Loading...
Header Logo
Keywords
Last Name
Institution

Jeffrey A Bailey MD, PhD

TitleAssistant Professor
InstitutionUniversity of Massachusetts Medical School
DepartmentMedicine
AddressUniversity of Massachusetts Medical School
55 Lake Avenue North
Worcester MA 01655
Phone508-856-8034
vCardDownload vCard
    Other Positions
    InstitutionUMMS - School of Medicine
    DepartmentMedicine
    DivisionTransfusion Medicine

    InstitutionUMMS - School of Medicine
    DepartmentPathology

    InstitutionUMMS - Graduate School of Biomedical Sciences
    DepartmentBioinformatics and Computational Biology

    InstitutionUMMS - Graduate School of Biomedical Sciences
    DepartmentImmunology and Virology

    InstitutionUMMS - Graduate School of Biomedical Sciences
    DepartmentInterdisciplinary Graduate Program

    InstitutionUMMS - Graduate School of Biomedical Sciences
    DepartmentMD/PhD Program

    InstitutionUMMS - Programs, Centers and Institutes
    DepartmentBioinformatics and Integrative Biology


    Collapse ORNG Applications 
    Collapse Websites

    Collapse Biography 
    Collapse education and training
    St. Olaf College, Northfield, MN, United StatesBABiology
    Case Western Reserve University School of Medicine, Cleveland, OH, United StatesMD
    Case Western Reserve University School of Medicine, Cleveland, OH, United StatesPHDGenetics

    Collapse Overview 
    Collapse overview

    Jeffrey Bailey graduated from Saint Olaf College (Northfield Minnesota) in 1989 with a B.A. in Biology Suma Cum Laude. He then pursued volunteer work as a science and math teacher in Liberia and Botswana with the United States Peace Corps. He returned to the United States and entered the Medical Scientist Training Program at Case Western Reserve University. He received his PhD in Genetics characterizing and studying segmental duplications within the human genome in the laboratory of Dr. Evan Eichler. His postdoctoral research has focused on the detection and analysis of copy number variation—particularly in relationship to segmental duplications. After receiving his MD in 2005, he completed a residency in Clinical Pathology at Case Medical Center in Cleveland and the Cleveland City-wide Transfusion Medicine Fellowship. In August of 2009, Dr. Bailey joined the faculty as a tenure-track assistant professor in the Program in Bioinformatics and Integrative Biology. He continues to pursue clinical medicine in the Division of Transfusion Medicine. He is Board certified in Clinical Pathology.

    Our overall research focus involves understanding the role of segmental duplication and copy number variation in human infectious disease resistance and immunity. Segmental duplications, blocks of transposed genomic DNA within or between chromosomes, have long been recognized as an important substrate for the evolution of novel genes. As a result of the human genome project, they are now generally recognized as a significant source of copy number variation (variation between normal individuals) that can impact human disease. We are optimizing both experimental and computational approaches for the assessment of copy number variation within the context of several specific diseases. Utilizing technologies such as array comparative genomic hybridization and massively-parallel sequencing we hope to gain novel insight into etiologic and pathogenic mechanisms.

    Major projects in the lab include studies of human variation related to severe malaria, parasite variation in terms of virulence and drug resistance, and endemic Burkitt lymphoma a malaria-related B cell maligancies found at high-prevleance in sub-Saharan Africa. 



    Collapse Rotation Projects

    Rotation projects are available related to malaria and Burkitt lymphoma.  Our projects range from genetic epidemiology to directed genomics studying human, parasite and  tumor.  



    Collapse Post Docs

    The lab is currently looking for motivated postdoctoral scholars with backgrounds in genomics and computational biology.  Please email the PI. 




    Collapse Bibliographic 
    Collapse selected publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
    List All   |   Timeline
    1. Aydemir O, Janko M, Hathaway NJ, Verity R, Mwandagalirwa MK, Tshefu AK, Tessema SK, Marsh PW, Tran A, Reimonn T, Ghani AC, Ghansah A, Juliano JJ, Greenhouse BR, Emch M, Meshnick SR, Bailey JA. Drug Resistance and Population Structure of Plasmodium falciparum Across the Democratic Republic of Congo using high-throughput Molecular Inversion Probes. J Infect Dis. 2018 Apr 28. PMID: 29718283.
      View in: PubMed
    2. Hathaway NJ, Parobek CM, Juliano JJ, Bailey JA. SeekDeep: single-base resolution de novo clustering for amplicon deep sequencing. Nucleic Acids Res. 2018 Feb 28; 46(4):e21. PMID: 29202193.
      View in: PubMed
    3. Verity R, Hathaway NJ, Waltmann A, Doctor SM, Watson OJ, Patel JC, Mwandagalirwa K, Tshefu AK, Bailey JA, Ghani AC, Juliano JJ, Meshnick SR. Plasmodium falciparum genetic variation of var2csa in the Democratic Republic of the Congo. Malar J. 2018 Jan 24; 17(1):46. PMID: 29361940.
      View in: PubMed
    4. Waltmann A, Patel JC, Thwai KL, Hathaway NJ, Parobek CM, Massougbodji A, Fievet N, Bailey JA, Deloron P, Juliano JJ, Ndam NT, Meshnick SR. Matched Placental and Circulating Plasmodium falciparum Parasites are Genetically Homologous at the var2csa ID1-DBL2X Locus by Deep Sequencing. Am J Trop Med Hyg. 2018 Jan; 98(1):77-82. PMID: 29342401.
      View in: PubMed
    5. Miller RH, Hathaway NJ, Kharabora O, Mwandagalirwa K, Tshefu A, Meshnick SR, Taylor SM, Juliano JJ, Stewart VA, Bailey JA. A deep sequencing approach to estimate Plasmodium falciparum complexity of infection (COI) and explore apical membrane antigen 1 diversity. Malar J. 2017 Dec 16; 16(1):490. PMID: 29246158.
      View in: PubMed
    6. Patel JC, Hathaway NJ, Parobek CM, Thwai KL, Madanitsa M, Khairallah C, Kalilani-Phiri L, Mwapasa V, Massougbodji A, Fievet N, Bailey JA, Ter Kuile FO, Deloron P, Engel SM, Taylor SM, Juliano JJ, Tuikue Ndam N, Meshnick SR. Increased risk of low birth weight in women with placental malaria associated with P. falciparum VAR2CSA clade. Sci Rep. 2017 Aug 11; 7(1):7768. PMID: 28801627.
      View in: PubMed
    7. Weinstein R, Haynes S, Zhao Y, Hickson E, Linden J, St Pierre P, Ducharme P, Sulmasy P, Graves M, Bailey JA, Welch L, Simard A, Vauthrin M, Greene M. A liquid calcium+vitamin D3 supplement is effective prophylaxis against hypocalcemic toxicity during apheresis platelet donation. J Clin Apher. 2017 Jun 27. PMID: 28653765.
      View in: PubMed
    8. Ngondi JM, Ishengoma DS, Doctor SM, Thwai KL, Keeler C, Mkude S, Munishi OM, Willilo RA, Lalji S, Kaspar N, Kitojo C, Paxton LA, Hathaway NJ, Bailey JA, Juliano JJ, Meshnick SR, Gutman J. Surveillance for sulfadoxine-pyrimethamine resistant malaria parasites in the Lake and Southern Zones, Tanzania, using pooling and next-generation sequencing. Malar J. 2017 Jun 05; 16(1):236. PMID: 28583119.
      View in: PubMed
    9. Parobek CM, Parr JB, Brazeau NF, Lon C, Chaorattanakawee S, Gosi P, Barnett EJ, Norris LD, Meshnick SR, Spring MD, Lanteri CA, Bailey JA, Saunders DL, Lin JT, Juliano JJ. Partner-Drug Resistance and Population Substructuring of Artemisinin-Resistant Plasmodium falciparum in Cambodia. Genome Biol Evol. 2017 Jun 01; 9(6):1673-1686. PMID: 28854635.
      View in: PubMed
    10. Kaymaz Y, Oduor CI, Yu H, Otieno JA, Ong'echa JM, Moormann AM, Bailey JA. Comprehensive Transcriptome and Mutational Profiling of Endemic Burkitt Lymphoma Reveals EBV Type-Specific Differences. Mol Cancer Res. 2017 05; 15(5):563-576. PMID: 28465297.
      View in: PubMed
    11. Parobek CM, Lin JT, Saunders DL, Barnett EJ, Lon C, Lanteri CA, Balasubramanian S, Brazeau N, DeConti DK, Garba DL, Meshnick SR, Spring MD, Chuor CM, Bailey JA, Juliano JJ. Selective sweep suggests transcriptional regulation may underlie Plasmodium vivax resilience to malaria control measures in Cambodia. Proc Natl Acad Sci U S A. 2016 Dec 13; 113(50):E8096-E8105. PMID: 27911780.
      View in: PubMed
    12. Mann-Salinas EA, Le TD, Shackelford SA, Bailey JA, Stockinger ZT, Spott MA, Wirt MD, Rickard R, Lane IB, Hodgetts T, Cardin S, Remick KN, Gross KR. Evaluation of role 2 (R2) medical resources in the Afghanistan combat theater: Initial review of the joint trauma system R2 registry. J Trauma Acute Care Surg. 2016 Nov; 81(5 Suppl 2 Proceedings of the 2015 Military Health System Research Symposium):S121-S127. PMID: 27120324.
      View in: PubMed
    13. Brazeau NF, Hathaway N, Parobek CM, Lin JT, Bailey JA, Lon C, Saunders DL, Juliano JJ. Longitudinal Pooled Deep Sequencing of the Plasmodium vivax K12 Kelch Gene in Cambodia Reveals a Lack of Selection by Artemisinin. Am J Trop Med Hyg. 2016 Dec 07; 95(6):1409-1412. PMID: 27799638.
      View in: PubMed
    14. Moormann AM, Bailey JA. Malaria - how this parasitic infection aids and abets EBV-associated Burkitt lymphomagenesis. Curr Opin Virol. 2016 Oct; 20:78-84. PMID: 27689909.
      View in: PubMed
    15. Zhao Y, Alexander B, Bailey JA, Welch L, Greene M, Vauthrin M, Mitchell M, Weinstein R. Therapeutic apheresis using a mononuclear cell program to lower the microfilaria burden of a 23-year-old African woman with loiasis. J Clin Apher. 2016 Jun 15. PMID: 27302472.
      View in: PubMed
    16. Lemieux JE, Tran AD, Freimark L, Schaffner SF, Goethert H, Andersen KG, Bazner S, Li A, McGrath G, Sloan L, Vannier E, Milner D, Pritt B, Rosenberg E, Telford S, Bailey JA, Sabeti PC. A global map of genetic diversity in Babesia microti reveals strong population structure and identifies variants associated with clinical relapse. Nat Microbiol. 2016; 1(7):16079. PMID: 27572973.
      View in: PubMed
    17. Buckle G, Maranda L, Skiles J, Ong'echa JM, Foley J, Epstein M, Vik TA, Schroeder A, Lemberger J, Rosmarin A, Remick SC, Bailey JA, Vulule J, Otieno JA, Moormann AM. Factors influencing survival among Kenyan children diagnosed with endemic Burkitt lymphoma between 2003 and 2011: A historical cohort study. Int J Cancer. 2016 Sep 15; 139(6):1231-40. PMID: 27136063.
      View in: PubMed
    18. Zhao Y, Ibrahim H, Bailey JA, Linden J, Hickson E, Haynes S, Greene M, Vauthrin M, Weinstein R. Therapeutic plasma exchange performed in tandem with hemodialysis without supplemental calcium in the apheresis circuit. J Clin Apher. 2016 May 13. PMID: 27172986.
      View in: PubMed
    19. Mitchell TA, Lauer CL, Aden JK, Edwards KD, Bailey JA, White CE, Blackbourne LH, Holcomb JB. Short-Term Outcomes and Complications of Damage Control and Definitive Laparotomy in Deployed Combat Environments: 2002 to 2011. Mil Med. 2016 Mar; 181(3):277-82. PMID: 26926754.
      View in: PubMed
    20. Mideo N, Bailey JA, Hathaway NJ, Ngasala B, Saunders DL, Lon C, Kharabora O, Jamnik A, Balasubramanian S, Björkman A, Mårtensson A, Meshnick SR, Read AF, Juliano JJ. A deep sequencing tool for partitioning clearance rates following antimalarial treatment in polyclonal infections. Evol Med Public Health. 2016 Jan 27; 2016(1):21-36. PMID: 26817485.
      View in: PubMed
    21. Kotwal RS, Howard JT, Orman JA, Tarpey BW, Bailey JA, Champion HR, Mabry RL, Holcomb JB, Gross KR. The Effect of a Golden Hour Policy on the Morbidity and Mortality of Combat Casualties. JAMA Surg. 2016 Jan; 151(1):15-24. PMID: 26422778.
      View in: PubMed
    22. Mitchell TA, Wallum TE, White CE, Sanders KE, Aden JK, Bailey JA, Blackbourne LH, Murray CK. Evaluation of the Effectiveness of the 2008 Postsplenectomy Vaccination Joint Theater Trauma System Clinical Practice Guideline. Mil Med. 2015 Nov; 180(11):1170-7. PMID: 26540709.
      View in: PubMed
    23. Gross KR, Rickard RF, Eastridge BJ, Curtis RA, Witte SM, Shackelford SA, Bailey JA, Kuncir EJ, Paix B, Riley KD, Burrell E, Smith MP, Soliz BA, Remick KN. Review of the Fifth Annual Joint Theater Trauma System Trauma Conference. J Trauma Acute Care Surg. 2015 Oct; 79(4 Suppl 2):S70-4. PMID: 26688877.
      View in: PubMed
    24. Van Treuren W, Ponnusamy L, Brinkerhoff RJ, Gonzalez A, Parobek CM, Juliano JJ, Andreadis TG, Falco RC, Ziegler LB, Hathaway N, Keeler C, Emch M, Bailey JA, Roe RM, Apperson CS, Knight R, Meshnick SR. Variation in the Microbiota of Ixodes Ticks with Regard to Geography, Species, and Sex. Appl Environ Microbiol. 2015 Sep; 81(18):6200-9. PMID: 26150449.
      View in: PubMed
    25. Galera P, Haynes S, Sulmasy P, Bailey JA, Greene M, Vauthrin M, Brettler D, Liebmann J, Mark Madison J, Weinstein R. Physiological measurements corroborate symptomatic improvement after therapeutic leukapheresis in a pregnant woman with chronic myelogenous leukemia. J Clin Apher. 2016 Aug; 31(4):393-7. PMID: 26053950.
      View in: PubMed
    26. Lin JT, Hathaway NJ, Saunders DL, Lon C, Balasubramanian S, Kharabora O, Gosi P, Sriwichai S, Kartchner L, Chuor CM, Satharath P, Lanteri C, Bailey JA, Juliano JJ. Using Amplicon Deep Sequencing to Detect Genetic Signatures of Plasmodium vivax Relapse. J Infect Dis. 2015 Sep 15; 212(6):999-1008. PMID: 25748326.
      View in: PubMed
    27. Mitchell TA, Wallum TE, Becker TE, Aden JK, Bailey JA, Blackbourne LH, White CE. Nonoperative management of splenic injury in combat: 2002-2012. Mil Med. 2015 Mar; 180(3 Suppl):29-32. PMID: 25747627.
      View in: PubMed
    28. Shackelford SA, Fowler M, Schultz K, Summers A, Galvagno SM, Gross KR, Mabry RL, Bailey JA, Kotwal RS, Butler FK. Prehospital pain medication use by U.S. Forces in Afghanistan. Mil Med. 2015 Mar; 180(3):304-9. PMID: 25735021.
      View in: PubMed
    29. Galera P, Martin HC, Welch L, Sulmasy P, Cerny J, Greene M, Vauthrin M, Bailey JA, Weinstein R. Automated red blood cell exchange for acute drug removal in a patient with sirolimus toxicity. J Clin Apher. 2015 Dec; 30(6):367-70. PMID: 25619898.
      View in: PubMed
    30. Weinstein R, Simard A, Ferschke J, Vauthrin M, Bailey JA, Greene M. Prospective surveillance of D- recipients of D+ apheresis platelets: alloimmunization against D is not detected. Transfusion. 2015 Jun; 55(6):1327-30. PMID: 25523100.
      View in: PubMed
    31. Taylor SM, Parobek CM, DeConti DK, Kayentao K, Coulibaly SO, Greenwood BM, Tagbor H, Williams J, Bojang K, Njie F, Desai M, Kariuki S, Gutman J, Mathanga DP, Mårtensson A, Ngasala B, Conrad MD, Rosenthal PJ, Tshefu AK, Moormann AM, Vulule JM, Doumbo OK, Ter Kuile FO, Meshnick SR, Bailey JA, Juliano JJ. Absence of putative artemisinin resistance mutations among Plasmodium falciparum in Sub-Saharan Africa: a molecular epidemiologic study. J Infect Dis. 2015 Mar 1; 211(5):680-8. PMID: 25180240.
      View in: PubMed
    32. Oduor CI, Chelimo K, Ouma C, Mulama DH, Foley J, Vulule J, Bailey JA, Moormann AM. Interleukin-6 and interleukin-10 gene promoter polymorphisms and risk of endemic Burkitt lymphoma. Am J Trop Med Hyg. 2014 Sep; 91(3):649-54. PMID: 25071000.
      View in: PubMed
    33. Parobek CM, Bailey JA, Hathaway NJ, Socheat D, Rogers WO, Juliano JJ. Differing patterns of selection and geospatial genetic diversity within two leading Plasmodium vivax candidate vaccine antigens. PLoS Negl Trop Dis. 2014 Apr; 8(4):e2796. PMID: 24743266.
      View in: PubMed
    34. Simkin AT, Bailey JA, Gao FB, Jensen JD. Inferring the evolutionary history of primate microRNA binding sites: overcoming motif counting biases. Mol Biol Evol. 2014 Jul; 31(7):1894-901. PMID: 24723422.
      View in: PubMed
    35. Kuncir EJ, Olson CM, Bailey JA. Re: It is time to reassess critical care evacuation. J Trauma Acute Care Surg. 2014 Jan; 76(1):250-1. PMID: 24368393.
      View in: PubMed
    36. Bailey JA, Morrison JJ, Rasmussen TE. Military trauma system in Afghanistan: lessons for civil systems? Curr Opin Crit Care. 2013 Dec; 19(6):569-77. PMID: 24240822.
      View in: PubMed
    37. Mulama DH, Bailey JA, Foley J, Chelimo K, Ouma C, Jura WG, Otieno J, Vulule J, Moormann AM. Sickle cell trait is not associated with endemic Burkitt lymphoma: an ethnicity and malaria endemicity-matched case-control study suggests factors controlling EBV may serve as a predictive biomarker for this pediatric cancer. Int J Cancer. 2014 Feb 1; 134(3):645-53. PMID: 23832374.
      View in: PubMed
    38. Mideo N, Kennedy DA, Carlton JM, Bailey JA, Juliano JJ, Read AF. Ahead of the curve: next generation estimators of drug resistance in malaria infections. Trends Parasitol. 2013 Jul; 29(7):321-8. PMID: 23746748.
      View in: PubMed
    39. Aragam NR, Thayer KM, Nge N, Hoffman I, Martinson F, Kamwendo D, Lin FC, Sutherland C, Bailey JA, Juliano JJ. Diversity of T cell epitopes in Plasmodium falciparum circumsporozoite protein likely due to protein-protein interactions. PLoS One. 2013; 8(5):e62427. PMID: 23667476.
      View in: PubMed
    40. Thorson CM, Dubose JJ, Rhee P, Knuth TE, Dorlac WC, Bailey JA, Garcia GD, Ryan ML, Van Haren RM, Proctor KG. Military trauma training at civilian centers: a decade of advancements. J Trauma Acute Care Surg. 2012 Dec; 73(6 Suppl 5):S483-9. PMID: 23192074.
      View in: PubMed
    41. Bailey JA, Mvalo T, Aragam N, Weiser M, Congdon S, Kamwendo D, Martinson F, Hoffman I, Meshnick SR, Juliano JJ. Use of massively parallel pyrosequencing to evaluate the diversity of and selection on Plasmodium falciparum csp T-cell epitopes in Lilongwe, Malawi. J Infect Dis. 2012 Aug 15; 206(4):580-7. PMID: 22551816.
      View in: PubMed
    42. Bailey JA, Eichler EE. Primate segmental duplications: crucibles of evolution, diversity and disease. Nat Rev Genet. 2006 Jul; 7(7):552-64. PMID: 16770338.
      View in: PubMed
    43. Sharp AJ, Locke DP, McGrath SD, Cheng Z, Bailey JA, Vallente RU, Pertz LM, Clark RA, Schwartz S, Segraves R, Oseroff VV, Albertson DG, Pinkel D, Eichler EE. Segmental duplications and copy-number variation in the human genome. Am J Hum Genet. 2005 Jul; 77(1):78-88. PMID: 15918152.
      View in: PubMed
    44. Tuzun E, Sharp AJ, Bailey JA, Kaul R, Morrison VA, Pertz LM, Haugen E, Hayden H, Albertson D, Pinkel D, Olson MV, Eichler EE. Fine-scale structural variation of the human genome. Nat Genet. 2005 Jul; 37(7):727-32. PMID: 15895083.
      View in: PubMed
    45. Hillier LW, Fulton RS, Fulton LA, Graves TA, Pepin KH, Wagner-McPherson C, Layman D, Maas J, Jaeger S, Walker R, Wylie K, Sekhon M, Becker MC, O'Laughlin MD, Schaller ME, Fewell GA, Delehaunty KD, Miner TL, Nash WE, Cordes M, Du H, Sun H, Edwards J, Bradshaw-Cordum H, Ali J, Andrews S, Isak A, Vanbrunt A, Nguyen C, Du F, Lamar B, Courtney L, Kalicki J, Ozersky P, Bielicki L, Scott K, Holmes A, Harkins R, Harris A, Strong CM, Hou S, Tomlinson C, Dauphin-Kohlberg S, Kozlowicz-Reilly A, Leonard S, Rohlfing T, Rock SM, Tin-Wollam AM, Abbott A, Minx P, Maupin R, Strowmatt C, Latreille P, Miller N, Johnson D, Murray J, Woessner JP, Wendl MC, Yang SP, Schultz BR, Wallis JW, Spieth J, Bieri TA, Nelson JO, Berkowicz N, Wohldmann PE, Cook LL, Hickenbotham MT, Eldred J, Williams D, Bedell JA, Mardis ER, Clifton SW, Chissoe SL, Marra MA, Raymond C, Haugen E, Gillett W, Zhou Y, James R, Phelps K, Iadanoto S, Bubb K, Simms E, Levy R, Clendenning J, Kaul R, Kent WJ, Furey TS, Baertsch RA, Brent MR, Keibler E, Flicek P, Bork P, Suyama M, Bailey JA, Portnoy ME, Torrents D, Chinwalla AT, Gish WR, Eddy SR, McPherson JD, Olson MV, Eichler EE, Green ED, Waterston RH, Wilson RK. The DNA sequence of human chromosome 7. Nature. 2003 Jul 10; 424(6945):157-64. PMID: 12853948.
      View in: PubMed
    46. Liu G. Analysis of primate genomic variation reveals a repeat-driven expansion of the human genome. Genome Res. 2003 Mar; 13(3):358-68. PMID: 12618366.
      View in: PubMed
    For assistance with using Profiles, please refer to the online tutorials or contact UMMS Help Desk or call 508-856-8643.
    Bailey's Networks
    Click the "See All" links for more information and interactive visualizations!
    Concepts Expand Description
    _
    Co-Authors Expand Description
    _
    Similar People Expand Description
    _
    Same Department Expand Description
    Physical Neighbors Expand Description
    _