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A method for assessing histone surface accessibility genome-wide.

Marr L, Clark DJ, Hayes JJ.

Methods. 2019 Dec 9. pii: S1046-2023(19)30281-6. doi: 10.1016/j.ymeth.2019.12.002. [Epub ahead of print]


An efficient and novel technology for the extraction of parasite genomic DNA from whole blood or culture.

Clark DJ, Moore CM, Flanagan M, Bocxlaer KV, Piperaki ET, Yardley V, Croft SL, Tyson J, Whitehouse SP, O'Halloran J, Krishna S, Staines HM.

Biotechniques. 2019 Nov 27. doi: 10.2144/btn-2019-0086. [Epub ahead of print]


Trends of Use and Outcomes Associated With Glycoprotein-IIb/IIIa Inhibitors in Patients With Acute Coronary Syndromes Undergoing Percutaneous Coronary Intervention.

Gellatly RM, Connell C, Tan C, Andrianopoulos N, Ajani AE, Clark DJ, Nanayakkara S, Sebastian M, Brennan A, Freeman M, O'Brien J, Selkrig LA, Reid CM, Duffy SJ.

Ann Pharmacother. 2019 Nov 25:1060028019889550. doi: 10.1177/1060028019889550. [Epub ahead of print]


Hinge/floating craniotomy as an alternative technique for cerebral decompression: a scoping review.

Layard Horsfall H, Mohan M, Devi BI, Adeleye AO, Shukla DP, Bhat D, Khan M, Clark DJ, Chari A, Servadei F, Khan T, Rubiano AM, Hutchinson PJ, Kolias AG.

Neurosurg Rev. 2019 Nov 11. doi: 10.1007/s10143-019-01180-7. [Epub ahead of print] Review.


Integrated Proteogenomic Characterization of Clear Cell Renal Cell Carcinoma.

Clark DJ, Dhanasekaran SM, Petralia F, Pan J, Song X, Hu Y, da Veiga Leprevost F, Reva B, Lih TM, Chang HY, Ma W, Huang C, Ricketts CJ, Chen L, Krek A, Li Y, Rykunov D, Li QK, Chen LS, Ozbek U, Vasaikar S, Wu Y, Yoo S, Chowdhury S, Wyczalkowski MA, Ji J, Schnaubelt M, Kong A, Sethuraman S, Avtonomov DM, Ao M, Colaprico A, Cao S, Cho KC, Kalayci S, Ma S, Liu W, Ruggles K, Calinawan A, Gümüş ZH, Geizler D, Kawaler E, Teo GC, Wen B, Zhang Y, Keegan S, Li K, Chen F, Edwards N, Pierorazio PM, Chen XS, Pavlovich CP, Hakimi AA, Brominski G, Hsieh JJ, Antczak A, Omelchenko T, Lubinski J, Wiznerowicz M, Linehan WM, Kinsinger CR, Thiagarajan M, Boja ES, Mesri M, Hiltke T, Robles AI, Rodriguez H, Qian J, Fenyö D, Zhang B, Ding L, Schadt E, Chinnaiyan AM, Zhang Z, Omenn GS, Cieslik M, Chan DW, Nesvizhskii AI, Wang P, Zhang H; Clinical Proteomic Tumor Analysis Consortium.

Cell. 2019 Oct 31;179(4):964-983.e31. doi: 10.1016/j.cell.2019.10.007.


Transient protein accumulation at the center of the T cell antigen-presenting cell interface drives efficient IL-2 secretion.

Clark DJ, McMillan LE, Tan SL, Bellomo G, Massoue C, Thompson H, Mykhaylechko L, Alibhai D, Ruan X, Singleton KL, Du M, Hedges A, Schwartzberg PL, Verkade P, Murphy RF, Wülfing C.

Elife. 2019 Oct 30;8. pii: e45789. doi: 10.7554/eLife.45789.


Association of Body Mass Index and Extreme Obesity With Long-Term Outcomes Following Percutaneous Coronary Intervention.

Biswas S, Andrianopoulos N, Dinh D, Duffy SJ, Lefkovits J, Brennan A, Noaman S, Ajani A, Clark DJ, Freeman M, Oqueli E, Hiew C, Reid CM, Stub D, Chan W.

J Am Heart Assoc. 2019 Nov 5;8(21):e012860. doi: 10.1161/JAHA.119.012860. Epub 2019 Oct 25.


Differential nucleosome spacing in neurons and glia.

Clark SC, Chereji RV, Lee PR, Fields RD, Clark DJ.

Neurosci Lett. 2020 Jan 1;714:134559. doi: 10.1016/j.neulet.2019.134559. Epub 2019 Oct 19.


Emergency neurosurgery for traumatic brain injury: the need for a national and international registry study.

Solla DJF, Quadros DG, Kolias AG, Clark DJ, Hutchinson PJ, Teixeira MJ, Andrade AF, Paiva WS.

Rev Assoc Med Bras (1992). 2019 Sep 12;65(8):1035-1036. doi: 10.1590/1806-9282.65.8.1035. No abstract available.


Accessibility of promoter DNA is not the primary determinant of chromatin-mediated gene regulation.

Chereji RV, Eriksson PR, Ocampo J, Prajapati HK, Clark DJ.

Genome Res. 2019 Dec;29(12):1985-1995. doi: 10.1101/gr.249326.119. Epub 2019 Sep 11.


Impact of Gender and Door-to-Balloon Times on Long-Term Mortality in Patients Presenting With ST-Elevation Myocardial Infarction.

Murphy AC, Yudi MB, Farouque O, Dinh D, Duffy SJ, Brennan A, Reid CM, Andrianopoulos N, Koshy AN, Martin L, Dagan M, Freeman M, Blusztein D, Ajani AE, Clark DJ; Melbourne Interventional Group.

Am J Cardiol. 2019 Sep 15;124(6):833-841. doi: 10.1016/j.amjcard.2019.06.008. Epub 2019 Jun 24.


Interpreting Prefrontal Recruitment During Walking After Stroke: Influence of Individual Differences in Mobility and Cognitive Function.

Chatterjee SA, Fox EJ, Daly JJ, Rose DK, Wu SS, Christou EA, Hawkins KA, Otzel DM, Butera KA, Skinner JW, Clark DJ.

Front Hum Neurosci. 2019 Jun 18;13:194. doi: 10.3389/fnhum.2019.00194. eCollection 2019.


The Impact of Out-of-Hours Presentation on Clinical Outcomes in ST-Elevation Myocardial Infarction.

Biswas S, Brennan A, Duffy SJ, Andrianopoulos N, Chan W, Walton A, Noaman S, Shaw JA, Ajani A, Clark DJ, Freeman M, Hiew C, Oqueli E, Lefkovits J, Reid CM, Stub D.

Heart Lung Circ. 2019 Jun 22. pii: S1443-9506(19)31320-4. doi: 10.1016/j.hlc.2019.05.184. [Epub ahead of print]


A Perspective on Objective Measurement of the Perceived Challenge of Walking.

Chatterjee SA, Rose DK, Porges EC, Otzel DM, Clark DJ.

Front Hum Neurosci. 2019 May 14;13:161. doi: 10.3389/fnhum.2019.00161. eCollection 2019.


Assessment of backward walking unmasks mobility impairments in post-stroke community ambulators.

Hawkins KA, Balasubramanian CK, Vistamehr A, Conroy C, Rose DK, Clark DJ, Fox EJ.

Top Stroke Rehabil. 2019 Jul;26(5):382-388. doi: 10.1080/10749357.2019.1609182. Epub 2019 May 12.


Trends and predictors of recurrent acute coronary syndrome hospitalizations and unplanned revascularization after index acute myocardial infarction treated with percutaneous coronary intervention.

Yudi MB, Clark DJ, Farouque O, Andrianopoulos N, Ajani AE, Brennan A, Lefkovits J, Freeman M, Hiew C, Selkrig LA, O'Brien J, Dart AM, Reid CM, Duffy SJ; Melbourne Interventional Group.

Am Heart J. 2019 Jun;212:134-143. doi: 10.1016/j.ahj.2019.02.013. Epub 2019 Mar 5.


Plasma endothelin-1 and adrenomedullin are associated with coronary artery function and cardiovascular outcomes in humans.

Theuerle J, Farouque O, Vasanthakumar S, Patel SK, Burrell LM, Clark DJ, Al-Fiadh AH.

Int J Cardiol. 2019 Sep 15;291:168-172. doi: 10.1016/j.ijcard.2019.04.008. Epub 2019 Apr 2.


Trauma demography and clinical epidemiology of motorcycle crash-related head injury in a neurosurgery practice in an African developing country.

Adeleye AO, Clark DJ, Malomo TA.

Traffic Inj Prev. 2019;20(2):211-215. doi: 10.1080/15389588.2018.1553085. Epub 2019 Apr 4.


Simple Tip-Based Sample Processing Method for Urinary Proteomic Analysis.

Clark DJ, Hu Y, Schnaubelt M, Fu Y, Ponce S, Chen SY, Zhou Y, Shah P, Zhang H.

Anal Chem. 2019 May 7;91(9):5517-5522. doi: 10.1021/acs.analchem.8b05234. Epub 2019 Apr 8.


Pre-treatment with microRNA-181a Antagomir Prevents Loss of Parvalbumin Expression and Preserves Novel Object Recognition Following Mild Traumatic Brain Injury.

Griffiths BB, Sahbaie P, Rao A, Arvola O, Xu L, Liang D, Ouyang Y, Clark DJ, Giffard RG, Stary CM.

Neuromolecular Med. 2019 Jun;21(2):170-181. doi: 10.1007/s12017-019-08532-y. Epub 2019 Mar 21.


One-Year Outcomes of Patients With Established Coronary Artery Disease Presenting With Acute Coronary Syndromes.

Murphy A, Hamilton G, Andrianopoulos N, Yudi MB, Farouque O, Duffy SJ, Lefkovits J, Brennan A, Reid CM, Ajani AE, Clark DJ; Melbourne Interventional Group.

Am J Cardiol. 2019 May 1;123(9):1387-1392. doi: 10.1016/j.amjcard.2019.01.037. Epub 2019 Feb 7.


tRNA Genes Affect Chromosome Structure and Function via Local Effects.

Hamdani O, Dhillon N, Hsieh TS, Fujita T, Ocampo J, Kirkland JG, Lawrimore J, Kobayashi TJ, Friedman B, Fulton D, Wu KY, Chereji RV, Oki M, Bloom K, Clark DJ, Rando OJ, Kamakaka RT.

Mol Cell Biol. 2019 Apr 2;39(8). pii: e00432-18. doi: 10.1128/MCB.00432-18. Print 2019 Apr 15.


Contrasting roles of the RSC and ISW1/CHD1 chromatin remodelers in RNA polymerase II elongation and termination.

Ocampo J, Chereji RV, Eriksson PR, Clark DJ.

Genome Res. 2019 Mar;29(3):407-417. doi: 10.1101/gr.242032.118. Epub 2019 Jan 25.


Impact of Socioeconomic Status on Clinical Outcomes in Patients With ST-Segment-Elevation Myocardial Infarction.

Biswas S, Andrianopoulos N, Duffy SJ, Lefkovits J, Brennan A, Walton A, Chan W, Noaman S, Shaw JA, Ajani A, Clark DJ, Freeman M, Hiew C, Oqueli E, Reid CM, Stub D.

Circ Cardiovasc Qual Outcomes. 2019 Jan;12(1):e004979. doi: 10.1161/CIRCOUTCOMES.118.004979.


N-Linked Glycosylation-Dependent and -Independent Mechanisms Regulating CTRP12 Cleavage, Secretion, and Stability.

Stewart AN, Tan SY, Clark DJ, Zhang H, Wong GW.

Biochemistry. 2019 Feb 12;58(6):727-741. doi: 10.1021/acs.biochem.8b00528. Epub 2019 Jan 4.


Single-Molecule Analysis Reveals Linked Cycles of RSC Chromatin Remodeling and Ace1p Transcription Factor Binding in Yeast.

Mehta GD, Ball DA, Eriksson PR, Chereji RV, Clark DJ, McNally JG, Karpova TS.

Mol Cell. 2018 Dec 6;72(5):875-887.e9. doi: 10.1016/j.molcel.2018.09.009. Epub 2018 Oct 11.


Mobility Function and Recovery After Stroke: Preliminary Insights From Sympathetic Nervous System Activity.

Chatterjee SA, Daly JJ, Porges EC, Fox EJ, Rose DK, McGuirk TE, Otzel DM, Butera KA, Clark DJ.

J Neurol Phys Ther. 2018 Oct;42(4):224-232. doi: 10.1097/NPT.0000000000000238.


Does the subtype of acute coronary syndrome treated by percutaneous coronary intervention predict long-term clinical outcomes?

Biswas S, Andrianopoulos N, Papapostolou S, Noaman S, Duffy SJ, Lefkovits J, Brennan A, Walton A, Shaw JA, Ajani A, Clark DJ, Freeman M, Hiew C, Oqueli E, Reid CM, Stub D, Chan W.

Eur Heart J Qual Care Clin Outcomes. 2018 Oct 1;4(4):318-327. doi: 10.1093/ehjqcco/qcy009.


Heart Rate as a Predictor of Outcome Following Percutaneous Coronary Intervention.

O'Brien J, Reid CM, Andrianopoulos N, Ajani AE, Clark DJ, Krum H, Loane P, Freeman M, Sebastian M, Brennan AL, Shaw J, Dart AM, Duffy SJ; Melbourne Interventional Group Investigators.

Am J Cardiol. 2018 Oct 1;122(7):1113-1120. doi: 10.1016/j.amjcard.2018.06.042. Epub 2018 Jul 4.


Feasibility of using ultra-low pulse rate fluoroscopy during routine diagnostic coronary angiography.

Badawy MK, Scott M, Farouque O, Horrigan M, Clark DJ, Chan RK.

J Med Radiat Sci. 2018 Dec;65(4):252-258. doi: 10.1002/jmrs.293. Epub 2018 Jul 16.


Reproducible workflow for multiplexed deep-scale proteome and phosphoproteome analysis of tumor tissues by liquid chromatography-mass spectrometry.

Mertins P, Tang LC, Krug K, Clark DJ, Gritsenko MA, Chen L, Clauser KR, Clauss TR, Shah P, Gillette MA, Petyuk VA, Thomas SN, Mani DR, Mundt F, Moore RJ, Hu Y, Zhao R, Schnaubelt M, Keshishian H, Monroe ME, Zhang Z, Udeshi ND, Mani D, Davies SR, Townsend RR, Chan DW, Smith RD, Zhang H, Liu T, Carr SA.

Nat Protoc. 2018 Jul;13(7):1632-1661. doi: 10.1038/s41596-018-0006-9.


Addressing limitations of the Gait Variability Index to enhance its applicability: The enhanced GVI (EGVI).

Gouelle A, Rennie L, Clark DJ, Mégrot F, Balasubramanian CK.

PLoS One. 2018 Jun 1;13(6):e0198267. doi: 10.1371/journal.pone.0198267. eCollection 2018.


SWI/SNF and RSC cooperate to reposition and evict promoter nucleosomes at highly expressed genes in yeast.

Rawal Y, Chereji RV, Qiu H, Ananthakrishnan S, Govind CK, Clark DJ, Hinnebusch AG.

Genes Dev. 2018 May 1;32(9-10):695-710. doi: 10.1101/gad.312850.118. Epub 2018 May 21.


Reanalysis of Global Proteomic and Phosphoproteomic Data Identified a Large Number of Glycopeptides.

Hu Y, Shah P, Clark DJ, Ao M, Zhang H.

Anal Chem. 2018 Jul 3;90(13):8065-8071. doi: 10.1021/acs.analchem.8b01137. Epub 2018 Jun 11.


Dynamic balance during walking adaptability tasks in individuals post-stroke.

Vistamehr A, Balasubramanian CK, Clark DJ, Neptune RR, Fox EJ.

J Biomech. 2018 Jun 6;74:106-115. doi: 10.1016/j.jbiomech.2018.04.029. Epub 2018 Apr 24.


Evaluation of NCI-7 Cell Line Panel as a Reference Material for Clinical Proteomics.

Clark DJ, Hu Y, Bocik W, Chen L, Schnaubelt M, Roberts R, Shah P, Whiteley G, Zhang H.

J Proteome Res. 2018 Jun 1;17(6):2205-2215. doi: 10.1021/acs.jproteome.8b00165. Epub 2018 May 8.


SPT6 interacts with NSD2 and facilitates interferon-induced transcription.

Ouda R, Sarai N, Nehru V, Patel MC, Debrosse M, Bachu M, Chereji RV, Eriksson PR, Clark DJ, Ozato K.

FEBS Lett. 2018 May;592(10):1681-1692. doi: 10.1002/1873-3468.13069. Epub 2018 May 20.


Gcn4 Binding in Coding Regions Can Activate Internal and Canonical 5' Promoters in Yeast.

Rawal Y, Chereji RV, Valabhoju V, Qiu H, Ocampo J, Clark DJ, Hinnebusch AG.

Mol Cell. 2018 Apr 19;70(2):297-311.e4. doi: 10.1016/j.molcel.2018.03.007. Epub 2018 Apr 5.


Major Determinants of Nucleosome Positioning.

Chereji RV, Clark DJ.

Biophys J. 2018 May 22;114(10):2279-2289. doi: 10.1016/j.bpj.2018.03.015. Epub 2018 Apr 6. Review.


The current landscape of nucleic acid tests for filovirus detection.

Clark DJ, Tyson J, Sails AD, Krishna S, Staines HM.

J Clin Virol. 2018 Jun;103:27-36. doi: 10.1016/j.jcv.2018.03.005. Epub 2018 Mar 22. Review.


Prefrontal over-activation during walking in people with mobility deficits: Interpretation and functional implications.

Hawkins KA, Fox EJ, Daly JJ, Rose DK, Christou EA, McGuirk TE, Otzel DM, Butera KA, Chatterjee SA, Clark DJ.

Hum Mov Sci. 2018 Jun;59:46-55. doi: 10.1016/j.humov.2018.03.010. Epub 2018 Mar 29.


The Establishment of the Victorian Cardiac Outcomes Registry (VCOR): Monitoring and Optimising Outcomes for Cardiac Patients in Victoria.

Stub D, Lefkovits J, Brennan AL, Dinh D, Brien R, Duffy SJ, Cox N, Nadurata V, Clark DJ, Andrianopoulos N, Harper R, McNeil J, Reid CM; VCOR Steering Committee.

Heart Lung Circ. 2018 Apr;27(4):451-463. doi: 10.1016/j.hlc.2017.07.013. Epub 2017 Oct 12.


A Backward Walking Training Program to Improve Balance and Mobility in Acute Stroke: A Pilot Randomized Controlled Trial.

Rose DK, DeMark L, Fox EJ, Clark DJ, Wludyka P.

J Neurol Phys Ther. 2018 Jan;42(1):12-21. doi: 10.1097/NPT.0000000000000210.


An Improved Quadrant Class II Composite Technique.

Clark DJ.

Dent Today. 2017 May;36(5):99-101. No abstract available.


Sympathetic nervous system activity measured by skin conductance quantifies the challenge of walking adaptability tasks after stroke.

Clark DJ, Chatterjee SA, McGuirk TE, Porges EC, Fox EJ, Balasubramanian CK.

Gait Posture. 2018 Feb;60:148-153. doi: 10.1016/j.gaitpost.2017.11.025. Epub 2017 Dec 1.


Australian Trends in Procedural Characteristics and Outcomes in Patients Undergoing Percutaneous Coronary Intervention for ST-Elevation Myocardial Infarction.

Biswas S, Duffy SJ, Lefkovits J, Andrianopoulos N, Brennan A, Walton A, Chan W, Noaman S, Shaw JA, Dawson L, Ajani A, Clark DJ, Freeman M, Hiew C, Oqueli E, Reid CM, Stub D.

Am J Cardiol. 2018 Feb 1;121(3):279-288. doi: 10.1016/j.amjcard.2017.10.025. Epub 2017 Oct 31.


Utility of the ACC/AHA lesion classification as a predictor of procedural, 30-day and 12-month outcomes in the contemporary percutaneous coronary intervention era.

Theuerle J, Yudi MB, Farouque O, Andrianopoulos N, Scott P, Ajani AE, Brennan A, Duffy SJ, Reid CM, Clark DJ; Melbourne Interventional Group.

Catheter Cardiovasc Interv. 2018 Sep 1;92(3):E227-E234. doi: 10.1002/ccd.27411. Epub 2017 Nov 15.


Conventional and pioneer modes of glucocorticoid receptor interaction with enhancer chromatin in vivo.

Johnson TA, Chereji RV, Stavreva DA, Morris SA, Hager GL, Clark DJ.

Nucleic Acids Res. 2018 Jan 9;46(1):203-214. doi: 10.1093/nar/gkx1044.


America's Opioid Epidemic: Supply and Demand Considerations.

Clark DJ, Schumacher MA.

Anesth Analg. 2017 Nov;125(5):1667-1674. doi: 10.1213/ANE.0000000000002388. Review.


The prognostic significance of smoking cessation after acute coronary syndromes: an observational, multicentre study from the Melbourne interventional group registry.

Yudi MB, Farouque O, Andrianopoulos N, Ajani AE, Kalten K, Brennan AL, Lefkovits J, Hiew C, Oqueli E, Reid CM, Duffy SJ, Clark DJ; Melbourne Interventional Group.

BMJ Open. 2017 Oct 6;7(10):e016874. doi: 10.1136/bmjopen-2017-016874.

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