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Jonathan D. Wren

TitleAssociate Member
InstitutionOklahoma Medical Research Foundation
DepartmentArthritis and Clinical Immunology
AddressOklahoma City OK
Phone405-372-6989
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    Collapse Bibliographic 
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    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.
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    1. Buckley DA, Jennings EM, Burke NN, Roche M, McInerney V, Wren JD, Finn DP, McHugh PC. Erratum to: The Development of Translational Biomarkers as a Tool for Improving the Understanding, Diagnosis and Treatment of Chronic Neuropathic Pain. Mol Neurobiol. 2017 Jul 01. PMID: 28669124.
      View in: PubMed
    2. Siefert JC, Georgescu C, Wren JD, Koren A, Sansam CL. DNA replication timing during development anticipates transcriptional programs and parallels enhancer activation. Genome Res. 2017 Aug; 27(8):1406-1416. PMID: 28512193.
      View in: PubMed
    3. Unnikrishnan A, Jackson J, Matyi SA, Hadad N, Wronowski B, Georgescu C, Garrett KP, Wren JD, Freeman WM, Richardson A. Role of DNA methylation in the dietary restriction mediated cellular memory. Geroscience. 2017 Jun; 39(3):331-345. PMID: 28477138.
      View in: PubMed
    4. Wren JD, Georgescu C, Giles CB, Hennessey J. Use it or lose it: citations predict the continued online availability of published bioinformatics resources. Nucleic Acids Res. 2017 Apr 20; 45(7):3627-3633. PMID: 28334982.
      View in: PubMed
    5. Arriens C, Wren JD, Munroe ME, Mohan C. Systemic lupus erythematosus biomarkers: the challenging quest. Rheumatology (Oxford). 2017 Apr 01; 56(suppl_1):i32-i45. PMID: 28013203.
      View in: PubMed
    6. Buckley DA, Jennings EM, Burke NN, Roche M, McInerney V, Wren JD, Finn DP, McHugh PC. The Development of Translational Biomarkers as a Tool for Improving the Understanding, Diagnosis and Treatment of Chronic Neuropathic Pain. Mol Neurobiol. 2017 Mar 30. PMID: 28361271.
      View in: PubMed
    7. Tarantini S, Valcarcel-Ares NM, Yabluchanskiy A, Springo Z, Fulop GA, Ashpole N, Gautam T, Giles CB, Wren JD, Sonntag WE, Csiszar A, Ungvari Z. Insulin-like growth factor 1 deficiency exacerbates hypertension-induced cerebral microhemorrhages in mice, mimicking the aging phenotype. Aging Cell. 2017 Jun; 16(3):469-479. PMID: 28295976.
      View in: PubMed
    8. Larabee CM, Desai S, Agasing A, Georgescu C, Wren JD, Axtell RC, Plafker SM. Loss of Nrf2 exacerbates the visual deficits and optic neuritis elicited by experimental autoimmune encephalomyelitis. Mol Vis. 2016; 22:1503-1513. PMID: 28050123.
      View in: PubMed
    9. Tsou PS, Wren JD, Amin MA, Schiopu E, Fox DA, Khanna D, Sawalha AH. Histone Deacetylase 5 Is Overexpressed in Scleroderma Endothelial Cells and Impairs Angiogenesis via Repression of Proangiogenic Factors. Arthritis Rheumatol. 2016 Dec; 68(12):2975-2985. PMID: 27482699.
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    10. Salmon AB, Kim G, Liu C, Wren JD, Georgescu C, Richardson A, Levine RL. Effects of transgenic methionine sulfoxide reductase A (MsrA) expression on lifespan and age-dependent changes in metabolic function in mice. Redox Biol. 2016 Dec; 10:251-256. PMID: 27821326.
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    11. Wren JD, Toby I, Hong H, Nanduri B, Kaundal R, Dozmorov MG, Thakkar S. Proceedings of the 2016 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) Conference. BMC Bioinformatics. 2016 Oct 06; 17(Suppl 13):356. PMID: 27766933.
      View in: PubMed
    12. Stock AJ, Kasus-Jacobi A, Wren JD, Sjoelund VH, Prestwich GD, Pereira HA. The Role of Neutrophil Proteins on the Amyloid Beta-RAGE Axis. PLoS One. 2016; 11(9):e0163330. PMID: 27676391.
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    13. Wren JD. Clinical trial IDs need to be validated prior to publication because hundreds of invalid National Clinical Trial Identifications are regularly entering MEDLINE. Clin Trials. 2017 Feb; 14(1):109. PMID: 27625315.
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    14. Tarantini S, Tucsek Z, Valcarcel-Ares MN, Toth P, Gautam T, Giles CB, Ballabh P, Wei JY, Wren JD, Ashpole NM, Sonntag WE, Ungvari Z, Csiszar A. Circulating IGF-1 deficiency exacerbates hypertension-induced microvascular rarefaction in the mouse hippocampus and retrosplenial cortex: implications for cerebromicrovascular and brain aging. Age (Dordr). 2016 Aug; 38(4):273-289. PMID: 27613724.
      View in: PubMed
    15. Coit P, Dozmorov MG, Merrill JT, McCune WJ, Maksimowicz-McKinnon K, Wren JD, Sawalha AH. Epigenetic Reprogramming in Naive CD4+ T Cells Favoring T Cell Activation and Non-Th1 Effector T Cell Immune Response as an Early Event in Lupus Flares. Arthritis Rheumatol. 2016 Sep; 68(9):2200-9. PMID: 27111767; PMCID: PMC5001909 [Available on 09/01/17].
    16. Tarantini S, Giles CB, Wren JD, Ashpole NM, Valcarcel-Ares MN, Wei JY, Sonntag WE, Ungvari Z, Csiszar A. IGF-1 deficiency in a critical period early in life influences the vascular aging phenotype in mice by altering miRNA-mediated post-transcriptional gene regulation: implications for the developmental origins of health and disease hypothesis. Age (Dordr). 2016 Aug; 38(4):239-258. PMID: 27566308.
      View in: PubMed
    17. Kushwaha G, Dozmorov M, Wren JD, Qiu J, Shi H, Xu D. Hypomethylation coordinates antagonistically with hypermethylation in cancer development: a case study of leukemia. Hum Genomics. 2016 Jul 25; 10 Suppl 2:18. PMID: 27461342; PMCID: PMC4965721.
    18. Hadad N, Masser DR, Logan S, Wronowski B, Mangold CA, Clark N, Otalora L, Unnikrishnan A, Ford MM, Giles CB, Wren JD, Richardson A, Sonntag WE, Stanford DR, Freeman W. Absence of genomic hypomethylation or regulation of cytosine-modifying enzymes with aging in male and female mice. Epigenetics Chromatin. 2016; 9:30. PMID: 27413395; PMCID: PMC4942942.
    19. Wren JD. Bioinformatics programs are 31-fold over-represented among the highest impact scientific papers of the past two decades. Bioinformatics. 2016 Sep 01; 32(17):2686-91. PMID: 27153671.
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    20. Masser DR, Stanford DR, Hadad N, Giles CB, Wren JD, Sonntag WE, Richardson A, Freeman WM. Bisulfite oligonucleotide-capture sequencing for targeted base- and strand-specific absolute 5-methylcytosine quantitation. Age (Dordr). 2016 Jun; 38(3):49. PMID: 27091453; PMCID: PMC5005917 [Available on 06/01/17].
    21. Larabee CM, Hu Y, Desai S, Georgescu C, Wren JD, Axtell RC, Plafker SM. Myelin-specific Th17 cells induce severe relapsing optic neuritis with irreversible loss of retinal ganglion cells in C57BL/6 mice. Mol Vis. 2016; 22:332-41. PMID: 27122964; PMCID: PMC4830397.
    22. Dozmorov MG, Cara LR, Giles CB, Wren JD. GenomeRunner web server: regulatory similarity and differences define the functional impact of SNP sets. Bioinformatics. 2016 Aug 01; 32(15):2256-63. PMID: 27153607; PMCID: PMC4965636 [Available on 08/01/17].
    23. Zhu Y, Tchkonia T, Fuhrmann-Stroissnigg H, Dai HM, Ling YY, Stout MB, Pirtskhalava T, Giorgadze N, Johnson KO, Giles CB, Wren JD, Niedernhofer LJ, Robbins PD, Kirkland JL. Identification of a novel senolytic agent, navitoclax, targeting the Bcl-2 family of anti-apoptotic factors. Aging Cell. 2016 Jun; 15(3):428-35. PMID: 26711051; PMCID: PMC4854923.
    24. Sun C, Molineros JE, Looger LL, Zhou XJ, Kim K, Okada Y, Ma J, Qi YY, Kim-Howard X, Motghare P, Bhattarai K, Adler A, Bang SY, Lee HS, Kim TH, Kang YM, Suh CH, Chung WT, Park YB, Choe JY, Shim SC, Kochi Y, Suzuki A, Kubo M, Sumida T, Yamamoto K, Lee SS, Kim YJ, Han BG, Dozmorov M, Kaufman KM, Wren JD, Harley JB, Shen N, Chua KH, Zhang H, Bae SC, Nath SK. High-density genotyping of immune-related loci identifies new SLE risk variants in individuals with Asian ancestry. Nat Genet. 2016 Mar; 48(3):323-30. PMID: 26808113; PMCID: PMC4767573.
    25. Mangold CA, Masser DR, Stanford DR, Bixler GV, Pisupati A, Giles CB, Wren JD, Ford MM, Sonntag WE, Freeman WM. CNS-wide Sexually Dimorphic Induction of the Major Histocompatibility Complex 1 Pathway With Aging. J Gerontol A Biol Sci Med Sci. 2017 Jan; 72(1):16-29. PMID: 26786204.
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    26. Kim TD, Jin F, Shin S, Oh S, Lightfoot SA, Grande JP, Johnson AJ, van Deursen JM, Wren JD, Janknecht R. Histone demethylase JMJD2A drives prostate tumorigenesis through transcription factor ETV1. J Clin Invest. 2016 Feb; 126(2):706-20. PMID: 26731476; PMCID: PMC4731184.
    27. Feng J, Huang C, Wren JD, Wang DW, Yan J, Zhang J, Sun Y, Han X, Zhang XA. Tetraspanin CD82: a suppressor of solid tumors and a modulator of membrane heterogeneity. Cancer Metastasis Rev. 2015 Dec; 34(4):619-33. PMID: 26335499.
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    28. Coit P, Ognenovski M, Gensterblum E, Maksimowicz-McKinnon K, Wren JD, Sawalha AH. Ethnicity-specific epigenetic variation in naïve CD4+ T cells and the susceptibility to autoimmunity. Epigenetics Chromatin. 2015; 8:49. PMID: 26609326; PMCID: PMC4659164.
    29. Larabee CM, Georgescu C, Wren JD, Plafker SM. Expression profiling of the ubiquitin conjugating enzyme UbcM2 in murine brain reveals modest age-dependent decreases in specific neurons. BMC Neurosci. 2015 Nov 13; 16:76. PMID: 26566974; PMCID: PMC4644300.
    30. Corbin JM, Overcash RF, Wren JD, Coburn A, Tipton GJ, Ezzell JA, McNaughton KK, Fung KM, Kosanke SD, Ruiz-Echevarria MJ. Analysis of TMEFF2 allografts and transgenic mouse models reveals roles in prostate regeneration and cancer. Prostate. 2016 Jan; 76(1):97-113. PMID: 26417683; PMCID: PMC4722803 [Available on 01/01/17].
    31. Dozmorov MG, Adrianto I, Giles CB, Glass E, Glenn SB, Montgomery C, Sivils KL, Olson LE, Iwayama T, Freeman WM, Lessard CJ, Wren JD. Detrimental effects of duplicate reads and low complexity regions on RNA- and ChIP-seq data. BMC Bioinformatics. 2015; 16 Suppl 13:S10. PMID: 26423047; PMCID: PMC4597324.
    32. Wren JD, Thakkar S, Homayouni R, Johann DJ, Dozmorov MG. Proceedings of the 2015 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) Conference. BMC Bioinformatics. 2015; 16 Suppl 13:S1. PMID: 26424691; PMCID: PMC4596983.
    33. Fisch AS, Yerges-Armstrong LM, Backman JD, Wang H, Donnelly P, Ryan KA, Parihar A, Pavlovich MA, Mitchell BD, O'Connell JR, Herzog W, Harman CR, Wren JD, Lewis JP. Genetic Variation in the Platelet Endothelial Aggregation Receptor 1 Gene Results in Endothelial Dysfunction. PLoS One. 2015; 10(9):e0138795. PMID: 26406321; PMCID: PMC4583223.
    34. Iwayama T, Steele C, Yao L, Dozmorov MG, Karamichos D, Wren JD, Olson LE. PDGFRa signaling drives adipose tissue fibrosis by targeting progenitor cell plasticity. Genes Dev. 2015 Jun 01; 29(11):1106-19. PMID: 26019175; PMCID: PMC4470280.
    35. Renauer PA, Saruhan-Direskeneli G, Coit P, Adler A, Aksu K, Keser G, Alibaz-Oner F, Aydin SZ, Kamali S, Inanc M, Carette S, Cuthbertson D, Hoffman GS, Akar S, Onen F, Akkoc N, Khalidi NA, Koening C, Karadag O, Kiraz S, Langford CA, Maksimowicz-McKinnon K, McAlear CA, Ozbalkan Z, Ates A, Karaaslan Y, Duzgun N, Monach PA, Ozer HT, Erken E, Ozturk MA, Yazici A, Cefle A, Onat AM, Kisacik B, Pagnoux C, Kasifoglu T, Seyahi E, Fresko I, Seo P, Sreih AG, Warrington KJ, Ytterberg SR, Cobankara V, Cunninghame-Graham DS, Vyse TJ, Pamuk ON, Tunc SE, Dalkilic E, Bicakcigil M, Yentur SP, Wren JD, Merkel PA, Direskeneli H, Sawalha AH. Identification of Susceptibility Loci in IL6, RPS9/LILRB3, and an Intergenic Locus on Chromosome 21q22 in Takayasu Arteritis in a Genome-Wide Association Study. Arthritis Rheumatol. 2015 May; 67(5):1361-8. PMID: 25604533; PMCID: PMC4414813.
    36. Zhu Y, Tchkonia T, Pirtskhalava T, Gower AC, Ding H, Giorgadze N, Palmer AK, Ikeno Y, Hubbard GB, Lenburg M, O'Hara SP, LaRusso NF, Miller JD, Roos CM, Verzosa GC, LeBrasseur NK, Wren JD, Farr JN, Khosla S, Stout MB, McGowan SJ, Fuhrmann-Stroissnigg H, Gurkar AU, Zhao J, Colangelo D, Dorronsoro A, Ling YY, Barghouthy AS, Navarro DC, Sano T, Robbins PD, Niedernhofer LJ, Kirkland JL. The Achilles' heel of senescent cells: from transcriptome to senolytic drugs. Aging Cell. 2015 Aug; 14(4):644-58. PMID: 25754370; PMCID: PMC4531078.
    37. Gandhapudi SK, Tan C, Marino JH, Taylor AA, Pack CC, Gaikwad J, Van De Wiele CJ, Wren JD, Teague TK. IL-18 acts in synergy with IL-7 to promote ex vivo expansion of T lymphoid progenitor cells. J Immunol. 2015 Apr 15; 194(8):3820-8. PMID: 25780034; PMCID: PMC4536257.
    38. Edgar CE, Terrell DR, Vesely SK, Wren JD, Dozmorov IM, Niewold TB, Brown M, Zhou F, Frank MB, Merrill JT, Kremer Hovinga JA, Lämmle B, James JA, George JN, Farris AD. Ribosomal and immune transcripts associate with relapse in acquired ADAMTS13-deficient thrombotic thrombocytopenic purpura. PLoS One. 2015; 10(2):e0117614. PMID: 25671313; PMCID: PMC4324966.
    39. Toth P, Tarantini S, Springo Z, Tucsek Z, Gautam T, Giles CB, Wren JD, Koller A, Sonntag WE, Csiszar A, Ungvari Z. Aging exacerbates hypertension-induced cerebral microhemorrhages in mice: role of resveratrol treatment in vasoprotection. Aging Cell. 2015 Jun; 14(3):400-8. PMID: 25677910; PMCID: PMC4406669.
    40. Coit P, Yalavarthi S, Ognenovski M, Zhao W, Hasni S, Wren JD, Kaplan MJ, Sawalha AH. Epigenome profiling reveals significant DNA demethylation of interferon signature genes in lupus neutrophils. J Autoimmun. 2015 Apr; 58:59-66. PMID: 25638528; PMCID: PMC4363276.
    41. Hennessey J, Georgescu C, Wren JD. Trends in the production of scientific data analysis resources. BMC Bioinformatics. 2014; 15 Suppl 11:S7. PMID: 25350391; PMCID: PMC4251054.
    42. Wren JD, Dozmorov MG, Burian D, Perkins A, Zhang C, Hoyt P, Kaundal R. Proceedings of the 2014 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) Conference. BMC Bioinformatics. 2014; 15 Suppl 11:I1. PMID: 25350879; PMCID: PMC4251036.
    43. Liu X, Pasula S, Song H, Tessneer KL, Dong Y, Hahn S, Yago T, Brophy ML, Chang B, Cai X, Wu H, McManus J, Ichise H, Georgescu C, Wren JD, Griffin C, Xia L, Srinivasan RS, Chen H. Temporal and spatial regulation of epsin abundance and VEGFR3 signaling are required for lymphatic valve formation and function. Sci Signal. 2014 Oct 14; 7(347):ra97. PMID: 25314967; PMCID: PMC4226761.
    44. Wei Q, Zhang F, Richardson MM, Roy NH, Rodgers W, Liu Y, Zhao W, Fu C, Ding Y, Huang C, Chen Y, Sun Y, Ding L, Hu Y, Ma JX, Boulton ME, Pasula S, Wren JD, Tanaka S, Huang X, Thali M, Hämmerling GJ, Zhang XA. CD82 restrains pathological angiogenesis by altering lipid raft clustering and CD44 trafficking in endothelial cells. Circulation. 2014 Oct 21; 130(17):1493-504. PMID: 25149363; PMCID: PMC4411083.
    45. Masser DR, Bixler GV, Brucklacher RM, Yan H, Giles CB, Wren JD, Sonntag WE, Freeman WM. Hippocampal subregions exhibit both distinct and shared transcriptomic responses to aging and nonneurodegenerative cognitive decline. J Gerontol A Biol Sci Med Sci. 2014 Nov; 69(11):1311-24. PMID: 24994846; PMCID: PMC4271093.
    46. Dozmorov MG, Yang Q, Wu W, Wren J, Suhail MM, Woolley CL, Young DG, Fung KM, Lin HK. Differential effects of selective frankincense (Ru Xiang) essential oil versus non-selective sandalwood (Tan Xiang) essential oil on cultured bladder cancer cells: a microarray and bioinformatics study. Chin Med. 2014; 9:18. PMID: 25006348; PMCID: PMC4086286.
    47. Csiszar A, Gautam T, Sosnowska D, Tarantini S, Banki E, Tucsek Z, Toth P, Losonczy G, Koller A, Reglodi D, Giles CB, Wren JD, Sonntag WE, Ungvari Z. Caloric restriction confers persistent anti-oxidative, pro-angiogenic, and anti-inflammatory effects and promotes anti-aging miRNA expression profile in cerebromicrovascular endothelial cells of aged rats. Am J Physiol Heart Circ Physiol. 2014 Aug 01; 307(3):H292-306. PMID: 24906921; PMCID: PMC4121647.
    48. Tucsek Z, Toth P, Tarantini S, Sosnowska D, Gautam T, Warrington JP, Giles CB, Wren JD, Koller A, Ballabh P, Sonntag WE, Ungvari Z, Csiszar A. Aging exacerbates obesity-induced cerebromicrovascular rarefaction, neurovascular uncoupling, and cognitive decline in mice. J Gerontol A Biol Sci Med Sci. 2014 Nov; 69(11):1339-52. PMID: 24895269; PMCID: PMC4204615.
    49. Towner RA, Wren JD. Prioritizing uncharacterized genes in the search for glioma biomarkers. CNS Oncol. 2014 Mar; 3(2):93-5. PMID: 25055012.
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    50. Dozmorov MG, Wren JD, Alarcón-Riquelme ME. Epigenomic elements enriched in the promoters of autoimmunity susceptibility genes. Epigenetics. 2014 Feb; 9(2):276-85. PMID: 24213554; PMCID: PMC3962538.
    51. Towner RA, Jensen RL, Vaillant B, Colman H, Saunders D, Giles CB, Wren JD. Experimental validation of 5 in-silico predicted glioma biomarkers. Neuro Oncol. 2013 Dec; 15(12):1625-34. PMID: 24158112; PMCID: PMC3829592.
    52. Wren JD, Dozmorov MG, Burian D, Kaundal R, Perkins A, Perkins E, Kupfer DM, Springer GK. Proceedings of the 2013 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) Conference. BMC Bioinformatics. 2013; 14 Suppl 14:S1. PMID: 24267415; PMCID: PMC3851158.
    53. Giles CB, Girija-Devi R, Dozmorov MG, Wren JD. mirCoX: a database of miRNA-mRNA expression correlations derived from RNA-seq meta-analysis. BMC Bioinformatics. 2013; 14 Suppl 14:S17. PMID: 24267917; PMCID: PMC3850996.
    54. Dozmorov MG, Giles CB, Koelsch KA, Wren JD. Systematic classification of non-coding RNAs by epigenomic similarity. BMC Bioinformatics. 2013; 14 Suppl 14:S2. PMID: 24267974; PMCID: PMC3851203.
    55. Lessard CJ, Li H, Adrianto I, Ice JA, Rasmussen A, Grundahl KM, Kelly JA, Dozmorov MG, Miceli-Richard C, Bowman S, Lester S, Eriksson P, Eloranta ML, Brun JG, Gøransson LG, Harboe E, Guthridge JM, Kaufman KM, Kvarnström M, Jazebi H, Cunninghame Graham DS, Grandits ME, Nazmul-Hossain AN, Patel K, Adler AJ, Maier-Moore JS, Farris AD, Brennan MT, Lessard JA, Chodosh J, Gopalakrishnan R, Hefner KS, Houston GD, Huang AJ, Hughes PJ, Lewis DM, Radfar L, Rohrer MD, Stone DU, Wren JD, Vyse TJ, Gaffney PM, James JA, Omdal R, Wahren-Herlenius M, Illei GG, Witte T, Jonsson R, Rischmueller M, Rönnblom L, Nordmark G, Ng WF, Mariette X, Anaya JM, Rhodus NL, Segal BM, Scofield RH, Montgomery CG, Harley JB, Sivils KL. Variants at multiple loci implicated in both innate and adaptive immune responses are associated with Sjögren's syndrome. Nat Genet. 2013 Nov; 45(11):1284-92. PMID: 24097067; PMCID: PMC3867192.
    56. Trevarton AJ, Mann MB, Knapp C, Araki H, Wren JD, Stones-Havas S, Black MA, Print CG. MelanomaDB: A Web Tool for Integrative Analysis of Melanoma Genomic Information to Identify Disease-Associated Molecular Pathways. Front Oncol. 2013; 3:184. PMID: 23875173; PMCID: PMC3712543.
    57. Coit P, Jeffries M, Altorok N, Dozmorov MG, Koelsch KA, Wren JD, Merrill JT, McCune WJ, Sawalha AH. Genome-wide DNA methylation study suggests epigenetic accessibility and transcriptional poising of interferon-regulated genes in naïve CD4+ T cells from lupus patients. J Autoimmun. 2013 Jun; 43:78-84. PMID: 23623029; PMCID: PMC3790645.
    58. Koelsch KA, Wang Y, Maier-Moore JS, Sawalha AH, Wren JD. GFP affects human T cell activation and cytokine production following in vitro stimulation. PLoS One. 2013; 8(4):e50068. PMID: 23577054; PMCID: PMC3618152.
    59. Koelsch KA, Webb R, Jeffries M, Dozmorov MG, Frank MB, Guthridge JM, James JA, Wren JD, Sawalha AH. Functional characterization of the MECP2/IRAK1 lupus risk haplotype in human T cells and a human MECP2 transgenic mouse. J Autoimmun. 2013 Mar; 41:168-74. PMID: 23428850; PMCID: PMC3622940.
    60. Towner RA, Jensen RL, Colman H, Vaillant B, Smith N, Casteel R, Saunders D, Gillespie DL, Silasi-Mansat R, Lupu F, Giles CB, Wren JD. ELTD1, a potential new biomarker for gliomas. Neurosurgery. 2013 Jan; 72(1):77-90; discussion 91. PMID: 23096411; PMCID: PMC3555701.
    61. Wren JD, Dozmorov MG, Burian D, Kaundal R, Bridges S, Kupfer DM. Proceedings of the 2012 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) conference. Introduction. BMC Bioinformatics. 2012; 13 Suppl 15:S1. PMID: 23046182; PMCID: PMC3439718.
    62. Delgado-Vega AM, Dozmorov MG, Quirós MB, Wu YY, Martínez-García B, Kozyrev SV, Frostegård J, Truedsson L, de Ramón E, González-Escribano MF, Ortego-Centeno N, Pons-Estel BA, D'Alfonso S, Sebastiani GD, Witte T, Lauwerys BR, Endreffy E, Kovács L, Vasconcelos C, da Silva BM, Wren JD, Martin J, Castillejo-López C, Alarcón-Riquelme ME. Fine mapping and conditional analysis identify a new mutation in the autoimmunity susceptibility gene BLK that leads to reduced half-life of the BLK protein. Ann Rheum Dis. 2012 Jul; 71(7):1219-26. PMID: 22696686; PMCID: PMC3375585.
    63. Peng H, Bateman A, Valencia A, Wren JD. Bioimage informatics: a new category in Bioinformatics. Bioinformatics. 2012 Apr 15; 28(8):1057. PMID: 22399678; PMCID: PMC3324521.
    64. Clemmensen SN, Bohr CT, Rørvig S, Glenthøj A, Mora-Jensen H, Cramer EP, Jacobsen LC, Larsen MT, Cowland JB, Tanassi JT, Heegaard NH, Wren JD, Silahtaroglu AN, Borregaard N. Olfactomedin 4 defines a subset of human neutrophils. J Leukoc Biol. 2012 Mar; 91(3):495-500. PMID: 22187488; PMCID: PMC3289394.
    65. Dozmorov MG, Cara LR, Giles CB, Wren JD. GenomeRunner: automating genome exploration. Bioinformatics. 2012 Feb 01; 28(3):419-20. PMID: 22155868; PMCID: PMC3268239.
    66. Wren JD, Kupfer DM, Perkins EJ, Bridges S, Winters-Hilt S, Dozmorov MG, Braga-Neto U. Proceedings of the 2011 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) conference. Introduction. BMC Bioinformatics. 2011 Oct 18; 12 Suppl 10:S1. PMID: 22165918; PMCID: PMC3236831.
    67. Dozmorov MG, Wren JD. High-throughput processing and normalization of one-color microarrays for transcriptional meta-analyses. BMC Bioinformatics. 2011 Oct 18; 12 Suppl 10:S2. PMID: 22166002; PMCID: PMC3236842.
    68. Dozmorov MG, Giles CB, Wren JD. Predicting gene ontology from a global meta-analysis of 1-color microarray experiments. BMC Bioinformatics. 2011 Oct 18; 12 Suppl 10:S14. PMID: 22166114; PMCID: PMC3236836.
    69. Lupu C, Zhu H, Popescu NI, Wren JD, Lupu F. Novel protein ADTRP regulates TFPI expression and function in human endothelial cells in normal conditions and in response to androgen. Blood. 2011 Oct 20; 118(16):4463-71. PMID: 21868574; PMCID: PMC3204913.
    70. Wren JD. Question answering systems in biology and medicine--the time is now. Bioinformatics. 2011 Jul 15; 27(14):2025-6. PMID: 21672971.
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    71. Jeffries MA, Dozmorov M, Tang Y, Merrill JT, Wren JD, Sawalha AH. Genome-wide DNA methylation patterns in CD4+ T cells from patients with systemic lupus erythematosus. Epigenetics. 2011 May; 6(5):593-601. PMID: 21436623; PMCID: PMC3121972.
    72. Dozmorov MG, Azzarello JT, Wren JD, Fung KM, Yang Q, Davis JS, Hurst RE, Culkin DJ, Penning TM, Lin HK. Elevated AKR1C3 expression promotes prostate cancer cell survival and prostate cell-mediated endothelial cell tube formation: implications for prostate cancer progression. BMC Cancer. 2010 Dec 06; 10:672. PMID: 21134280; PMCID: PMC3013086.
    73. Wren JD, Kupfer DM, Perkins EJ, Bridges S, Berleant D. Proceedings of the 2010 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) conference. BMC Bioinformatics. 2010 Oct 07; 11 Suppl 6:S1. PMID: 20946592; PMCID: PMC3026356.
    74. Errami M, Sun Z, George AC, Long TC, Skinner MA, Wren JD, Garner HR. Identifying duplicate content using statistically improbable phrases. Bioinformatics. 2010 Jun 01; 26(11):1453-7. PMID: 20472545; PMCID: PMC2872002.
    75. Wren JD, Gusev Y, Isokpehi RD, Berleant D, Braga-Neto U, Wilkins D, Bridges S. Proceedings of the 2009 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) conference. Introduction. BMC Bioinformatics. 2009 Oct 08; 10 Suppl 11:S1. PMID: 19811674; PMCID: PMC3313274.
    76. Daum JR, Wren JD, Daniel JJ, Sivakumar S, McAvoy JN, Potapova TA, Gorbsky GJ. Ska3 is required for spindle checkpoint silencing and the maintenance of chromosome cohesion in mitosis. Curr Biol. 2009 Sep 15; 19(17):1467-72. PMID: 19646878; PMCID: PMC2783354.
    77. Wren JD. A global meta-analysis of microarray expression data to predict unknown gene functions and estimate the literature-data divide. Bioinformatics. 2009 Jul 01; 25(13):1694-701. PMID: 19447786; PMCID: PMC2732319.
    78. Webb R, Wren JD, Jeffries M, Kelly JA, Kaufman KM, Tang Y, Frank MB, Merrill J, Kimberly RP, Edberg JC, Ramsey-Goldman R, Petri M, Reveille JD, Alarcón GS, Vilá LM, Alarcón-Riquelme ME, James JA, Vyse TJ, Moser KL, Gaffney PM, Gilkeson GS, Harley JB, Sawalha AH. Variants within MECP2, a key transcription regulator, are associated with increased susceptibility to lupus and differential gene expression in patients with systemic lupus erythematosus. Arthritis Rheum. 2009 Apr; 60(4):1076-84. PMID: 19333917; PMCID: PMC2734382.
    79. Wren JD, Bateman A. Databases, data tombs and dust in the wind. Bioinformatics. 2008 Oct 01; 24(19):2127-8. PMID: 18819940.
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    80. Wren JD, Wilkins D, Fuscoe JC, Bridges S, Winters-Hilt S, Gusev Y. Proceedings of the 2008 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) Conference. BMC Bioinformatics. 2008 Aug 12; 9 Suppl 9:S1. PMID: 18793454; PMCID: PMC2537572.
    81. Giles CB, Wren JD. Large-scale directional relationship extraction and resolution. BMC Bioinformatics. 2008 Aug 12; 9 Suppl 9:S11. PMID: 18793456; PMCID: PMC2537562.
    82. Wren JD. URL decay in MEDLINE--a 4-year follow-up study. Bioinformatics. 2008 Jun 01; 24(11):1381-5. PMID: 18413326.
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    83. Wang H, Kesinger JW, Zhou Q, Wren JD, Martin G, Turner S, Tang Y, Frank MB, Centola M. Identification and characterization of zebrafish ocular formation genes. Genome. 2008 Mar; 51(3):222-35. PMID: 18356958.
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    84. Errami M, Hicks JM, Fisher W, Trusty D, Wren JD, Long TC, Garner HR. Déjà vu--a study of duplicate citations in Medline. Bioinformatics. 2008 Jan 15; 24(2):243-9. PMID: 18056062.
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    85. Wren JD, Kozak KZ, Johnson KR, Deakyne SJ, Schilling LM, Dellavalle RP. The write position. A survey of perceived contributions to papers based on byline position and number of authors. EMBO Rep. 2007 Nov; 8(11):988-91. PMID: 17972896; PMCID: PMC2247376.
    86. Wilkins D, Gusev Y, Loganantharaj R, Bridges S, Winters-Hilt S, Wren JD. Proceedings of the Fourth Annual Conference of the MidSouth Computational Biology and Bioinformatics Society. BMC Bioinformatics. 2007 Nov 01; 8 Suppl 7:S1. PMID: 18047708; PMCID: PMC2099477.
    87. Wren JD, Wu Y, Guo SW. A system-wide analysis of differentially expressed genes in ectopic and eutopic endometrium. Hum Reprod. 2007 Aug; 22(8):2093-102. PMID: 17562676.
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    88. Burkart MF, Wren JD, Herschkowitz JI, Perou CM, Garner HR. Clustering microarray-derived gene lists through implicit literature relationships. Bioinformatics. 2007 Aug 01; 23(15):1995-2003. PMID: 17537751.
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    89. Garner HR, Hicks J, Wren JD, Errami M. Medline: the knowledge buried therein, its potential, and cost. IEEE Eng Med Biol Mag. 2007 May-Jun; 26(3):73-4. PMID: 17549924.
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    90. Errami M, Wren JD, Hicks JM, Garner HR. eTBLAST: a web server to identify expert reviewers, appropriate journals and similar publications. Nucleic Acids Res. 2007 Jul; 35(Web Server issue):W12-5. PMID: 17452348; PMCID: PMC1933238.
    91. Perez-Iratxeta C, Andrade-Navarro MA, Wren JD. Evolving research trends in bioinformatics. Brief Bioinform. 2007 Mar; 8(2):88-95. PMID: 17077138.
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    92. Wren JD, Gusev Y, Ptitsyn A, Winters-Hilt S. Proceedings of the Third Annual Conference of the MidSouth Computational Biology and Bioinformatics Society. Introduction. BMC Bioinformatics. 2006 Sep 06; 7 Suppl 2:S1. PMID: 17118130; PMCID: PMC1683579.
    93. Wren JD. A scalable machine-learning approach to recognize chemical names within large text databases. BMC Bioinformatics. 2006 Sep 06; 7 Suppl 2:S3. PMID: 17118146; PMCID: PMC1683569.
    94. Wren JD, Johnson KR, Crockett DM, Heilig LF, Schilling LM, Dellavalle RP. Uniform resource locator decay in dermatology journals: author attitudes and preservation practices. Arch Dermatol. 2006 Sep; 142(9):1147-52. PMID: 16983002.
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    95. Wren JD. Theory and reality for software patents: good in concept, not so good in practice. Bioinformatics. 2006 Jul 01; 22(13):1543-5. PMID: 16801635.
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    96. Flood EM, Kumar RS, Shah R, Amos Q, Wren JD, Shohet RV, Garner HR. Melatonin administration does not affect isoproterenol-induced LVH. IEEE Eng Med Biol Mag. 2006 May-Jun; 25(3):84-7. PMID: 16764435.
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    97. Wren JD, Roossinck MJ, Nelson RS, Scheets K, Palmer MW, Melcher U. Plant virus biodiversity and ecology. PLoS Biol. 2006 Mar; 4(3):e80. PMID: 16524342; PMCID: PMC1397904.
    98. Wren JD, Grissom JE, Conway T. E-mail decay rates among corresponding authors in MEDLINE. The ability to communicate with and request materials from authors is being eroded by the expiration of e-mail addresses. EMBO Rep. 2006 Feb; 7(2):122-7. PMID: 16452921; PMCID: PMC1369259.
    99. Wren JD, Conway T. Meta-analysis of published transcriptional and translational fold changes reveals a preference for low-fold inductions. OMICS. 2006; 10(1):15-27. PMID: 16584315.
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    100. Wren JD. Truth, probability, and frameworks. PLoS Med. 2005 Nov; 2(11):e361. PMID: 16288554; PMCID: PMC1297534.
    101. Wren JD, Hildebrand WH, Chandrasekaran S, Melcher U. Markov model recognition and classification of DNA/protein sequences within large text databases. Bioinformatics. 2005 Nov 01; 21(21):4046-53. PMID: 16159926.
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    102. Wren JD, Johnson D, Gruenwald L. Automating genomic data mining via a sequence-based matrix format and associative rule set. BMC Bioinformatics. 2005 Jul 15; 6 Suppl 2:S2. PMID: 16026599; PMCID: PMC1637034.
    103. Xu Z, Patterson TA, Wren JD, Han T, Shi L, Duhart H, Ali SF, Slikker W. A microarray study of MPP+-treated PC12 Cells: Mechanisms of toxicity (MOT) analysis using bioinformatics tools. BMC Bioinformatics. 2005 Jul 15; 6 Suppl 2:S8. PMID: 16026605; PMCID: PMC1637031.
    104. Wren JD, Garner HR. Data-mining analysis suggests an epigenetic pathogenesis for type 2 diabetes. J Biomed Biotechnol. 2005 Jun 30; 2005(2):104-12. PMID: 16046815; PMCID: PMC1184044.
    105. Wren JD. Open access and openly accessible: a study of scientific publications shared via the internet. BMJ. 2005 May 14; 330(7500):1128. PMID: 15827063; PMCID: PMC557897.
    106. Mizumoto N, Hui F, Edelbaum D, Weil MR, Wren JD, Shalhevet D, Matsue H, Liu L, Garner HR, Takashima A. Differential activation profiles of multiple transcription factors during dendritic cell maturation. J Invest Dermatol. 2005 Apr; 124(4):718-24. PMID: 15816829.
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    107. Wren JD, Chang JT, Pustejovsky J, Adar E, Garner HR, Altman RB. Biomedical term mapping databases. Nucleic Acids Res. 2005 Jan 01; 33(Database issue):D289-93. PMID: 15608198; PMCID: PMC540091.
    108. Jennings SF, Ptitsyn AA, Wilkins D, Bruhn RE, Slikker W, Wren JD. Regional societies: fostering competitive research through virtual infrastructures. PLoS Biol. 2004 Dec; 2(12):e372. PMID: 15597114; PMCID: PMC535569.
    109. Wren JD. Extending the mutual information measure to rank inferred literature relationships. BMC Bioinformatics. 2004 Oct 07; 5:145. PMID: 15471547; PMCID: PMC526381.
    110. Wren JD, Yao M, Langer M, Conway T. Simulated annealing of microarray data reduces noise and enables cross-experimental comparisons. DNA Cell Biol. 2004 Oct; 23(10):695-700. PMID: 15585127.
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    111. Schilling LM, Wren JD, Dellavalle RP. Bioinformatics leads charge by publishing more Internet addresses in abstracts than any other journal. Bioinformatics. 2004 Nov 22; 20(17):2903. PMID: 15231533.
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    112. Wren JD. The emerging in-silico scientist: how text-based bioinformatics is bridging biology and artificial intelligence. IEEE Eng Med Biol Mag. 2004 Mar-Apr; 23(2):87-93. PMID: 15264477.
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    113. Wren JD, Garner HR. Shared relationship analysis: ranking set cohesion and commonalities within a literature-derived relationship network. Bioinformatics. 2004 Jan 22; 20(2):191-8. PMID: 14734310.
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    114. Wren JD, Bekeredjian R, Stewart JA, Shohet RV, Garner HR. Knowledge discovery by automated identification and ranking of implicit relationships. Bioinformatics. 2004 Feb 12; 20(3):389-98. PMID: 14960466.
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    115. Wren JD. 404 not found: the stability and persistence of URLs published in MEDLINE. Bioinformatics. 2004 Mar 22; 20(5):668-72. PMID: 15033874.
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    116. Kulkarni AV, Williams NS, Lian Y, Wren JD, Mittelman D, Pertsemlidis A, Garner HR. ARROGANT: an application to manipulate large gene collections. Bioinformatics. 2002 Nov; 18(11):1410-7. PMID: 12424110.
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    117. Wren JD, Mittelman DA, Garner HR. SIGNAL-Sequence Information and GeNomic AnaLysis. Comput Methods Programs Biomed. 2002 May; 68(2):177-81. PMID: 11932033.
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    118. Wren JD, Kulkarni A, Joslin J, Butow RA, Garner HR. Cross-hybridization on PCR-spotted microarrays. IEEE Eng Med Biol Mag. 2002 Mar-Apr; 21(2):71-5. PMID: 12012609.
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