Scientific Publications

Scientific Publications

Publications Resulting from Work at ORB

Blue arrow indicates ORB employee is a co-author. For all other publications, Ocean Ridge Biosciences is cited as service provider in methods section.


  1. Ghosh S, Taylor A, Chin M, Huang HR, Conery AR, Mertz JA, Salmeron A, Dakle PJ, Mele D, Cote A, Jayaram H, Setser JW, Poy F, Hatzivassiliou G, DeAlmeida-Nagata D, Sandy P, Hatton C, Romero FA, Chiang E, Reimer T, Crawford T,Pardo E, Watson VG, Tsui V, Cochran AG, Zawadzke L, Harmange JC, Audia JE, Bryant BM, Cummings RT, Magnuson SR, Grogan JL, Bellon SF, Albrecht BK, Sims RJ 3rd, Lora JM. Regulatory T Cell Modulation by CBP/EP300 Bromodomain Inhibition. J Biol Chem. 2016 Jun 17;291(25):13014-27. doi: 10.1074/jbc.M115.708560. Epub 2016 Apr 7. PubMed PMID: 27056325; PubMed Central PMCID: PMC4933219.
  2. Hsiao J, Yuan TY, Tsai MS, Lu CY, Lin YC, Lee ML, Lin SW, Chang FC, Liu Pimentel H, Olive C, Coito C, Shen G, Young M, Thorne T, Lawrence M, Magistri M, Faghihi MA, Khorkova O, Wahlestedt C. Upregulation of Haploinsufficient Gene Expression in the Brain by Targeting a Long Non-coding RNA Improves Seizure Phenotype in a Model of Dravet Syndrome. EBioMedicine. 2016 May 13. pii: S2352-3964(16)30194-3. doi: 10.1016/j.ebiom.2016.05.011. [Epub ahead of print] PubMed PMID: 27333023.
  3. Gurram B, Salzman NH, Kaldunski ML, Jia S, Li BU, Stephens M, Sood MR, Hessner MJ. Plasma-induced signatures reveal an extracellular milieu possessing an immunoregulatory bias in treatment-naive paediatric inflammatory bowel disease. Clin Exp Immunol. 2016 Apr;184(1):36-49. doi: 10.1111/cei.12753. Epub 2016 Jan 29. PubMed PMID: 26660358; PubMed Central PMCID: PMC4778097.
  4. Lee EC, Kim H, Ditano J, Manion D, King BL, Strange K. Abnormal Osmotic Avoidance Behavior in C. elegans Is Associated with Increased Hypertonic Stress Resistance and Improved Proteostasis. PLoS One. 2016 Apr 25;11(4):e0154156. doi: 10.1371/journal.pone.0154156. eCollection 2016. PubMed PMID: 27111894; PubMed Central PMCID: PMC4844114.
  5. McGrath JP, Williamson KE, Balasubramanian S, Odate S, Arora S, Hatton C, Edwards TM, O'Brian T, Magnuson S, Stokoe D, Daniels DL, Bryant BM, Trojer P. Pharmacological inhibition of the histone lysine demethylase KDM1A suppresses the growth of multiple acute myeloid leukemia subtypes. Cancer Res. 2016 Feb 2. pii: canres.2333.2015. [Epub ahead of print] PubMed PMID: 26837761.
  6. Snyder-Talkington BN, Dong C, Sargent LM, Porter DW, Staska LM, Hubbs AF, Raese R, McKinney W, Chen BT, Battelli L, Lowry DT, Reynolds SH, Castranova V, Qian Y, Guo NL. mRNAs and miRNAs in whole blood associated with lung hyperplasia, fibrosis, and bronchiolo-alveolar adenoma and adenocarcinoma after multi-walled carbon nanotube inhalation exposure in mice. J Appl Toxicol. 2016 Jan;36(1):161-74. doi: 10.1002/jat.3157. Epub 2015 Apr 29. PubMed PMID: 25926378; PubMed Central PMCID: PMC4418205.
  7. Conery AR, Centore RC, Spillane KL, Follmer NE, Bommi-Reddy A, Hatton C, Bryant BM, Greninger P, Amzallag A, Benes CH, Mertz JA, Sims RJ 3rd. Preclinical anticancer efficacy of BET bromodomain inhibitors is determined by the apoptotic response. Cancer Res. 2016 Jan 12. pii: canres.1458.2015. [Epub ahead of print]PubMed PMID: 26759243.
  8. Conery AR, Centore RC, Neiss A, Keller PJ, Joshi S, Spillane KL, Sandy P, Hatton C, Pardo E, Zawadzke L, Bommi-Reddy A, Gascoigne KE, Bryant BM, Mertz JA, Sims RJ. Bromodomain inhibition of the transcriptional coactivators CBP/EP300 as a therapeutic strategy to target the IRF4 network in multiple myeloma. Elife.2016 Jan 5;5. pii: e10483. doi: 10.7554/eLife.10483. PubMed PMID: 26731516.
  9. Drosatos K, Pollak NM, Pol CJ, Ntziachristos P, Willecke F, Valenti MC, Trent CM, Hu Y, Guo S, Aifantis I, Goldberg IJ. Cardiac Myocyte KLF5 Regulates Ppara Expression and Cardiac Function. Circ Res. 2016 Jan 22;118(2):241-53. doi:10.1161/CIRCRESAHA.115.306383. Epub 2015 Nov 16. PubMed PMID: 26574507.
  10. Simpson MR, Brede G, Johansen J, Johnsen R, Storrø O, Sætrom P, Øien T. Human Breast Milk miRNA, Maternal Probiotic Supplementation and Atopic Dermatitis in Offspring. PLoS One. 2015 Dec 14;10(12):e0143496. doi:10.1371/journal.pone.0143496. eCollection 2015. PubMed PMID: 26657066; PubMed Central PMCID: PMC4682386.
  11. Sharma S, Umar S, Centala A, Eghbali M. Role of miR206 in genistein-induced rescue of pulmonary hypertension in monocrotaline model. J Appl Physiol (1985).2015 Dec 15;119(12):1374-82. doi: 10.1152/japplphysiol.00699.2014. Epub 2015 Oct 15. PubMed PMID: 26472874; PubMed Central PMCID: PMC4683348.
  12. Grant J, Matthewman C, Bianchi L. A Novel Mechanism of pH Buffering in C.elegans Glia: Bicarbonate Transport via the Voltage-Gated ClC Cl- Channel CLH-1. J Neurosci. 2015 Dec 16;35(50):16377-97. doi: 10.1523/JNEUROSCI.3237-15.2015.PubMed PMID: 26674864; PubMed Central PMCID: PMC4679820.
  13. Dvoriantchikova G, Perea-Martinez I, Pappas S, Barry AF, Danek D, Dvoriantchikova X, Pelaez 2, Ivanov D. Molecular Characterization of Notch1 Positive Progenitor Cells in the Developing Retina. PLoS One. 2015 Jun 19;10(6):e0131054. doi: 10.1371/journal.pone.0131054. PMID: 26091508.
  14. Mouillet JF, Mishima T, Paffaro AM, Parks TW, Ziegler JA, Chu T, Sadovsky Y. The expression and post-transcriptional regulation of FSTL1 transcripts in placental trophoblasts. Placenta. 2015 Nov;36(11):1231-8. doi: 10.1016/j.placenta.2015.09.005. Epub 2015 Sep 10. PubMed PMID: 26386648; PubMed Central PMCID: PMC4644452.
  15. Takeda YS, Xu Q. Neuronal Differentiation of Human Mesenchymal Stem Cells Using Exosomes Derived from Differentiating Neuronal Cells. PLoS One. 2015 Aug 6;10(8):e0135111. doi: 10.1371/journal.pone.0135111. eCollection 2015. PubMed PMID: 26248331; PubMed Central PMCID: PMC4527703.
  16. Martinez L, Gomez C, Vazquez-Padron RI. Age-related changes in monocytes exacerbate neointimal hyperplasia after vascular injury. Oncotarget. 2015 Jul10;6(19):17054-64. PubMed PMID: 25965835; PubMed Central PMCID: PMC4627291.
  17. Schyth BD, Bela-Ong DB, Jalali SA, Kristensen LB, Einer-Jensen K, Pedersen FS, Lorenzen N. Two Virus-Induced MicroRNAs Known Only from Teleost Fishes Are Orthologues of MicroRNAs Involved in Cell Cycle Control in Humans. PLoS One. 2015 Jul 24;10(7):e0132434. doi: 10.1371/journal.pone.0132434. eCollection 2015. PubMed PMID: 26207374; PubMed Central PMCID: PMC4514678.
  18. Adi N, Adi J, Cesar L, Kurlansky P, Agatston A, Webster KA. Role of Micro RNA-205 in Promoting Visceral Adiposity of NZ10 Mice with Polygenic Susceptibility for Type 2 Diabetes. J Diabetes Metab. 2015 Jul;6(7). pii: 574. Epub 2015 Jun 27. PubMed PMID: 26664929; PubMed Central PMCID: PMC467128.
  19. Flister MJ, Hoffman MJ, Lemke A, Prisco SZ, Rudemiller N, O'Meara CC, Tsaih SW, Moreno C, Geurts AM, Lazar J, Adhikari N, Hall JL, Jacob HJ. SH2B3 Is a Genetic Determinant of Cardiac Inflammation and Fibrosis. Circ Cardiovasc Genet.2015 Apr;8(2):294-304. doi: 10.1161/CIRCGENETICS.114.000527. Epub 2015 Jan 27.PubMed PMID: 25628389.
  20. Rappa G, Green TM, Karbanová J, Corbeil D, Lorico A. Tetraspanin CD9 determines invasiveness and tumorigenicity of human breast cancer cells. Oncotarget. 2015 Apr 10;6(10):7970-91. PubMed PMID: 25762645; PubMed Central PMCID: PMC4480729.
  21. Krissansen GW, Yang Y, McQueen FM, Leung E, Peek D, Chan YC, Print C, Dalbeth N, Williams M, Fraser AG. Overexpression of miR-595 and miR-1246 in the Sera of Patients with Active Forms of Inflammatory Bowel Disease. Inflamm Bowel Dis. 2015 Mar;21(3):520-30. doi: 10.1097/MIB.0000000000000285. PubMed PMID: 25628040.
  22. Dymacek J, Snyder-Talkington BN, Porter DW, Mercer RR, Wolfarth MG, Castranova V, Qian Y, Guo NL. mRNA and miRNA Regulatory Networks Reflective of Multi-walled Carbon Nanotube-Induced Lung Inflammatory and Fibrotic Pathologies in Mice. Toxicol Sci. 2014 Dec 18. pii: kfu262. [Epub ahead of print] PubMed PMID: 25527334.
  23. Sharma S, Umar S, Potus F, Iorga A, Wong G, Meriwether D, Breuils-Bonnet S, Mai D, Navab K, Ross D, Navab M, Provencher S, Fogelman AM, Bonnet S, Reddy ST, Eghbali M. Apolipoprotein A-I mimetic peptide 4F rescues pulmonary hypertension by inducing microRNA-193-3p. Circulation. 2014 Aug 26;130(9):776-85. Doi: 10.1161/CIRCULATIONAHA.114.007405. Epub 2014 Jun 24. PubMed PMID: 24963038.
  24. Barnette DN, VandeKopple M, Wu Y, Willoughby DA, Lincoln J. RNA-seq analysis to identify novel roles of scleraxis during embryonic mouse heart valve remodeling. PLoS One. 2014 Jul 1;9(7):e101425. doi: 10.1371/journal.pone.0101425. eCollection 2014. PubMed PMID: 24983472.
  25. Weston W, Zayas J, Perez R, George J, Jurecic R. Dynamic equilibrium of heterogeneous and interconvertible multipotent hematopoietic cell subsets. Sci Rep. 2014 Jun 6;4:5199. doi: 10.1038/srep05199. PubMed PMID: 24903657.
  26. Kocerha J, Xu Y, Prucha MS, Zhao D, Chan AW. microRNA-128a dysregulation in transgenic Huntington's disease monkeys. Mol Brain. 2014 Jun 13;7(1):46. doi: 10.1186/1756-6606-7-46. PubMed PMID: 24929669.
  27. Vojtech L, Woo S, Hughes S, Levy C, Ballweber L, Sauteraud RP, Strobl J,Westerberg K, Gottardo R, Tewari M, Hladik F. Exosomes in human semen carry a distinctive repertoire of small non-coding RNAs with potential regulatory functions. Nucleic Acids Res. 2014 May 16. pii: gku347. [Epub ahead of print] PubMed PMID: 24838567.
  28. Gray LT, Vallur AC, Eddy J, Maizels N. G quadruplexes are genomewide targets of transcriptional helicases XPB and XPD. Nat Chem Biol. 2014 Apr;10(4):313-8. doi: 10.1038/nchembio.1475. Epub 2014 Mar 9. PubMed PMID: 24609361.
  29. Ganepola GA, Rutledge JR, Suman P, Yiengpruksawan A, Chang DH. Novel blood-based microRNA biomarker panel for early diagnosis of pancreatic cancer.World J Gastrointest Oncol. 2014 Jan 15;6(1):22-33. PubMed PMID: 24578785.
  30. Shehadeh LA, Sharma S, Pessanha M, Wei JQ, Liu J, Yuan H, Rodrigues CO, Scherr M, Tsinoremas NF, Bishopric NH. MicroRNA-20a constrains p300-driven myocardialangiogenic transcription by direct targeting of p300. PLoS One. 2013 Nov13;8(11):e79133. PubMed PMID: 24236097.
  31. Kocerha J, Liu Y, Willoughby D, Chidamparam K, Benito J, Nelson K, Xu Y, Chi T, Engelhardt H, Moran S, Yang SH, Li SH, Li XJ, Larkin K, Neumann A, Banta H, Yang JJ, Chan AW. Longitudinal transcriptomic dysregulation in the peripheral blood of transgenic Huntington's disease monkeys. BMC Neurosci. 2013 Aug 17; 14 (1):88. PubMed PMID: 23957861.
  32. Surgucheva I, Gunewardena S, Rao HS, Surguchov A. Cell-specific post-transcriptional regulation of γ-synuclein gene by micro-RNAs. PLoS One. 2013 Sep 11;8(9):e73786. doi: 10.1371/journal.pone.0073786. eCollection 2013. PubMed PMID: 24040069.
  33. Delorme-Axford E, Donker RB, Mouillet JF, Chu T, Bayer A, Ouyang Y, Wang T, Stolz DB, Sarkar SN, Morelli AE, Sadovsky Y, Coyne CB. Human placental trophoblasts confer viral resistance to recipient cells. Proc Natl Acad Sci U S A. 2013 Jul 16; 110 (29):12048-53. PubMed PMID: 23818581.
  34. Lee DC, Ruiz CR, Lebson L, Selenica ML, Rizer J, Hunt JB Jr, Rojiani R, Reid P, Kammath S, Nash K, Dickey CA, Gordon M, Morgan D. Aging enhances classical activation but mitigates alternative activation in the central nervous system. Neurobiol Aging. 2013 Jun; 34 (6):1610-20. PubMed PMID: 23481567.
  35. Huk DJ, Hammond HL, Kegechika H, Lincoln J. Increased dietary intake of vitamin A promotes aortic valve calcification in vivo. Arterioscler Thromb Vasc. Biol. 2013 Feb; 33(2):285-93. PubMed PMID: 23202364.
  36. Zhu S, Deng S, Ma Q, Zhang T, Jia C, Zhuo D, Yang F, Wei J, Wang L, Dykxhoorn DM, Hare JM, Goldschmidt-Clermont PJ, Dong C. MicroRNA-10A* and MicroRNA-21 modulate endothelial progenitor cell senescence via suppressing high-mobility group A2. Circ. Res. 2013 Jan 4; 112(1):152-64. PubMed PMID: 23072816.
  37. Needham BD, Carroll SM, Giles DK, Georgiou G, Whiteley M, Trent MS. Modulating the innate immune response by combinatorial engineering of endotoxin. Proc Natl Acad Sci U S A. 2013 Jan 22;110(4):1464-9. doi: 10.1073/pnas.1218080110. Epub 2013 Jan 7. PubMed PMID: 23297218; PubMed Central PMCID: PMC3557076.
  38. Adi NC, Adi JN, Cesar L, Agatston AS, Kurlansky P, Webster KA. Influence of Diet on Visceral Adipose Remodeling in NONcNZO10 Mice With Polygenic Susceptibility for Type 2 Diabetes. Obesity 2012 Oct 20(10):2142-6. PubMed PMID: 22858798.
  39. Sharma S, Liu J, Wei J, Yuan H, Zhang T, Bishopric NH. Repression of miR-142 by p300 and MAPK is required for survival signaling via gp130 during adaptive hypertrophy. EMBO Mol Med. 2012 Jul;4(7):617-32. PubMed PMID: 22367739.
  40. Ricci M, Xu Y, Hammond HL, Willoughby DA, Nathanson L, Rodriguez MM, Vatta M, Lipshultz SE, Lincoln J. Myocardial alternative RNA splicing and gene expression profiling in early stage hypoplastic left heart syndrome. PLoS One. 2012;7(1):e29784. Epub 2012 Jan 27. PubMed PMID: 22299024.
  41. Rappa G, Mercapide J, Lorico A. Spontaneous formation of tumorigenic hybrids between breast cancer and multipotent stromal cells is a source of tumor heterogeneity. Am J Pathol. 2012 Jun;180(6):2504-15. PubMed PMID: 22542847.
  42. Miller BH, Zeier Z, Xi L, Lanz TA, Deng S, Strathmann J, Willoughby D, Kenny PJ, Elsworth JD, Lawrence MS, Roth RH, Edbauer D, Kleimand RJ, Wahlestedt C. MicroRNA-132 dysregulation in schizophrenia has implications for both neurodevelopment and adult brain function. PNAS, 2012 Jan 11.
  43. Wallace AM, Hardigan A, Geraghty P, Salim S, Gaffney A, Thankachen J, Arellanos L, D'Armiento JM, Foronjy RF. Protein Phosphatase 2a (Pp2a) Regulates Innate Immune and Proteolytic Responses to Cigarette Smoke Exposure in the Lung. Toxicol Sci. 2012 Jan 5. [Epub ahead of print] PubMed PMID: 22223484.
  44. Wang H, Bian S, Yang CS. Green tea polyphenol EGCG suppresses lung cancer cell growth through upregulating miR-210 expression caused by stabilizing HIF-1{alpha}. Carcinogenesis. 2011 Dec; 32(12):1881-9. PubMed PMID: 21965273.
  45. Kocerha J, Kouri N, Baker M, Finch N, DeJesus-Hernandez M, Gonzalez J, Chidamparam K, Josephs KA, Boeve BF,Graff-Radford NR, Crook J, Dickson DW, Rademakers R. Altered microRNA expression in frontotemporal lobar degeneration with TDP-43 pathology caused by progranulin mutations. BMC Genomics. 2011 Oct 27;12:527. PubMed PMID: 22032330.
  46. Gowda M, Godder K, Kmieciak M, Worschech A, Ascierto ML, Wang E, Marincola FM, Manjili MH. Distinct signatures of the immune responses in low risk versus high risk neuroblastoma. J Transl Med. 2011 Oct 6;9:170. PubMed PMID: 21978632.
  47. Drosatos K, Drosatos-Tampakaki Z, Khan R, Homma S, Schulze PC, Zannis VI, Goldberg IJ. Inhibition of c-Jun-N-terminal kinase increases cardiac peroxisome proliferator-activated receptor alpha expression and fatty acid oxidation and prevents lipopolysaccharide-induced heart dysfunction. J Biol Chem. 2011 Oct 21;286(42):36331-9. Epub 2011 Aug 26. PubMed PMID: 21873422.
  48. Lemaître V, Dabo AJ, D'Armiento J. Cigarette smoke components induce matrix metalloproteinase-1 in aortic endothelial cells through inhibition of mTOR signaling. Toxicol Sci. 2011 Oct;123(2):542-9. Epub 2011 Jul 8. PubMed PMID:21742783.
  49. Enquobahrie DA, Abetew DF, Sorensen TK, Willoughby D, Chidambaram K, Williams MA. (2011) Placental microRNA expression in pregnancies complicated by preeclampsia. Am J Obstet Gynecol. 204(2):178.e12-21, PMID: 21093846.
  50. Mayor-Lynn K, Toloubeydokhti T, Cruz AC, Chegini N. (2011) Expression profile of microRNAs and mRNAs in human placentas from pregnancies complicated by preeclampsia and preterm labor. Reprod Sci. 18:46-56. PMID: 21079238.
  51. Surgucheva I, Chidambaram K., Willoughby DA, and Surguchov A. (2010) Matrix metalloproteinase 9 expression: new regulatory elements. Journal of Ocular Biology, Disease, and Informatics. DOI: 10.1007/s12177-010-9054-2.
  52. Son N-H, Yu S, Tuinei J, Arai K, Hamai, H, Homma, S, Shulman, GI, Abel, ED, and Goldberg IJ. (2010) PPARγ-induced cardiolipotoxicity in mice is ameliorated by PPARα deficiency despite increases in fatty acid oxidation. J. Clinical Invest. 120:3443-54. PMID: 20852389.
  53. Rappa G, Anzanello F, Lorico A. (2010) Imatinib mesylate enhances the malignant behavior of human breast carcinoma cells. Cancer Chemother Pharmacol. 67:919-26. PMID: 20596710.
  54. Hollander JA, Im H, Amelio AL, Kocerha J, Bali P, Lu Q, Willoughby D, Wahlestedt C, Conkright MD, & Kenny PJ. (2010) Striatal microRNA controls cocaine intake through CREB signaling. Nature 466:197-202. PMID: 20613834.
  55. Khorram O, Han G, Bagherpour R, Magee TR, Desai M, Ross MG, Chaudhri AA, Toloubeydokhti T, and Pearce WJ. (2010) Effect of maternal undernutrition on vascular expression of micro and messenger RNA in newborn and aging offspring. Am. J. Physiol. Regul. Integr. Comp. Physiol. 298: R1366-R1374. PMID: 20200130.
  56. Rappa G, and Lorico A. (2010) Phenotypic characterization of mammosphere-forming cells from the human MA-11 breast carcinoma cell line. Experimental Cell Research 316:1576-86. PMID: 20074564.
  57. D’Armiento JM, et al. (2009) Eosinophil and T cell markers predict functional decline in COPD patients. Respiratory Research 10:113. PMID: 19925666.
  58. Kocerha J, Faghihi MA, Lopez-Toledano MA, Huang J, Ramsey AJ, Caron MG, Sales N, Willoughby D, Elmen J, Hansen HF, Orum H, Kauppinen S, Kenny PJ, Wahlestedt C. (2009) "MicroRNA-219 modulates NMDA receptor-mediated neurobehavioral dysfunction" PNAS, 106:3507-12. PMID: 19196972.
  59. Rabinowits G, Gerçel-Taylor C, Day JM, Taylor DD, Kloecker GH. (2009) Exosomal microRNA: a diagnostic marker for lung cancer. Clin Lung Cancer. 10:42-6. PMID: 19289371.
  60. Rappa G, Fodstad O, and Lorico A, (2008) The stem cell-associated antigen CD133 (Prominin-1) is a Molecular Therapeutic Target for Metastatic Melanoma. Stem Cells, 26:3008-17. PMID: 18802032.
  61. Taylor DD, Gercel-Taylor C. (2008) MicroRNA signatures of tumor-derived exosomes as diagnostic biomarkers of ovarian cancer. Gynecologic Oncology 110:13–21. PMID: 18589210.
  62. Seigel GM, Hackam AS, Ganguly A, Mandell LM, and Gonzalez-Fernandez, F. (2007) Human embryonic and neuronal stem cell markers in retinoblastoma. Molecular Vision, 13:823-832. PMID: 17615543.

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