CTSI Duke Kannapolis Publications


  1. Summer R, Todd JL, Neely ML, Lobo LJ, Namen A, Newby LK, Shafazand S, Suliman S, Hesslinger C, Keller S, Leonard TB, Palmer SM, Ilkayeva O, Muehlbauer MJ, Newgard CB, Roman J; Circulating metabolic profile in idiopathic pulmonary fibrosis: data from the IPF-PRO Registry Respiratory Research, 25 Jan 2024
  2. Pourafshar S, Sharma B, Allen J, Hoang M, Lee H, Dressman H, Tyson CC, Mallawaarachchi I, Kumar P, Ma JZ, Lin PH, Scialla JJ; Longitudinal Pilot Evaluation of the Gut Microbiota Comparing Patients with and without Chronic Kidney Disease Journal of Renal Nutrition, 27 Jan 2024 
  3. Shah NP, Lu R, Haddad F, Shore S, Schaack T, Mega J, Pagidipati NJ, Palaniappan L, Mahaffey K, Shah SH, Rodriguez F, Project Baseline Health Study Group; Relationship between body mass index and cardiometabolic health in a multi-ethnic population: A Project Baseline Health Study American Journal of Preventive Cardiology, 16 March 2024


  1. Carolyn Gigot, Nora Pisanic, Kate Kruczynski, Magdielis Gregory Rivera, Kristoffer Spicer, Kathleen M. Kurowski, Pranay Randad, Kirsten Koehler, William A. Clarke, Phyla Holmes, D. J. Hall, Jr., Devon Hall, Sr., Christopher D. Heaney; SARS-CoV-2 Antibody Prevalence among Industrial Livestock Operation Workers and Nearby Community Residents, North Carolina, 2021 to 2022 American Society for Microbiology mSphere, 19 Jan 2023

  2. Bunting AM, Schwartz RP, Wu LT, Wahle A, Kline M, Subramaniam G, McNeely J. A Brief Screening and Assessment Tool for Opioid Use in Adults: Results from a Validation Study of the Tobacco, Alcohol, Prescription Medication, and Other Substances Tool Journal of Addiction Medicine, 04 Feb 2023

  3. Ferrell PD, Oristian KM, Puranam I, Pizzo SV; Serum Pro‐N‐Cadherin Is a Marker of Subclinical Heart Failure in the General Population Journal of the American Heart Association, 09 March 2023

  4. Neighbors CE, Sloane R, Pieper CF, Wixted D, Woods CW, Newby LK.; Mitigation Behavior Prior to COVID-19 Vaccination Availability is Associated with COVID-19 Infection and Time to Vaccination PLoS ONE, 24 March 2023

  5. Sloane R, Pieper CF, Faldowski R, Wixted D, Neighbors CE, Newby LK, Woods CW; COVID-19 Infection Risk Among Previously Uninfected Adults: Development of a Prognostic Model Sage Journals, 27 March 2023

  6. Parker DC, Kraus WE, Whitson HE, Kraus VB, Smith PJ, Cohen HJ, Pieper CF, Faldowski RA, Hall KS, Huebner JL, Ilkayeva OR, Bain JR, Newby LK, Huffman KM; Tryptophan Metabolism and Neurodegeneration: Longitudinal Associations of Kynurenine Pathway Metabolites with Cognitive Performance and Plasma ADRD Biomarkers in the Duke Physical Performance Across the LifeSpan Study Journal of Alzheimer's disease, 5 April 2023

  7. Uchehara B, Coulter Kwee L, Regan J, Chatterjee R, Eckstrand J, Swope S, Gold G, Schaack T, Douglas P, Mettu P, Haddad F, Shore S, Hernandez A, Mahaffey KW, Pagidipati N, Shah SH; Accelerated Epigenetic Aging Is Associated with Multiple Cardiometabolic, Hematologic, and Renal Abnormalities: A Project Baseline Health Substudy Circulation: Genomic and Precision Medicine, 11 April 2023

  8. Johnson CM, D'Eramo Melkus G, Reagan L, Pan W, Amarasekara S, Pereira K, Hassell N, Nowlin S, Vorderstrasse A; Learning in a Virtual Environment to Improve Type 2 Diabetes Outcomes: Randomized Controlled Trial Journal of Medical Internet Research: Formative Research, 20 April 2023

  9. Cauwenberghs N, Haddad F, Daubert MA, Chatterjee R, Salerno M, Mega JL, Heidenreich P, Hernandez A, Amsallem M, Kobayashi Y, Mahaffey KW, Shah SH, Bloomfield GS, Kuznetsova T, Douglas PS, Project Baseline Health Study Investigators; Clinical and echocardiographic diversity associated with physical fitness in the Project Baseline Health Study: implications for heart failure staging Journal of Cardiac Failure, 26 April 2023

  10. Lee RH, Bain J, Muehlbauer M, Ilkayeva O, Pieper C, Wixted D, Colón-Emeric C; Metabolic factors associated with incident fracture among older adults with type 2 diabetes mellitus: a nested case-control study Osteoporosis International, 26 April 2023

  11. Ruan P, Todd JL, Zhao H, Liu Y, Vinisko R, Soellner JF, Schmid R, Kaner RJ, Luckhardt TR, Neely ML, Noth I, Porteous M, Raj R, Safdar Z, Strek ME, Hesslinger C, Palmer SM, Leonard TB, Salisbury ML; Integrative multi-omics analysis reveals novel idiopathic pulmonary fibrosis endotypes associated with disease progression Respiratory Research, 31 May 2023

  12. Popham S, Burq M, Rainaldi EE, Shin S, Dunn J, Kapur R; An Algorithm to Classify Real-World Ambulatory Status from a Wearable Device Using Multimodal and Demographically Diverse Data: Validation Study Journal of Medical Internet Research: Biomedical Engineering, 03 July 2023

  13. Neely ML, Hellkamp AS, Bender S, Todd JL, Liesching T, Luckhardt TR, Oldham JM, Raj R, White ES, Palmer SM; Lung function trajectories in patients with idiopathic pulmonary fibrosis Respiratory Research, 24 Aug 2023

  14. Neighbors CE, Faldowski RA, Pieper CF, Taylor J, Gaines M, Sloane R, Wixted D, Woods CW, Newby LK; Factors Associated with COVID-19 Vaccination Promptness after Eligibility in a North Carolina Longitudinal Cohort Study, Vaccines special issue: Vaccination Intention against the COVID-19 Pandemic, 26 Oct 2023

  15. Tseng VWS, Tharp JA, Reiter JE, Ferrer W, Hong DS, Doraiswamy PM, Nickels S; Project Baseline Health Study Research Group; Identifying a stable and generalizable factor structure of major depressive disorder across three large longitudinal cohorts Psychiatry Research, 27 Dec 2023


  1. Califf RM, Wong C, Doraiswamy PM, Hong DS, Miller DP, Mega JL, Baseline Study Group; Biological and clinical correlates of the patient health questionnaire-9: exploratory cross-sectional analyses of the Baseline Health Study BMJ Open, 04 Jan 2022

  2. Todd JL, Neely ML, Overton R, Mulder H, Roman J, Lasky JA, de Andrade JA, Gulati M, Huang H, Leonard TB, Hesslinger C, Noth I, Belperio JA, Flaherty KR, Palmer SM; Association of Circulating Proteins with Disease Specific Measures in the Multicenter IPF-PRO Registry Cohort Lung, 23 Jan 2022

  3. Todd JL, Neely ML, Overton R, Mulder H, Roman J, Lasky JA, de Andrade JA, Gulati M, Huang H, Leonard TB, Hesslinger C, Noth I, Belperio JA, Flaherty KR, Palmer SM; Association of Circulating Proteins with Death or Lung Transplant in Patients with Idiopathic Pulmonary Fibrosis in the IPF-PRO Registry Cohort Lung 200, 11–18, Feb 2022

  4. Zhang D, Povysil G, Kobeissy PH, Li Q, Wang B, Amelotte M, Jaouadi H, Newton CA, Maher TM, Molyneaux PL, Noth I, Martinez FJ, Raghu G, Todd JL, Palmer SM, Haefliger C, Platt A, Petrovski S, Garcia JA, Goldstein DB, Garcia CK; Rare and Common Variants in KIF15 Contribute to Genetic Risk of Idiopathic Pulmonary Fibrosis American Journal of Respiratory and Critical Care Medicine, April 2022

  5. Swaminathan AC, Hellkamp AS, Neely ML, Bender S, Paoletti L, White ES, Palmer SM, Whelan TPM, Dilling DF; Disparities in Lung Transplant among Patients with Idiopathic Pulmonary Fibrosis: An Analysis of the IPF-PRO Registry Annals of the American Thoracic Society, June 2022

  6. Chatterjee R, Kwee LC, Pagidipati N, Koweek LH, Mettu PS, Haddad F, Maron DJ, Rodriguez F, Mega JL, Hernandez A, Mahaffey K, Palaniappan L, Shah SH; Multi-dimensional characterization of prediabetes in the Project Baseline Health Study Cardiovascular Diabetology, 18 July 2022

  7. Wixted D, Neighbors CE, Pieper CF, Wu A, Kingsbury C, Register H, Petzoid E, Newby LK, Woods CW; Comparison of a Blood Self-Collection System with Routine Phlebotomy for SARS-CoV-2 Antibody Testing Diagnostics, 31 July 2022

  8. Califf RM, Wong C, Doraiswamy PM, Hong DS, Miller DP, Mega JL, Baseline Study Group; Importance of Social Determinants in Screening for Depression; Journal of General Internal Medicine Aug 2022

  9. Neighbors CE, Wu AE, Wixted DG, Heidenfelder BL, Kingsbury CA, Register HM, Louzao R, Sloane R, Eckstrand J, Pieper CC, Faldowski RA, Denny TN, Woods CW, Newby LK; The Cabarrus County COVID-19 Prevalence and Immunity (C3PI) Study: design, methods, and baseline characteristics American Journal of Translational Research, 30 Aug 2022

  10. Nunes JC, Carroll MK, Mahaffey KW, Califf RM, Doraiswamy PM, Short S, Shah SH, Swope S, Williams D, Hernandez AF, Hong DS; General Anxiety Disorder-7 Questionnaire as a marker of low socioeconomic status and inequity Journal of Affective Disorders, 15 Nov 2022

  11. Haddad F, Cauwenberghs N, Daubert MA, Kobayashi Y, Bloomfield GS, Fleischman D, Koweek L, Maron DJ, Rodriguez F, Liao YJ, Moneghetti K, Amsallem M, Mega J, Hernandez A, Califf R, Mahaffey KW, Shah SH, Kuznetsova T, Douglas PS, Project Baseline Health Study Investigators; Association of left ventricular diastolic function with coronary artery calcium score: A Project Baseline Health Study Journal of Cardiovascular Computed Tomography, Nov-Dec 2022


  1. Giarraputo J, Giamberardino S, Arvai S, Maichle S, Eckstein C, Newby LK, Gregory S. Profiling serum neurofilament light chain and glial fibrillary acidic protein in primary progressive multiple sclerosis. Journal of Neuroimmunology, 15 May 2021

  2. Vorderstrasse A, Reagan L, D'Eramo Melkus G, Nowlin SY, Birdsall SB, Burd A, Cho YH, Jang M, Johnson C; Recruitment and enrollment of participants in an online diabetes self-management intervention in a virtual environment Contemporary Clinical Trials, June 2021

  3. Sayeed S, Califf R, Green R, Wong C, Mahaffey K, Gambhir SS, Mega J, Patrick-Lake B, Frazier K, Pignone M, Hernandez A, Shah SH, Fan AC, Krüg S, Shaack T, Shore S, Spielman S, Eckstrand J, Wong CA, Project Baseline Health Study Research Group; Return of individual research results: What do participants prefer and expect? PLoS ONE, 29 Jul 2021


  1. Nordeck, C., Gryczynski, J., O’Grady, K., Polak, K., Svikis, D., McNeely, J., Wu, L.T., Schwartz, R. Comparison of timeline follow-back self-report and oral fluid testing to detect substance use in adult primary care patients. Drug and Alcohol Dependence, 22 Feb 2020

  2. Todd, JL; Vinisko, R; Liu, Y; Neely, ML; Overton, R; Flaherty, KR; Noth, I; Newby, LK; Lasky, JA; Olman, MA; Hesslinger, C; Leonard, TB; Palmer, SM; Belperio, JA; & IPF-PRO Registry investigators. Circulating matrix metalloproteinases and tissue metalloproteinase inhibitors in patients with idiopathic pulmonary fibrosis in the multicenter IPF-PRO Registry cohort. BMC Pulmonary Medicine, 14 March 2020

  3. Penning, ML; Blach, C; Walden, A; Wang, P; Donovan, KM; Garza, MY; Wang, Z; Frund, J; Syed, S; Syed, M; Del Fiol, G; Newby, LK; Pieper, C; Zozus, M. Near Real Time EHR Data Utilization in a Clinical Study. Studies in Health Technology and Informatics, 16 June 2020

  4. Walden A, Garvin L, Smerek M, Johnson C. User-centered design principles in the development of clinical research tools. Society for Clinical Trials, 20 Aug 2020

  5. Douglas TD, Newby LK, Eckstrand J, Wixted D, Singh RH. Lipid changes in the metabolome of a single case study with maple syrup urine disease (MSUD) after five days of improved diet adherence of controlled branched-chain amino acids (BCAA). Molecular Genetics and Metabolism Reports, 14 Oct 2020


  1. Harskamp RE, Granger TM, Clare RM, White KR, Lopes RD, Pieper KS, Granger CB, Newgard CB, Shah SH, Newby LK. Peripheral blood metabolite profiles associated with new onset atrial fibrillation. Citation: Am Heart J. 2019 Feb 14;211:54-59.

  2. Wu, L-T, Payne, EH, Roseman, K, Kingsbury, C, Case, A, Nelson, C and Lindblad, R. Clinical workflow and substance use screening, brief intervention, and referral to treatment data in the electronic health records: A National Drug Abuse Treatment Clinical Trials Network study. Citation: eGEMs (Generating Evidence & Methods to improve patient outcomes), 7(1): 35, pp. 1–15.

  3. Beskow LM, Brelsford KM, Hammack CM. Patient perspectives on use of electronic health records for research recruitment. Citation: BMC Medical Research Methodology, vol. 19, no. 1, 2019.

  4. Todd JL, Neely ML, Overton R, Durham K, Gulati M, Huang H, Roman J, Newby LK, Flaherty KR, Vinisko R, Liu Y, Roy J, Schmid R, Strobel B, Hesslinger C, Leonard TB, Noth I, Belperio JA, Palmer SM. Peripheral blood proteomic profiling of idiopathic pulmonary fibrosis biomarkers in the multicentre IPF-PRO Registry. Citation: Respir Res 20, 227 (2019).

  5. Rasouly HM, Groopman EE, Heyman-Kantor R, Fasel DA, Mitrotti A, Westland R, Bier L, Weng C, Ren Z, Copeland B, Krithivasan P, Chung WK, Sanna-Cherchi S, Goldstein DB, Gharavi AG. The Burden of Candidate Pathogenic Variants for Kidney and Genitourinary Disorders Emerging From Exome Sequencing. Citation: Ann Intern Med. (January 2019) 170:11-21. doi:10.7326/M18 1241.

  6. Andersen SL, Briggs FBS, Winnike JH, Natanzon Y, Maichle S, Knagge KJ, Newby LK, Gregory SG. Metabolome-based signature of disease pathology in MS. Citation: Multiple Sclerosis and Related Disorders (March 2019)

  7. Adam, A, Schwartz RP, Wu LT, Subramaniam G, Laska E, Sharma G, Mili S, McNeely J. Electronic self-administered screening for substance use in adult primary care patients: feasibility and acceptability of the tobacco, alcohol, prescription medication, and other substance use (myTAPS) screening tool. Citation: Addict Sci Clin Pract. 2019; 14: 39.

  8. John, W.S., Grover, K., Greenblatt, L.H., Schwartz, R.P., Wu, L.-T. E-Cigarette Use Among Adult Primary Care Patients: Results from a Multisite Study. Citation: J Gen Intern Med. 2019 Nov 8


  1. Brelsford KM, Spratt SE, Beskow LM. Research use of electronic health records: patients’ perspectives on contact by researchers. Citation: J Am Med Inform Assoc. 2018 Sep 1;25(9):1122-1129.

  2. Noppert GA, Brown CS, Chanti-Ketterl M, Hall KS, Newby LK, Cohen HJ, Morey MC. The Impact of Multiple Dimensions of Socioeconomic Status on Physical Functioning Across the Life Course, Gerontology and Geriatric Medicine (Aug 2018) 4:2333721418794021. eCollection 2018 Jan-Dec. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6113730/

  3. John WS, Zhu H, Mannelli P, Schwartz RP, Subramaniam GA, Wu LT. Prevalence, patterns, and correlates of multiple substance use disorders among adult primary care patients. Citation: Drug Alcohol Depend. 2018 Jun 1;187:79-87.

  4. Parker D, Sloane R, Pieper CF, Hall KS, Kraus VB, Kraus WE, Huebner JL, Ilkayeva OR, Bain JR, Newby LK, Cohen HJ, Morey MC. Age-Related Adverse Inflammatory and Metabolic Changes Begin Early in Adulthood, The Journals of Gerontology: Series A, gly121, (May 2018)  https://doi.org/10.1093/gerona/gly121


  1. Schiller HB, Mayr CH, Leuschner G, Strunz M, Staab-Weijnitz C, Preisendörfer S, Eckes B, Moinzadeh P, Krieg T, Schwartz DA, Hatz RA, Behr J, Mann M, Eickelberg O. Deep Proteome Profiling Reveals Common Prevalence of MZB1-Positive Plasma B Cells in Human Lung and Skin Fibrosis. Citation: Am J Respir Crit Care Med. 2017 Nov 15;196(10):1298-1310.

  2. Galarza-Munoz G, Briggs FBS, Evsyukova I, Kennedy EM, Nyanhete T, Wang L, Gregory SG, Garcia-Blanco MA. Human epistatic interaction controls IL7R splicing and increases multiple sclerosis risk. Cell 2017;169:72-84.e13. PMCID: PMC5456452

  3. Hall, KS, Cohen, HJ, Pieper, CF, Fillenbaum, GG, Kraus, WE, Huffman, KM, Cornish, MA, Shiloh, A, Flynn, C, Sloane, R, Newby, LK, and Morey, MC. Physical Performance Across the Adult Life Span: Correlates With Age and Physical Activity. The Journals of Gerontology Series A: Biological Sciences and Medical Sciences 72, no. 4 (April 2017): 572-578.


  1. Garza M, Del Fiol G, Tenenbaum J, Walden A, Zozus M. Evaluating common data models for use with a longitudinal community registryJ Biomed Inform 2016, available online 10/29/2016.

  2. Inoue M, Chen P, Siecinski S, Li Q, Steinman L, Gregory SG, Benner E, Shinohara ML. An interferon-B-resistant and NLRP3 inflammasome-independent subtype of EAE with neuronal damageNat Neurosci 2016 Nov 7. doi: 10.1038/nn.4421. 

  3. Hall, KS, Cohen, HJ, Pieper, CF, Fillenbaum, GG, Kraus, WE, Huffman, KM, Cornish, MA, Shiloh, A, Flynn, C, Sloane, R, Newby, LK, and Morey, MC. Physical Performance Across the Adult Life Span: Correlates With Age and Physical Activity. The journals of gerontology. Series A, Biological sciences and medical sciences (June 29, 2016). PMID   27356977

  4. Wu LT. Zhu H, Swartz MS. Treatment utilization among persons with opioid use disorder in the United States. Drug and Alcohol Dependence. Available online 19 October 2016. http://www.sciencedirect.com/science/article/pii/S0376871616309504

  5. Wu LT, McNeely J, Subramaniam GA, Sharma G, VanVeldhuisen P, Schwartz RP. Corrigendum to “Design of the NIDA clinical trials network validation study of tobacco, alcohol, prescription medications, and substance use/misuse (TAPS) tool” [Contemporary Clinical Trials. 2016 Jul. 19; 50: 90-97]. Contemp Clin Trials. 2016 Sep 22. pii: S1551-7144(16)30285-3. doi: 10.1016/j.cct.2016.09.001. PMID: 27665683.

  6. McNeely J, Wu LT, Subramaniam G, Sharma G, Cathers LA, Svikis D, Sleiter L, Russell L, Nordeck C, Sharma A, O’Grady KE, Bouk LB, Cushing C, King J, Wahle A,  Schwartz RP. Performance of the Tobacco, Alcohol, Prescription Medication, and Other Substance Use (TAPS) Tool for Substance Use Screening in Primary Care PatientsAnn Intern Med. 2016 Sep 6. doi: 10.7326/M16-0317. PMID: 27595276.

  7. Wu LT, McNeely J, Subramaniam GA, Sharma G, VanVeldhuisen P, Schwartz RP. Design of the NIDA clinical trials network validation study of tobacco, alcohol, prescription medications, and substance use/misuse (TAPS) toolContemp Clin Trials. 2016 Sep;50:90-7. doi: 10.1016/j.cct.2016.07.013. PMID: 27444426; PMCID: PMC5035619.

  8. Zhu H, Wu LT. Trends and Correlates of Cannabis-involved Emergency Department Visits: 2004 to 2011J Addict Med. 2016 Aug 29. PMID: 27574753.

  9. Mannelli P, Wu LT. Primary care for opioid use disorderSubst Abuse Rehabil. 2016 Aug 16;7:107-9. doi: 10.2147/SAR.S69715. PMID: 27574479; PMCID: PMC4993411.

  10. Mannelli P, Wu LT. Family substance use screening: less to hide, more to gainIndian J Med Res. 2016 Jun;143(6):682-684. doi: 10.4103/0971-5916.191920. PMID: 27748291.


  1. Halim SA, Neely ML, Pieper KS, Shah Sh, Kraus WE, Hauser ER, Claiff RM, Granger CB, Newby LK. Simultaneous Consideration of Multiple Candidate Protein Biomarkers for Long-Term Risk for Cardiovascular DiseaseCirc Cardiovasc Genet. 2015 Feb;8(1):168-77.  


  1. Hayden KM,  Makeeva OA, Newby LK,  Plassman BL, Markova VV, Dunham A, Romero HR, Melikyan ZA, Germain CM, Welsh-Bohmer KA, Roses A. A Comparison of Neuropsychological Performance Between US and Russia: Preparing for a Global Clinical Trial. Alzheimers Dement. 2014 Nov;10(6):760-8.

  2. Strauss BW, Valentiner EM, Bhattacharya S, Smerek MS, Dunham AA, Newby LK, Miranda ML. Improving population representation through geographic health information systems: mapping the MURDOCK study. Amer J of Trans Res2014, 6.4:402-412.

  3. Romero HR, Welsh-Bohmer KA, Gwyther LP, Edmonds HL, Plassma B, Germain C, McCart M, Hayden KM, Pieper C, Roses AD. Community engagement in diverse populations for Alzheimer’s disease prevention trialsAlzheimer Dis Assoc Disord. 2014 Jul-Sep;28(3):269-74.


  1. Batch BC, Shah SH, Newgard CB, Turer CB, Haynes C, Bain JR, Muehlbauer M, Patel MJ, Stevens RD, Appel LJ, Newby LK, Svetkey LP. Branched chain amino acids are novel biomarkers for discrimination of metabolic wellness. Metabolism; 2013 Jul;62(7):961-9.

  2. Evsyukova I, Bradrick SS, Gregory SG, Garcia-Blanco MA. Cleavage and polyadenylation specificity factor 1 (CPSF1) regulates alternative splicing of interleukin 7 receptor (IL7R) exon 6. RNA; 2013 Jan;19(1):103-15. 

  3. Murray JS, Dunson DB, Carin L, Lucas JE. Bayesian Gaussian copula factor models for mixed data. Journal of the American Statistical Association. 2013 108:656-65.

  4. Mayrink VD, Lucas JE. Sparse Latent Factor Models with Interactions: Analysis of Gene Expression DataAnn Appl Stat. 2013;7(2):799–822. DOI: 10.1214/12-AOAS607.

  5. Kraus VB, Feng S, Wang S, White S, Ainslie M, Hellio Le Graverand M, Brett A, Eckstein F, Charles HC. Subchondrial Bone Trabecular Integrity Predicts and Changes Concurrently with Radiographic and MRI Determined Osteoarthritis Progression. Arthritis Rheum. 2013;65(7):1812–21. DOI 10.1002/art.37970


  1. Bhattacharya S, Dunham AA, Cornish MA, Christian VA, Ginsburg GS, Tenenbaum JD, Nahm ML, Miranda ML, Califf RM, Dolor RJ, Newby LK. The Measurement to Understand Reclassification of Disease of Cabarrus/Kannapolis (MURDOCK) Study Community Registry and Biorepository. Amer J Trans Res. 2012;4(4):458-470.

  2. Lucas JE, Thompson JW, Dubois LG, McCarthy JJ, Tillmann H, Thompson A, Shire N, Hendrickson R, Dieguez F, Goldman P, Schwarz K, Patel K, McHutchison JM, Moseley MA. Metaprotein Expression Modeling for Label-Free Quantitative Proteomics. BMC Bioinformatics. 2012, 13:74 doi:10.1186/1471-2105-13-74.

  3. Tenenbaum JD, Christian V, Cornish MA, Dolor RJ, Dunham AA, Ginsburg GS, Kraus VB, McHutchison JG, Nahm ML, Newby LK, Svetkey LP, Udayakumar K, Califf RM. The MURDOCK Study: A long-term initiative for disease reclassification through advanced biomarker discovery and integration with electronic health records. Am J Transl Res. 2012;4(3):291-301.

  4. Kraus VB, Birmingham J, Stabler T, Feng S, Taylor DC, Moorman CT 3rd, Garrett WE, Toth AP. Effects of intraarticular IL1-Ra for acute anterior cruciate ligament knee injury: a randomized controlled pilot trial (NCT00332254). Osteoarthritis Cartilage. 2012 Apr; 20(4): 271-8. 

  5. Heinzen EL, Depondt C, Cavalleri GL, Ruzzo EK, Walley NM, Need AC, Ge D, He M, Cirulli ET, Zhao Q, Cronin KD, Gumbs CE, Campbell CR, Hong LK, Maia JM, Shianna KV, McCormack M, Radtke RA, O’Conner GD, Mikati MA, Gallentine WB, Husain AM, Sinha SR, Chinthapalli K, Puranam RS, McNamara JO, Ottman R, Sisodiya SM, Delanty N, Goldstein RB. Exome Sequencing Followed by Large-Scale Genotyping Fails to Identify Single Rare Variants of Large Effect in Idiopathic Generalized Epilepsy Am J Hum Genet. 2012 Aug; 91(2):293-302.

  6. Rowell J, Thompson A, Guyton JR, Qian LX, McHutchison JG, McCarthy JJ and Patel K. Serum apolipoprotein C-III is independently associated with chronic hepatitis C infection and advanced fibrosis. Hepatol Int. 2011 Jul 7.

  7. Shah SH, Crosslin DR, Haynes CS, Nelson S, Turer CB, Stevens RD, Muehlbauer MJ, Wenner BR, Bain JR, Laferrere B, Gorroochurn P, Teixeira J, Brantley PJ, Stevens VJ, Hollis JF, Appel LJ, Lien LF, Batch B, Newgard CB, Svetkey LP. Branched Chain Amino Acid Levels are Associated with Improvement in Insulin Resistance with Weight LossDiabetologia. 2012 Feb; 55(2):321–30.

  8. Shah SH, Sun J, Stevens RD, Bain JR, Muehlbauer MJ, Pieper KS, Haynes C, Hauser ER, Kraus WE, Granger CB, Newgard CB, Califf RM, Newby LK, for the MURDOCK Horizon 1 Cardiovascular Disease Investigators. Baseline Metabolomic Profiles Predict Cardiovascular Events in Patients at Risk for Coronary Artery Disease. Am Heart J. 2012 May;163(5):844-50.

  9. Shah AA, Craig DM, Sebek JK, Haynes C, Stevens RC, Muehlbauer MJ, Granger CB, Hauser ER, Newby LK, Newgard CB, Kraus WE, Hughes GC, Shah SH. Metabolic Profiles Predict Asverse Events Following Coronary Artery Bypass GraftingJ Thoracic Cardiovasc Surg. 2012 Apr; 143(4):873-8.

  10. Need AC, McEvoy JP, Gennarelli M, Heinzen EL, Ge D, Maia JM, Shianna KV, He M, Cirulli ET,  Gumbs CE, Zhao Q, Campbell CR, Hong L, Rosenquist P, Putkonen A, Hallikainen T, Repo-Tiihonen E, Tiihonen J, Levy DL, Meltzer HY, Goldstein DB. Exome Sequencing Followed by Large-Scale Genotyping Suggests a Limited Role for Moderately Rare Risk Factors of Strong Effect in Schizophrenia. Am J Hum Genet. 2012 Aug; 91(2):303-312.

  11. Catterall JB, Hsueh MF, Stabler TV, Feng S, McCudden CF, Bolognesi M,  Zuru R, Jordan JM, Renner JB, Kraus VB. Protein Modification by Deamidation Indicates Variations in Joint Extracellular Matrix Turnover. J Biol Chem. 2012 Feb. 10;287(7):4640-51. Epub 2011 Dec 16 PubMed: 22179616, PMC3281605

  12. Need, A., Shashi, V., Hitomi, Y., Schoch, K. Shianna, K. McDonald, M., Meisler, M., Goldstein, D. Clinical application of exome sequencing in undiagnosed genetic conditions. Citation: J Med Genet. 2012 Jun; 49(6): 353-361


  1. Cyr D, Lucas JE, Thompson JW, Patel D, Thompson A, Tillmann H, Clark PJ, Moseley MA, McHutchison JG, McCarthy JJ. Characterization of serum proteins associated with IL28B genotype among patients with chronic hepatitis C. PLoS One. 2011;6(7):e21854.

  2. Patel K, Lucas J, Thompson JW, Dubois LG, Tillmann H, Thompson A, Uzarski D, Califf RM, Moseley MA, Ginsburg GS, McHutchison JG, McCarthy JJ. High Predictive Accuracy of an Unbiased Proteomic Profile for Sustained Virologic Response in Chronic Hepatitis C PatientsHepatology. 2011 Jun; 53(6):1809-18.


  1. Shah SH, Granger CB, Hauser ER, Kraus WE, Sun JL, Pieper K, Nelson CL, DeLong ER, Califf RM, Newby LK, for the MURDOCK Horizon 1 Cardiovascular Disease Investigators. Reclassification of Cardiovascular Risk Using Integrated Clinical and Molecular Biosignatures: Design and Rationale of the MURDOCK Horizon 1 Cardiovascular Disease Study. Am Heart J. 2010 Sep;160(3):371-379.e2.

  2. Shah SH, Sun JL, Piper K, Haynes C, Muehlbauer M, Bain JR, Hauser ER, Kraus WE, Newgard, CB, Granger CB, Califf RM, Newby LK. Insulin-like growth factor binding protein (IGFBP) 2: A novel metabolic biomarker strongly predictive of future cardiovascular events. J Am Coll Cardiol. 2010;55(A97):E914

  3. Li JH, Lao XQ, Tillmann HL, Rowell J, Patel K, Thompson A, Suchindran S, Muir AJ, Guyton JR, Gardner SD, McHutchison JG and McCarthy JJ. Interferon-lambda genotype and low serum low-density lipoprotein cholesterol levels in patients with chronic hepatitis C infection. Hepatology. 2010;51(6): 1904-11. PMID: 20235331.

  4. McCarthy JJ, Li JH, Thompson A, Suchindran S, Lao XQ, Patel K, Tillman HL, Muir AJ and McHutchison JG. Replicated association between an IL28B gene variant and a sustained response to pegylated interferon and ribavirin. Gastroenterology. 2010 Jun;138(7):2307-14. PMID: 20176026.

  5. Johnson CM, Nahm M, Shaw RJ, Dunham A, Newby K, Dolor R, Smerek M, Del Fiol G, Zhang J. Can Prospective Usability Evaluation Predict Data Errors? American Medical Informatics Association (AMIA) Symposium Proceedings, 2010.

  6. Beskow LM, Friedman J, Hardy C, Lin L, Weinfurt KP. Simplifying informed consent for biorepositories: stakeholder perspectivesGenetics in Medicine. 2010 Sep;12(9):567-72.

  7. Beskow LM, Friedman JY, Hardy NC, Lin L, Weinfurt KP (2010) Developing a Simplified Consent Form for Biobanking. PLoS ONE. 2010 Oct;5(10): e13302. doi:10.1371/journal.pone.0013302


  1. Newgard CB, An J, Bain JR, Muehlbauer MJ, Stevens RD, Lien LF, Haqq AM, Shah SH, Arlotto M, Slentz CA, Rochon J. Gallup D, Ilkayeva O, Wenner BR, Yancy WE, Eisenson H, Musante G, Surwit R, Millington DS, Butler MD, Svetkey LP. A Branched-Chain Amino Acid-Related Metabolic Signature that Differentiates Obese and Lean Humans and Contributes to Insulin Resistance. Cell Metabolism. 2009 Apr; 9(4):311-26.

  2. Kraus, VB, S Feng, SC Wang, S White, M Ainslie, A Brett, A Holmes, HC Charles. Trabecular morphometry by fractal signal analysis is a novel marker of osteoarthritis progression. Arthritis Rheum. 2009 Dec; 60(12): 3711-3722.