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Parents' awareness of disaster plans in children's early learning settings.

Hashikawa A, Chang M, Sielaff A, Bradin S, Singer DC, Matos-Moreno A, Clark SJ, Kauffman AD, Davis MM.

Am J Disaster Med. 2018 Spring;13(2):85-95. doi: 10.5055/ajdm.2018.0290.


Epigenomics of mammary gland development.

Holliday H, Baker LA, Junankar SR, Clark SJ, Swarbrick A.

Breast Cancer Res. 2018 Sep 3;20(1):100. doi: 10.1186/s13058-018-1031-x. Review.


Virtual monoenergetic reconstruction of contrast-enhanced CT scans of the abdomen and pelvis at 40 keV improves the detection of peritoneal metastatic deposits.

Darras KE, Clark SJ, Kang H, Mohammed MF, Barrett S, Chang SD, Harris AC, Nicolaou S, McLaughlin PD.

Abdom Radiol (NY). 2018 Aug 17. doi: 10.1007/s00261-018-1733-7. [Epub ahead of print]


Evaluation of cross-platform and interlaboratory concordance via consensus modelling of genomic measurements.

Peters TJ, French HJ, Bradford ST, Pidsley R, Stirzaker C, Varinli H, Nair S, Qu W, Song J, Giles KA, Statham AL, Speirs H, Speed TP, Clark SJ.

Bioinformatics. 2018 Aug 1. doi: 10.1093/bioinformatics/bty675. [Epub ahead of print]


Genome-Scale Oscillations in DNA Methylation during Exit from Pluripotency.

Rulands S, Lee HJ, Clark SJ, Angermueller C, Smallwood SA, Krueger F, Mohammed H, Dean W, Nichols J, Rugg-Gunn P, Kelsey G, Stegle O, Simons BD, Reik W.

Cell Syst. 2018 Jul 25;7(1):63-76.e12. doi: 10.1016/j.cels.2018.06.012.


Endoscopic Esophageal Vacuum Therapy: A Novel Therapy for Esophageal Perforations in Pediatric Patients.

Manfredi MA, Clark SJ, Staffa SJ, Ngo PD, Smithers CJ, Hamilton TE, Jennings RW.

J Pediatr Gastroenterol Nutr. 2018 Jun 20. doi: 10.1097/MPG.0000000000002073. [Epub ahead of print]


Hyak mortality monitoring system: innovative sampling and estimation methods - proof of concept by simulation.

Clark SJ, Wakefield J, McCormick T, Ross M.

Glob Health Epidemiol Genom. 2018 Feb 5;3:e3. doi: 10.1017/gheg.2017.15. eCollection 2018.


Guidelines for whole genome bisulphite sequencing of intact and FFPET DNA on the Illumina HiSeq X Ten.

Nair SS, Luu PL, Qu W, Maddugoda M, Huschtscha L, Reddel R, Chenevix-Trench G, Toso M, Kench JG, Horvath LG, Hayes VM, Stricker PD, Hughes TP, White DL, Rasko JEJ, Wong JJ, Clark SJ.

Epigenetics Chromatin. 2018 May 28;11(1):24. doi: 10.1186/s13072-018-0194-0.


Sexual behavior and HIV risk across the life course in rural South Africa: trends and comparisons.

Houle B, Mojola SA, Angotti N, Schatz E, Gómez-Olivé FX, Clark SJ, Williams JR, Kabudula C, Tollman S, Menken J.

AIDS Care. 2018 Nov;30(11):1435-1443. doi: 10.1080/09540121.2018.1468008. Epub 2018 Apr 27.


Endoscopic Electrocautery Incisional Therapy as a Treatment for Refractory Benign Pediatric Esophageal Strictures.

Manfredi MA, Clark SJ, Medford S, Staffa SJ, Ngo PD, Hamilton TE, Smithers CJ, Jennings RW.

J Pediatr Gastroenterol Nutr. 2018 Oct;67(4):464-468. doi: 10.1097/MPG.0000000000002008.


Estimating under-five mortality in space and time in a developing world context.

Wakefield J, Fuglstad GA, Riebler A, Godwin J, Wilson K, Clark SJ.

Stat Methods Med Res. 2018 Jan 1:962280218767988. doi: 10.1177/0962280218767988. [Epub ahead of print]


Enduring epigenetic landmarks define the cancer microenvironment.

Pidsley R, Lawrence MG, Zotenko E, Niranjan B, Statham A, Song J, Chabanon RM, Qu W, Wang H, Richards M, Nair SS, Armstrong NJ, Nim HT, Papargiris M, Balanathan P, French H, Peters T, Norden S, Ryan A, Pedersen J, Kench J, Daly RJ, Horvath LG, Stricker P, Frydenberg M, Taylor RA, Stirzaker C, Risbridger GP, Clark SJ.

Genome Res. 2018 May;28(5):625-638. doi: 10.1101/gr.229070.117. Epub 2018 Apr 12.


Implications of bond disorder in a S=1 kagome lattice.

Manson JL, Brambleby J, Goddard PA, Spurgeon PM, Villa JA, Liu J, Ghannadzadeh S, Foronda F, Singleton J, Lancaster T, Clark SJ, Thomas IO, Xiao F, Williams RC, Pratt FL, Blundell SJ, Topping CV, Baines C, Campana C, Noll B.

Sci Rep. 2018 Mar 16;8(1):4745. doi: 10.1038/s41598-018-23054-6.


Paediatric outcomes and timing of admission.

Ramsden L, McColgan MP, Rossor T, Greenough A, Clark SJ.

Arch Dis Child. 2018 Jun;103(6):611-617. doi: 10.1136/archdischild-2017-314559. Epub 2018 Mar 15. Review.


Quantum mechanical tunneling in the automerization of cyclobutadiene.

Schoonmaker R, Lancaster T, Clark SJ.

J Chem Phys. 2018 Mar 14;148(10):104109. doi: 10.1063/1.5019254.


Public Health Opportunities to Improve Late-Adolescent Immunization.

Clark SJ, Cowan AE, Wells KB.

J Public Health Manag Pract. 2018 Mar 1. doi: 10.1097/PHH.0000000000000792. [Epub ahead of print]


scNMT-seq enables joint profiling of chromatin accessibility DNA methylation and transcription in single cells.

Clark SJ, Argelaguet R, Kapourani CA, Stubbs TM, Lee HJ, Alda-Catalinas C, Krueger F, Sanguinetti G, Kelsey G, Marioni JC, Stegle O, Reik W.

Nat Commun. 2018 Feb 22;9(1):781. doi: 10.1038/s41467-018-03149-4.


A parsimonious characterization of change in global age-specific and total fertility rates.

Pantazis A, Clark SJ.

PLoS One. 2018 Jan 29;13(1):e0190574. doi: 10.1371/journal.pone.0190574. eCollection 2018.


C-reactive protein and pentraxin-3 binding of factor H-like protein 1 differs from complement factor H: implications for retinal inflammation.

Swinkels M, Zhang JH, Tilakaratna V, Black G, Perveen R, McHarg S, Inforzato A, Day AJ, Clark SJ.

Sci Rep. 2018 Jan 26;8(1):1643. doi: 10.1038/s41598-017-18395-7.


The WHO 2016 verbal autopsy instrument: An international standard suitable for automated analysis by InterVA, InSilicoVA, and Tariff 2.0.

Nichols EK, Byass P, Chandramohan D, Clark SJ, Flaxman AD, Jakob R, Leitao J, Maire N, Rao C, Riley I, Setel PW; WHO Verbal Autopsy Working Group.

PLoS Med. 2018 Jan 10;15(1):e1002486. doi: 10.1371/journal.pmed.1002486. eCollection 2018 Jan.


Bruch's Membrane Compartmentalizes Complement Regulation in the Eye with Implications for Therapeutic Design in Age-Related Macular Degeneration.

Clark SJ, McHarg S, Tilakaratna V, Brace N, Bishop PN.

Front Immunol. 2017 Dec 19;8:1778. doi: 10.3389/fimmu.2017.01778. eCollection 2017.


Probabilistic population projections for countries with generalized HIV/AIDS epidemics.

Sharrow DJ, Godwin J, He Y, Clark SJ, Raftery AE.

Popul Stud (Camb). 2018 Mar;72(1):1-15. doi: 10.1080/00324728.2017.1401654. Epub 2017 Dec 19.


Bisulphite Sequencing of Chromatin Immunoprecipitated DNA (BisChIP-seq).

Stirzaker C, Song JZ, Statham AL, Clark SJ.

Methods Mol Biol. 2018;1708:285-302. doi: 10.1007/978-1-4939-7481-8_15.


Yield of Brain MRI in Clinically Diagnosed Epilepsy in the Kingdom of Bhutan: A Prospective Study.

Bruno V, Klein JP, Nidup D, Nirola DK, Tshering L, Deki S, Clark SJ, Linn KA, Shinohara RT, Dorji C, Pokhrel DR, Dema U, Mateen FJ; Bhutan Epilepsy Project.

Ann Glob Health. 2017 May - Aug;83(3-4):415-422. doi: 10.1016/j.aogh.2017.02.001. Epub 2017 Apr 7.


Transient and Permanent Reconfiguration of Chromatin and Transcription Factor Occupancy Drive Reprogramming.

Knaupp AS, Buckberry S, Pflueger J, Lim SM, Ford E, Larcombe MR, Rossello FJ, de Mendoza A, Alaei S, Firas J, Holmes ML, Nair SS, Clark SJ, Nefzger CM, Lister R, Polo JM.

Cell Stem Cell. 2017 Dec 7;21(6):834-845.e6. doi: 10.1016/j.stem.2017.11.007.


Contraception, pregnancy, and peripartum experiences among women with epilepsy in Bhutan.

Halani S, Tshering L, Bui E, Clark SJ, Grundy SJ, Pem T, Lhamo S, Dema U, Nirola DK, Dorji C, Mateen FJ; Bhutan Epilepsy Project.

Epilepsy Res. 2017 Dec;138:116-123. doi: 10.1016/j.eplepsyres.2017.10.012. Epub 2017 Oct 18.


Acetylated histone variant H2A.Z is involved in the activation of neo-enhancers in prostate cancer.

Valdés-Mora F, Gould CM, Colino-Sanguino Y, Qu W, Song JZ, Taylor KM, Buske FA, Statham AL, Nair SS, Armstrong NJ, Kench JG, Lee KML, Horvath LG, Qiu M, Ilinykh A, Yeo-Teh NS, Gallego-Ortega D, Stirzaker C, Clark SJ.

Nat Commun. 2017 Nov 7;8(1):1346. doi: 10.1038/s41467-017-01393-8.


Tuberculosis mortality and the male survival deficit in rural South Africa: An observational community cohort study.

Reniers G, Blom S, Lieber J, Herbst AJ, Calvert C, Bor J, Barnighausen T, Zaba B, Li ZR, Clark SJ, Grant AD, Lessells R, Eaton JW, Hosegood V.

PLoS One. 2017 Oct 10;12(10):e0185692. doi: 10.1371/journal.pone.0185692. eCollection 2017.


The eye as a complement dysregulation hotspot.

Clark SJ, Bishop PN.

Semin Immunopathol. 2018 Jan;40(1):65-74. doi: 10.1007/s00281-017-0649-6. Epub 2017 Sep 25. Review.


Smoke-Induced Changes to the Epigenome Provide Fertile Ground for Oncogenic Mutation.

Clark SJ, Molloy PL.

Cancer Cell. 2017 Sep 11;32(3):278-280. doi: 10.1016/j.ccell.2017.08.016.


Socioeconomic differences in mortality in the antiretroviral therapy era in Agincourt, rural South Africa, 2001-13: a population surveillance analysis.

Kabudula CW, Houle B, Collinson MA, Kahn K, Gómez-Olivé FX, Tollman S, Clark SJ.

Lancet Glob Health. 2017 Sep;5(9):e924-e935. doi: 10.1016/S2214-109X(17)30297-8. Erratum in: Lancet Glob Health. 2017 Nov;5(11):e1077.


Oilseed rape (Brassica napus) as a resource for farmland insect pollinators: quantifying floral traits in conventional varieties and breeding systems.

Carruthers JM, Cook SM, Wright GA, Osborne JL, Clark SJ, Swain JL, Haughton AJ.

Glob Change Biol Bioenergy. 2017 Aug;9(8):1370-1379. doi: 10.1111/gcbb.12438. Epub 2017 Mar 10.


Self-interaction free local exchange potentials applied to metallic systems.

Clark SJ, Hollins TW, Refson K, Gidopoulos NI.

J Phys Condens Matter. 2017 Sep 20;29(37):374002. doi: 10.1088/1361-648X/aa7ba6. Epub 2017 Jun 26.


Development of an Undergraduate Radiology Curriculum: Ten-Year Experience From the University of British Columbia.

Darras KE, Clark SJ, Tso DK, Liang TI, Krebs C, Tonseth RP, Chang SD, Forster BB, Nicolaou S.

Can Assoc Radiol J. 2017 Aug;68(3):237-242. doi: 10.1016/j.carj.2016.12.008. Epub 2017 May 26. Review. No abstract available.


Progression of the epidemiological transition in a rural South African setting: findings from population surveillance in Agincourt, 1993-2013.

Kabudula CW, Houle B, Collinson MA, Kahn K, Gómez-Olivé FX, Clark SJ, Tollman S.

BMC Public Health. 2017 May 10;17(1):424. doi: 10.1186/s12889-017-4312-x.


Prescribing for Children With Rheumatic Disease: Perceived Treatment Approaches Between Pediatric and Adult Rheumatologists.

van Mater H, Balevic SJ, Freed GL, Clark SJ.

Arthritis Care Res (Hoboken). 2018 Feb;70(2):268-274. doi: 10.1002/acr.23273.


Comprehensive evaluation of genome-wide 5-hydroxymethylcytosine profiling approaches in human DNA.

Skvortsova K, Zotenko E, Luu PL, Gould CM, Nair SS, Clark SJ, Stirzaker C.

Epigenetics Chromatin. 2017 Apr 20;10:16. doi: 10.1186/s13072-017-0123-7. eCollection 2017.


Alterations in Three-Dimensional Organization of the Cancer Genome and Epigenome.

Achinger-Kawecka J, Taberlay PC, Clark SJ.

Cold Spring Harb Symp Quant Biol. 2016;81:41-51. doi: 10.1101/sqb.2016.81.031013. Epub 2017 Apr 19. Review.


Validation of a smartphone-based EEG among people with epilepsy: A prospective study.

McKenzie ED, Lim AS, Leung EC, Cole AJ, Lam AD, Eloyan A, Nirola DK, Tshering L, Thibert R, Garcia RZ, Bui E, Deki S, Lee L, Clark SJ, Cohen JM, Mantia J, Brizzi KT, Sorets TR, Wahlster S, Borzello M, Stopczynski A, Cash SS, Mateen FJ.

Sci Rep. 2017 Apr 3;7:45567. doi: 10.1038/srep45567.


Histopathological tumour viability after neoadjuvant chemotherapy influences survival in resected pancreatic cancer: analysis of early outcome data.

Townend P, de Reuver PR, Chua TC, Mittal A, Clark SJ, Pavlakis N, Gill AJ, Samra JS.

ANZ J Surg. 2018 Mar;88(3):E167-E172. doi: 10.1111/ans.13897. Epub 2017 Mar 20.


Searching for wheat resistance to aphids and wheat bulb fly in the historical Watkins and Gediflux wheat collections.

Aradottir GI, Martin JL, Clark SJ, Pickett JA, Smart LE.

Ann Appl Biol. 2017 Mar;170(2):179-188. doi: 10.1111/aab.12326. Epub 2016 Dec 12.


Hormonal and Metabolic Responses to a Single Bout of Resistance Exercise in Prader-Willi Syndrome

Rubin DA, Clark SJ, Haqq AM, Castner DM, Ng J, Judelson DA.

Horm Res Paediatr. 2017;87(3):153-161. doi: 10.1159/000454805. Epub 2017 Mar 2.


Let's Talk about Sex, Maybe: Interviewers, Respondents, and Sexual Behavior Reporting in Rural South Africa.

Houle B, Angotti N, Clark SJ, Williams J, Gómez-Olivé FX, Menken J, Kabudula C, Klipstein-Grobusch K, Tollman SM.

Field methods. 2016;28(2):112-132. doi: 10.1177/1525822X15595343. Epub 2015 Aug 13.


Genome-wide base-resolution mapping of DNA methylation in single cells using single-cell bisulfite sequencing (scBS-seq).

Clark SJ, Smallwood SA, Lee HJ, Krueger F, Reik W, Kelsey G.

Nat Protoc. 2017 Mar;12(3):534-547. doi: 10.1038/nprot.2016.187. Epub 2017 Feb 9.


Mass seasonal bioflows of high-flying insect migrants.

Hu G, Lim KS, Horvitz N, Clark SJ, Reynolds DR, Sapir N, Chapman JW.

Science. 2016 Dec 23;354(6319):1584-1587. doi: 10.1126/science.aah4379.


Probabilistic Cause-of-death Assignment using Verbal Autopsies.

McCormick TH, Li ZR, Calvert C, Crampin AC, Kahn K, Clark SJ.

J Am Stat Assoc. 2016;111(515):1036-1049. Epub 2016 Oct 18.


Trends in the burden of HIV mortality after roll-out of antiretroviral therapy in KwaZulu-Natal, South Africa: an observational community cohort study.

Reniers G, Blom S, Calvert C, Martin-Onraet A, Herbst AJ, Eaton JW, Bor J, Slaymaker E, Li ZR, Clark SJ, Bärnighausen T, Zaba B, Hosegood V.

Lancet HIV. 2017 Mar;4(3):e113-e121. doi: 10.1016/S2352-3018(16)30225-9. Epub 2016 Dec 10.


Complement factor H in host defense and immune evasion.

Parente R, Clark SJ, Inforzato A, Day AJ.

Cell Mol Life Sci. 2017 May;74(9):1605-1624. doi: 10.1007/s00018-016-2418-4. Epub 2016 Dec 10. Review.


Disruption of the 3D cancer genome blueprint.

Achinger-Kawecka J, Clark SJ.

Epigenomics. 2017 Jan;9(1):47-55. doi: 10.2217/epi-2016-0111. Epub 2016 Dec 12. Review.


Induction of Chemokine Secretion and Monocyte Migration by Human Choroidal Melanocytes in Response to Proinflammatory Cytokines.

Jehs T, Faber C, Udsen MS, Jager MJ, Clark SJ, Nissen MH.

Invest Ophthalmol Vis Sci. 2016 Dec 1;57(15):6568-6579. doi: 10.1167/iovs.15-18524.


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