Publications

Members of Vondriska lab appear in bold.
  1. Rosa-Garrido M, Chapski DJ, Schmitt AD, Kimball TH, Karbassi E, Monte E, Balderas E, Pellegrini M, Shih TT, Soehalim E, Liem DA, Ping P, Galjart NJ, Ren S, Wang Y, Ren B, Vondriska TM. High resolution mapping of chromatin conformation in cardiac myocytes reveals structural remodeling of the epigenome in heart failure. Circulation. 2017.
  2. Monte E, Fischer MA, Vondriska TM. Epigenomic disruption of cardiovascular care: what it will take. Circ Res. 2017;120:1692-1693.
  3. Chai H, Diaz-Castro B, Shigetomi E, Monte E, Octeau JC, Yu X, Cohn W, Rajendran PS, Vondriska TM, Whitelegge JP, Coppola G, Khakh BS. Neural circuit-specialized astrocytes: transcriptomic, proteomic, morphological and functional evidence. Neuron. 2017;95:531-549.
  4. Wang J, Aboulhosn JA, Hofer IS, Mahajan A, Wang Y, Vondriska TM. Operationalizing precision cardiovascular medicine: three innovations. Circ Res. 2016. 119:984-987. 
  5. Wang Z, Zhang XJ, Ji YX, Zhang P, Den KQ, Gong J, Ren S, Wang X, Chen I, Wang H, Gao C, Yokota T, Ang YS, Li S, Cass A, Vondriska TM, Li G, Deb A, Srivastava D, Yang HT, Xiao X, Li H, Wang Y. The long noncoding RNA Chaer defines an epigenetic checkpoint in cardiac hypertrophy. Nat Med. 2016;22:1131-39.
  6. Franklin S, Kimball T, Rasmussen T, Rosa Garrido M, Chen H, Tran T,  Miller M, Gray R, Jiang S, Ren S, Wang Y, Tucker H, Vondriska TM. The chromatin binding protein Smyd1 restricts adult mammalian heart growth. American Journal of Physiology - Heart and Circulatory Physiology. 2016;311:H1234-47.
  7. Karbassi E, Monte E, Chapski DJ, Lopez R, Rosa Garrido M, Kim J, Wisniewski NA, Rau CD, Wang JJ, Weiss JN, Wang Y, Lusis AJ, Vondriska TM. Relationship of disease-associated gene expression to cardiac phenotype is buffered by genetic diversity and chromatin regulation. Physiological Genomics. 2016. 48:601-615.
  8. Jiang, S, Vondriska, TM. (Agnetti et al. Editors). Sensing and remembering cellular states through chromatin. Manual of Cardiac Proteomics. (2016).
  9. Monte E, Rosa Garrido M, Karbassi E, Chen H, Lopez R, Rau CD, Wang J, Nelson SF, Wu Y, Stefani E, Lusis AJ, Wang Y, Kurdistani SK, Franklin S, Vondriska TM. Reciprocal regulation of the cardiac epigenome by chromatin structural proteins HMBG and CTCF: implications for transcriptional regulation. J Biol Chem. 2016. 291:15428-46.
  10. Monte E, Rosa Garrido M, Vondriska TM, Wang J. Undiscovered physiology of transcript and protein networks. Comprehensive Physiology. 2016;6:1851-1872.
  11. Chen H, Orozco L, Wang J, Rau CD, Rubbi L, Ren S, Wang Y, Pellegrini M, Lusis AJ, Vondriska TM. DNA methylation indicates susceptibility to isoproterenol-induced cardiac pathology and is associated with chromatin states. Circ Res. 2016;118:786-797.
  12. Gao C, Ren S, Lee JH, Qiu J, Chapski DJ, Rau CD, Zhou Y, Abdellatif M, Nakano A, Vondriska TM, Xiao X, Fu XD, Chen JN, Wang Y. REFox1-mediated RNA splicing regulates cardiac hypertrophy and heart failure. J Clin Invest. 2015;126:195-206.
  13. Monte E, Lopez R, Vondriska TM. Not low hanging but still sweet: metabolic proteomes in cardiovascular disease. J Mol Cell Cardiol. 2015;90:70-73.
  14. Vondriska TM. Transcriptome and proteome dynamics in the cardiovascular system. J Physiol. 2015;593:1773-5.
  15. Shimizu H, Schredelseker J, Huang J, Lu K, Naghdi S, Lu F, Franklin S, Fiji HD, Zhu H, Tian C, Lin B, Nakano H, Ehrlich A, Nakai J, Stieg AZ, Gimzewski JK, Nakano A, Goldhaber JI, Vondriska TM, Hajnoczky G, Kwon O, Chen JN. Mitochondrial Ca(2+) uptake by the voltage-dependent anion channel 2 regulates cardiac rhythmicity. Elife. 2015;4. PMID: 25588501
  16. Ren S, Lu G, Ota A, Zhou ZH, Vondriska TM, Lane TF, Wang Y. IRE1 phosphatase PP2Ce regulates adaptive ER stress response in the postpartum mammary gland. PLoS One. 2014;9:e111606. PMID: 25369058
  17. Monte E, Vondriska TM. Epigenomes: the missing heritability in cardiovascular disease? Proteomics ClinicalApplications. 2014; 8:480487.PMID: 24957631
  18. Ubil E, Duan J, Pillai I, Rosa-Garrido M, Wu Y, Lu Y, Bargiacchi F, Rojas M, Vondriska TM, Stefani E, Deb A.Mesenchymal-endothelial transition contributes to neovascularization afterheart injury. Nature. 2014; InPress. PMID: 25317562
  19. Karbassi E, Vondriska TM. How theproteome packages the genome for cardiovascular development. Proteomics.2014; 14:2115-2126. PMID: 25074278
  20. Chapski D, Monte E, Vondriska TM. Positive feedback in cardioprotection: can more mechanism lead to translation? Circ Res. 2014;114:1225-1227. PMID: 24723653
  21. Monte E, Mouillesseaux K, Chen H, Kimball T, Ren S, Wang Y, Chen J-N, Vondriska TM, Franklin S. Systems proteomics of cardiac chromatin identifies nucleolin as a regulator of growth and cellular plasticity in cardiomyocytes. Am J Physiol. 2013; 305:H1624-38. PMID: 24077883
  22. Lu G, Ota A, Ren S, Franklin S, Rau CD, Ping P, Lane TF, Zhou H, Reue K, Lusis AJ, Vondriska TM, Wang Y. PPM1l encodes an inositol requiring protein 1 (IRE1) specific phosphatase that regulates the functional outcome of the ER stress response. Molecular Metabolism. 2013;2:405-416. PMID: 24327956
  23. Chen H, Monte E, Parvatiyar M, Rosa-Garrido M, Franklin S, Vondriska TM. Structural considerations for chromatin state models with transcription as a functional readout. FEBS Lett. 2012. 586:3548-54. PMID: 22940112
  24. Rosa-Garrido M, Karbassi E, Monte E, Vondriska TM. Regulation of chromatin structure in the cardiovascular system. Circ J. 2013;77:1389-98. PMID: 23575346
  25. Chen H, Monte E, Vondriska TM, Franklin S. Systems proteomics of healthy and diseased chromatin. Heart Proteomics: Methods and Protocols. Humana Press; New Jersey, USA (2013); MIMB 1005:77-94. PMID: 23606250
  26. Picha B, Thompson M, Vondriska TM. Preclinical trials: keep "reproducibility" in context. (CommentNature. 2012; 485:41. PMID: 22552083
  27. Monte E, Chen H, Kolmakova M, Parvatiyar M, Vondriska TM, Franklin S. Quantitative analysis of chromatin proteomes in disease. J Vis Exp. 2012;70. PMID: 2329952
  28. Mitchell-Jordan S, Chen H, Franklin S, Stefani E, Bentolila LA, Vondriska TM. Features of endogenous cardiomyocyte chromatin revealed by super resolution STED microscopy. J Mol Cell Cardiol. 2012. 53:552-8. PMID: 22846883
  29. Franklin SChen HMitchell-Jordan SA , Ren S, Wang Y, Vondriska TM . Quantitative analysis of the chromatin proteome in disease reveals remodeling principles and identifies HMGB2 as a regulator of hypertrophic growth. Mol Cell Proteomics. 2012; 11:M111.014258. PMID: 22270000
  30. Franklin SVondriska TM . Genomes, proteomes and the central dogma. Circulation Cardiovasc Genet. 2011; 4:576. PMID: 22010165
  31. Franklin SZhang MJ Chen HPaulsson AK Mitchell-Jordan SA Li Y, Ping P, Vondriska TM . Specialized compartments of cardiac nuclei exhibit distinct proteomic anatomy. Mol Cell Proteomics. 2011; 10.PMID:20807835.
  32. Li Y, Franklin S, Zhang MJ, Vondriska TM . Purification of protein complexes from mammalian cells using a novel streptavidin-binding peptide and hexahistidine tandem tag system: application to Btk. Protein Science. 2011; 20:140-149. PMID:21080425.
  33. Zhang MJ Franklin SLi YWang SRu XMitchell-Jordan SA , Mano H, Stefani E, Ping P, Vondriska TM . Stress signaling by Tec tyrosine kinase in ischemic myocardium. Am J Physiol. 2010; 299:H713–733.PMID: 20543088.
  34. Paulsson AK Franklin SMitchell-Jordan SA , Ren S, Wang Y, Vondriska TM . Post-translational regulation of calsarcin-1 in cardiac pressure overload. J Mol Cell Cardiol. 2010; 48:1206–1214.
  35. Lomenick B, Hao R, Jonai N, Chin RM, Aghajan M, Warburton S, Wang J, Wu RP, Gomez F, Loo JA, Wohlschlegel JAVondriska TM , Pelletier J, Herschman HR, Clardy J, Clarke CF, Huang J. Target identification using drug affinity responsive target stability (DARTS). Proc Natl Acad Sci USA. 2009; 106:21984–21989.
  36. Lu G, Sun H, She P, Youn J-Y, Warburton S, Ping P, Vondriska TM , Cai H, Lynch CJ, Wang Y. Protein phosphatase 2Cm regulates branched chain amino acid catabolism through dephosphorylation of the branched chain a-ketoacid-dehydrogenase complex in mice and cultured cells. J Clin Invest. 2009; 119:1678–1687.
  37. Singh H, Warburton SVondriska TM , Khakh BS. Proteomics to identify proteins interacting with P2X2ligand-gated cation channels. J Vis Exp. 2009; 27:pii 1178.
  38. Mitchell-Jordan SA , Holopainen T, Ren S, Warburton SZhang MWang S, Alitalo K, Wang Y, Vondriska TM . Loss of Bmx non-receptor tyrosine kinase prevents pressure overload-induced cardiac hypertrophy. Circ Res. 2008; 103:1359–1362.
  39. Qu Z, Vondriska TM . Effects of cascade length, kinetics and feedback on signal transduction dynamics in a simplified cascade model. Phys Biol. 2009; 6:16007.
  40. MacLellan WR, Wang Y, Vondriska TM , Weiss JN, Ping P. Proteomic insights into cardiac cell death and survival. Proteomics Clin Appl. 2008; 2:837–844.
  41. Vondriska TM , Wang Y. A new (heat) shocking player in cardiac hypertrophy. Circ Res. 2008; 103:1194–1196.
  42. Yang L, Vondriska TM , Han Z, MacLellan WR, Weiss JN, Qu Z. Deducing topology of protein-protein interaction networks from experimentally measured subnetworks. BMC Bioinformatics. 2008; 9:301.
  43. Warburton S, White MY, Van Eyk JE, Cotter RJ, Ping P, Dunn MJVondriska TM . Cardiovascular Initiative of the Human Proteome Organisation, 5th Workshop October 2007, Seoul, Korea. Proteomics. 2008; 8:924–926.
  44. Gugiu BG, Mouillesseaux K, Duong V, Herzog T, Hekimian A, Koroniak L, Vondriska TM , Watson AD. Protein targets of oxidized phospholipids in endothelial cells. J Lipid Res. 2008; 49:510–520.
  45. Han Z, Vondriska TM , Yang L, MacLellan WR, Weiss JN, Qu Z. Signal transduction network motifs and biological memory. J Theor Biol. 2007; 246:755–761.
  46. Taylor CF, Paton NW, Lilley KS, Binz PA, Julian RK, Jones AR, Zhu W, Apweiler R, Aebersold R, Deutsch EW, Dunn MJ, Heck AJR, Leitner A, Macht M, Mann M, Martens L, Neubert TA, Patterson SD, Ping P, Seymour SL, Souda P, Tsugita A, Vandekerckhove J, Vondriska TM , Whitelegge JP, Wilkins MR, Xenarios I, Yates JR, Hermjakob H. The minimum information about a proteomics experiment (MIAPE). Nat Biotechnol. 2007; 25:887–893.
A PubMed search for "Vondriska TM" collects additional publications from prior to independent career.