated identification of postoperative complications within an electronic medical record using natural language processing. JAMA 2011 Aug 24;306(8):848-55 PMID: 21862746 

Myers MV, Manning HC, Coffey RJ, Liebler DC. Protein expression signatures for inhibition of epidermal growth factor receptor mediated signaling. Mol Cell Proteomics 2011 Dec 5; PMID: 22147731 

Olmsted IR, Xiao Y, Cho M, Csordas AT, Sheehan JH, Meiler J, Soh HT, Bornhop DJ. Measurement of Aptamer-Protein Interactions with Back-Scattering Interferometry. Anal Chem 2011 Nov 8; PMID: 22032342 

Osborn CY, Rosenbloom ST, Stenner SP, Anders S, Muse S, Johnson KB, Jirjis J, Purcell Jackson G. MyHealthAtVanderbilt: policies and procedures governing patient portal functionality. J Am Med Inform Assoc 2011 Jul 31; PMID: 21807648 

Ott MM, Norris PR, Diaz JJ, Collier BR, Jenkins JM, Gunter OL, Morris JA Jr. Colon anastomosis after damage control laparotomy: recommendations from 174 trauma colectomies. J Trauma 2011 Mar;70(3):595-602 PMID: 21610348 

Peterson JA, Pechauer SM, Gitter ML, Kanack A, Curtis BR, Reese J, Kamath VM, McFarland JG, Aster RH. New platelet glycoprotein polymorphisms causing maternal immunization and neonatal alloimmune thrombocytopenia. Transfusion 2011 Nov 9; PMID: 22070736 

Petracek MR, Leacche M, Solenkova N, Umakanthan R, Ahmad RM, Ball SK, Hoff SJ, Absi TS, Balaguer JM, Byrne JG. Minimally invasive mitral valve surgery expands the surgical options for high-risks patients. Ann Surg 2011 Oct;254(4):606-11 PMID: 21946219 

Poulose BK, Kummerow KL, Nealon WH, Shelton JS, Masys DR, Holzman MD. Biliary obstruction during cholecystectomy: endoscopic retrograde cholangiopancreatography, evade, or explore? Am Surg 2011 Aug;77(8):985-91 PMID: 21944511 

Putnam DK, Sun J, Zhao Z. Exploring schizophrenia drug-gene interactions through molecular network and pathway modeling. AMIA Annu Symp Proc 2011;2011:1127-33 PMID: 22195173 

Putnam JB Jr. Resection of pulmonary metastases: a mechanical solution for a biological problem. Oncology (Williston Park) 2011 Nov 15;25(12):1206-7 PMID: 22229213 

Rahman SM, Gonzalez AL, Li M, Seeley EH, Zimmerman LJ, Zhang XJ, Manier ML, Olson SJ, Shah RN, Miller AN, Putnam JB, Miller YE, Franklin WA, Blot WJ, Carbone DP, Shyr Y, Caprioli RM, Massion PP. Lung Cancer Diagnosis from Proteomic Analysis of Preinvasive Lesions. Cancer Res 2011 Apr 12; PMID: 21487035 

Rexer BN, Ham AJ, Rinehart C, Hill S, de Matos Granja-Ingram N, González-Angulo AM, Mills GB, Dave B, Chang JC, Liebler DC, Arteaga CL. Phosphoproteomic mass spectrometry profiling links Src family kinases to escape from HER2 tyrosine kinase inhibition. Oncogene 2011 Apr 18; PMID: 21499296 

Ritchie MD. Using biological knowledge to uncover the mystery in the search for epistasis in genome-wide association studies. Ann Hum Genet 2011 Jan;75(1):172-82 PMID: 21158748 

Rosenbloom ST, Daniels TL, Talbot TR, McClain T, Hennes R, Stenner S, Muse S, Jirjis J, Purcell Jackson G. Triaging patients at risk of influenza using a patient portal. J Am Med Inform Assoc 2011 Dec 1; PMID: 22140208 

Rosenbloom ST, Denny JC, Xu H, Lorenzi N, Stead WW, Johnson KB. Data from clinical notes: a perspective on the tension between structure and flexible documentation. J Am Med Inform Assoc 2011 Jan 12; PMID: 21233086 

Rothman B, Sandberg WS, Jacques PS. Using information technology to improve quality in the or. Anesthesiol Clin 2011 Mar;29(1):29-55 PMID: 21295751 

Rusch VW, Hawes D, Decker PA, Martin SE, Abati A, Landreneau RJ, Patterson GA, Inculet RI, Jones DR, Malthaner RA, Cohen RG, Ballman K, Putnam JB Jr, Cote RJ. Occult Metastases in Lymph Nodes Predict Survival in Resectable Non-Small-Cell Lung Cancer: Report of the ACOSOG Z0040 Trial. J Clin Oncol 2011 Oct 11; PMID: 21990404 

Sastre EA, Denny JC, McCoy JA, McCoy AB, Spickard A. Teaching evidence-based medicine: Impact on students' literature use and inpatient clinical documentation. Med Teach 2011;33(6):e306-12 PMID: 21609166 

Schildcrout JS, Haneuse S, Peterson JF, Denny JC, Matheny ME, Waitman LR, Miller RA. Analyses of longitudinal, hospital clinical laboratory data with application to blood glucose concentrations. Stat Med 2011 Sep 21; PMID: 21948391 

Shi M, Zhang B. Semi-supervised learning improves gene expression-based prediction of cancer recurrence. Bioinformatics 2011 Sep 4; PMID: 21893520 

Shi Z, Zhang B. Fast network centrality analysis using GPUs. BMC Bioinformatics 2011 May 12;12:149 PMID: 21569426 

Shively M, Rutledge T, Rose BA, Graham P, Long R, Stucky E, Weinger MB, Dresselhaus T. Real-time assessment of nurse work environment and stress. J Healthc Qual 2011 Jan-Feb;33(1):39-48 PMID: 21199072 

Simpson DR, Yu M, Zheng S, Zhao Z, Muthuswamy SK, Tansey WP. Epithelial Cell Organization Suppresses Myc Function by Attenuating Myc Expression. Cancer Res 2011 May 24; PMID: 21610111 

Speroff T, Ely EW, Greevy R, Weinger MB, Talbot TR, Wall RJ, Deshpande JK, France DJ, Nwosu S, Burgess H, Englebright J, Williams MV, Dittus RS. Quality improvement projects targeting health care-associated infections: Comparing virtual collaborative and toolkit approaches. J Hosp Med 2011 Feb 10; PMID: 21312329 

St Julien J, Putnam JB Jr, Nesbitt JC, Lambright ES, Petracek MR, Grogan EL. Successful treatment of atrioesophageal fistula by cervical esophageal ligation and decompression. Ann Thorac Surg 2011 Jun;91(6):e85-6 PMID: 21619954 

Stenner SP, Johnson KB, Denny JC. PASTE: patient-centered SMS text tagging in a medication management system. J Am Med Inform Assoc 2011 Oct 8; PMID: 21984605 

Su Z, Han L, Zhao Z. Conservation and divergence of DNA methylation in eukaryotes: New insights from single base-resolution DNA methylomes. Epigenetics 2011 Feb 6;6(2) PMID: 20962593 

Su Z, Xia J, Zhao Z. Functional complementation between transcriptional methylation regulation and post-transcriptional microRNA regulation in the human genome. BMC Genomics 2011 Dec 23;12 Suppl 5:S15 PMID: 22369656 

Turner SD, Berg RL, Linneman JG, Peissig PL, Crawford DC, Denny JC, Roden DM, McCarty CA, Ritchie MD, Wilke RA. Knowledge-Driven Multi-Locus Analysis Reveals Gene-Gene Interactions Influencing HDL Cholesterol Level in Two Independent EMR-Linked Biobanks. PLoS One 2011 May 11;6(5):e19586 PMID: 21589926 

Unertl KM, Johnson KB, Lorenzi NM. Health information exchange technology on the front lines of healthcare: workflow factors and patterns of use. J Am Med Inform Assoc 2011 Oct 14; PMID: 22003156 

Waitman LR, Phillips IE, McCoy AB, Danciu I, Halpenny RM, Nelsen CL, Johnson DC, Starmer JM, Peterson JF. Adopting real-time surveillance dashboards as a component of an enterprisewide medication safety strategy. Jt Comm J Qual Patient Saf 2011 Jul;37(7):326-32 PMID: 21819031 

Wang L, Jia P, Wolfinger RD, Chen X, Grayson BL, Aune TM, Zhao Z. An efficient hierarchical generalized linear mixed model for pathway analysis of genome-wide association studies. Bioinformatics 2011 Jan 25; PMID: 21266443 

Wang X, Slebos RJ, Wang D, Halvey PJ, Tabb DL, Liebler DC, Zhang B. Protein Identification Using Customized Protein Sequence Databases Derived from RNA-Seq Data. J Proteome Res 2011 Dec 14; PMID: 22103967 

Ware LB, Sebag SS, Bastarache JA, Matthay MA, Stamer S, Slebos RJ, Liebler DC. Proteomic Analysis of Pulmonary Edema Fluid from Patients with ALI/ARDS Reveals a Prominence of Intracellular Proteins. Proc Am Thorac Soc 2011 May;8(2):207-8 PMID: 21543811 

Weiner E. Research issues for nursing and midwifery contributions in emergencies. Prehosp Disaster Med 2011 Apr;26(2):109-13 PMID: 21888730 

Wilke RA, Xu H, Denny JC, Roden DM, Krauss RM, McCarty CA, Davis RL, Skaar T, Lamba J, Savova G. The Emerging Role of Electronic Medical Records in Pharmacogenomics. Clin Pharmacol Ther 2011 Jan 19; PMID: 21248726 

Williams AM, Abramo TJ, Shah MV, Miller RA, Burney-Jones C, Rooks S, Estrada C, Arnold DH. Safety and clinical findings of BiPAP utilization in children 20 kg or less for asthma exacerbations. Intensive Care Med 2011 May 13; PMID: 21567114 

Woetzel N, Lindert S, Stewart PL, Meiler J. BCL::EM-Fit: Rigid body fitting of atomic structures into density maps using geometric hashing and real space refinement. J Struct Biol 2011 May 4; PMID: 21565271 

Wu Y, Rosenbloom ST, Denny JC, Miller RA, Mani S, Giuse DA, Xu H. Detecting abbreviations in discharge summaries using machine learning methods. AMIA Annu Symp Proc 2011;2011:1541-9 PMID: 22195219 

Xia J, Sun J, Jia P, Zhao Z. Do cancer proteins really interact strongly in the human protein-protein interaction network? Comput Biol Chem 2011 Jun 1;35(3):121-125 PMID: 21666777 

Xu H, Abdelrahman S, Lu Y, Denny JC, Doan S. Applying semantic-based probabilistic context-free grammar to medical language processing - A preliminary study on parsing medication sentences. J Biomed Inform 2011 Aug 12; PMID: 21856440 

Xu H, Fu Z, Shah A, Chen Y, Peterson NB, Chen Q, Mani S, Levy MA, Dai Q, Denny JC. Extracting and integrating data from entire electronic health records for detecting colorectal cancer cases. AMIA Annu Symp Proc 2011;2011:1564-72 PMID: 22195222 

Xu H, Jiang M, Oetjens M, Bowton EA, Ramirez AH, Jeff JM, Basford MA, Pulley JM, Cowan JD, Wang X, Ritchie MD, Masys DR, Roden DM, Crawford DC, Denny JC. Facilitating pharmacogenetic studies using electronic health records and natural-language processing: a case study of warfarin. J Am Med Inform Assoc 2011 Jul 1;18(4):387-91 PMID: 21672908 

Zhang B, Shi Z, Duncan DT, Prodduturi N, Marnett LJ, Liebler DC. Relating protein adduction to gene expression changes: a systems approach. Mol Biosyst 2011 May 19; PMID: 21594272 

Zhang H, Liu Q, Zimmerman LJ, Ham AJ, Slebos RJ, Rahman J, Kikuchi T, Massion PP, Carbone DP, Billheimer D, Liebler DC. Methods for peptide and protein quantitation by liquid chromatography-multiple reaction monitoring mass spectrometry. Mol Cell Proteomics 2011 Feb 27; PMID: 21357624 

Zhang W, Gunter CA, Liebovitz D, Tian J, Malin B. Role Prediction using Electronic Medical Record System Audits. AMIA Annu Symp Proc 2011;2011:858-67 PMID: 22195144 

Zhao Z, Sanfilippo A, Huang K. Gene network and pathway generation and analysis. Int J Comput Biol Drug Des 2011;4(1):1-4 PMID: 21339552 

Zhao Z, Xia J, Tastan O, Singh I, Kshirsagar M, Carbonell J, Klein-Seetharaman J. Virus interactions with human signal transduction pathways. Int J Comput Biol Drug Des 2011;4(1):83-105 PMID: 21330695 

Zheng S, Tansey WP, Hiebert SW, Zhao Z. Integrative network analysis identifies key genes and pathways in the progression of hepatitis C virus induced hepatocellular carcinoma. BMC Med Genomics 2011 Aug 8;4:62 PMID: 21824427 

Zheng S, Zhao Z. GenRev: Exploring functional relevance of genes in molecular networks. Genomics 2011 Dec 29; PMID: 22227021