Conference Program Tuesday 3rd December 2013 Registration 1:00pm - 6:30pm The conference registration desk will be manned from 8.00am each day of the meeting. Afternoon Tea 3:00pm - 3:50pm Whitesands Lobby Whitesands Lobby Conference Welcome 3:50pm - 4:00pm Chairs: Sue Clark & Catherine Suter Whitesands Conference Room Keynote Lecture 4:00pm - 5:00pm Chair: Sue Clark & Catherine Suter Whitesands Conference Room 4:00pm Henk Stunnenberg Epigenomics functionally indexing chromatin in health and disease Session 1: The Epigenome 5:00pm - 6:30pm Chair: Sue Clark abs# 1 Whitesands Conference Room NB: These presentations will be followed by 16 two minute fast forward presentations from abstracts also presenting as posters. Please refer to poster numbers of these abstracts to find the details in the proceedings. 5:00 PM Ryan Lister Global epigenomic reconfiguration during mammalian brain development abs# 2 5:30 PM Mark A Rubin The Estrogen receptor alpha regulated NEAT1 long non-coding RNA promotes prostate cancer progression abs# 3 17:50PM Fast Forward Presentations Welcome BBQ 6:30pm - 8:00pm Mermaids Bar and Grill This is an included function for all delegates. Poster Session 1 8:00pm - 9:30pm Whitesands Lobby & Sandy Foot Bar Session sponsored by Agilent Kirsten Grønbæk Diffuse large B-cell lymphoma with combined TP53 mutation and MIR34A methylation: Another “double hit” lymphoma with very poor outcome? abs# 100 Stephanie Biergans DNA methyltransferases in honeybees: Their role and target genes during long-term memory formation abs# 101 Rhys Allan A role for a histone methyltransferase in preserving immune homeostasis through a chromatin-independent mechanism abs# 102 Emma Beckett Circulating miRNAs (155, 15a and 182) correlate with blood folate in an MTHFR genotype dependent manner abs# 103 Bernadette Jones The involvement of histone acetylation enzymes in a mouse model of chronic obstructive pulmonary disease abs# 104 Michelle Ong Conference Program The epigenetic regulator UHRF1 binds to both the N- and C-terminal domains of the deubiquitylase, USP7 abs# 105 Brendon Monahan Repression of gene expression by the fission yeast SWI/SNF complex independent of its chromatin remodeling activity. abs# 106 Tony Vuocolo Epigenetic and transcriptional differences between brown and white adipose tissues. abs# 107 Anjum Zafar “Chromatin tethered Protein Kinase C family members and their dual- signalling and nuclear role in regulating transcription of inducible genes in cancer stem cells” abs# 108 Jasmine Li Chromatinised PKC-θ marks enhancer domains in human memory CD4+ T cells abs# 109 Joshua Denham Leukocyte DNA methylation changes after 4 weeks of high-intensity exercise training abs# 110 Peter Hickey Simulating whole genome bisulfite sequencing data abs# 111 Emily Remnant Differential methylation in the honey bee germline abs# 112 Jeannette Lechner-Scott Methylation changes at the HLA-DRB1 locus in CD4+ T-Cells are associated with multiple sclerosis abs# 113 Yukihiko Kato Histone deacetylase inhibitor MS-275 restored retinoid sensitivity and had an antitumor effect in combination with retinoic acid Am80 in human cutaneous T cell lymphoma abs# 114 Cheryl Li Genome-wide mapping of 5-hydroxymethylcytosine in glioblastomas abs# 115 Chamindie Punyadeera Head and Neck Cancer Detection is Spitting Distance Away. abs# 116 Sarah Cohen-Woods Scars of stress: does exposure to stressful experience alter methylation of our DNA? abs# 117 Christiane Theda Differential methylation of whole blood genomic DNA of preterm versus term infants at birth and 18 years of age abs# 118 Clare Stirzaker Methyl-CpG-Binding Domain Protein MBD2 plays a critical role in initiating the spread of DNA hypermethylation and chromatin remodeling in prostate cancer abs# 119 Adam Cook A balancing act between the chaperone NASP and lysosomal degradation to fine-tune histone supply and maintain genome integrity abs# 120 Ruth Pidsley Epigenetic profiling of the prostate cancer microenvironment abs# 121 David Humphreys miRNA profiling in hearts with LVAD support abs# 122 Andrew Stone BCL-2 hypermethylation is a potential biomarker of sensitivity to anti-mitotic chemotherapy in endocrine-resistant breast cancer. abs# 123 Hugh French The Role of RNA-directed Epigenetic Remodelling in Cancer Eva Baxter Cyclical DNA methylation in estrogen receptor-regulated transcription Hannah Nicholas SUMV-1 and SUMV-2 regulate vulval development in Caenorhabditis elegans Christine Chiu Quantification of global DNA methylation in the kidneys of spontaneously hypertensive mice Warwick Locke abs# 124 abs# 125 abs# 126 abs# 127 Conference Program Epigenomic analysis of early breast carcinogenesis identifies differentially methylated loci as candidate biomarkers abs# 128 Kristen Yeung Global DNA methylation status in the offspring of experimental preeclamptic and normotensive baboon pregnancies abs# 129 Jiang Hu Investigating epigenetic mechanisms that control protocadherin expression in neurons abs# 130 Richard D'Andrea GADD45A expression in AML alters the DNA methylation and expression of key tumor suppressor genes abs# 131 Jason Ross “Stop_gap, measure”. Tools for handling deep bisulphite sequencing data. abs# 132 Hilal Varinli Reduced Methylome Sequencing using GW-COBRA and LA-COBRA abs# 133 Michelle Holland Environmental perturbation of the mammalian germ-line and developmental outcomes in the next generation abs# 134 Conference Program Wednesday 4th December 2013 Session 2: Functional Epigenomics 8:30am - 10:30am Chair: Phillippa Taberlay Whitesands Conference Room 8:30 AM Ricky Johnstone Novel cancer therapies that target the epigenome abs# 4 9:00 AM Joel Mackay Probing the structure and function of a 1-MDa chromatin remodeling complex abs# 5 9:20 AM Sarah Harten An ENU mutagenesis screen identifies the first mouse mutants of a novel epigenetic modifier, Rearranged L-Myc Fusion (Rlf). abs# 6 9:40 AM Andrew Keniry Identifying novel epigenetic modifiers of pluripotency and reprogramming using X inactivation as a model system abs# 7 10:00 AM Melissa Fullwood 3-D insights into chromatin and transcription in human cancer cells abs# 8 Morning Tea 10:30am - 11:00am Session 3: Epigenetics and Disease 1 11:00am - 1:00pm Chair: Peter Molloy Whitesands Lobby Whitesands Conference Room 11:00 AM Assam (Sam) El-Osta TBA 11:30 AM Jason Lee EZH2-mediated regulation of protein stability in breast cancer abs# 9 abs# 10 11:50 AM Florent Chang Pi-Hin Extraction, amplification and methylation analysis of DNA from blood: where and how to improve the workflow abs# 11 12:05 PM Phillippa Taberlay Massive Reorganization of Nucleosome Distribution and DNA Methylation at Distal Regulatory Elements in Cancer. abs# 12 12:25 PM Jane Visvader The mammary stem cell hierarchy and its molecular regulators abs# 13 Lunch Break 1:00pm - 2:00pm Whitesands Lobby Afternoon Break 2:00pm - 4:00pm Delegates are welcome to enjoy the surrounds of Shoal Bay. Afternoon Tea will be served when sessions start at 4.00pm Session 4 - Development and Inheritance 4:00pm - 6:00pm Chair: Peter Waterhouse Whitesands Conference Room NB: These presentations will be followed by 12 two minute fast forward presentations from abstracts also presenting as posters. Please refer to poster numbers of these abstracts to find the details in the proceedings. 4:00 PM Ueli Grossniklaus TBA 4:30 PM Ian Dodd Collaboration between CpG sites is needed for stable inheritance of DNA methylation states abs# 14 abs# 15 Conference Program Conference Program 4:50 PM Jennifer Cropley Environmentally induced epigenetic variation and inheritance: programming the risk of disease abs# 16 5:10 PM Daniele Belluoccio Comprehensive Human and Mouse DNA Methylation Profiling with SureSelect Target Enrichment System abs# 17 Dinner Break 6:00pm - 8:00pm Delegates are welcome to book dinner at Shoal Bay Resort and Spa or another restaurant in town Poster Session 2 8:00pm - 10:00pm Session sponsored by Whitesands Lobby Boris Novakovic Postnatal Stability, Tissue and Timing Specific Effects, of AHRR Methylation Change in Response to Maternal Smoking throughout Pregnancy. abs# 200 Boris Novakovic Alternative Lengthening of Telomeres (ALT) in Human Placenta: First Evidence for ALT in Non-Cancerous Human Tissue abs# 201 Leah Morenos Epigenetic Modifications Regulate DLEU2 and Tumour Suppressor miR15a/16-1 in Paediatric Acute Myeloid Leukaemia abs# 202 Maxim Nekrasov Different strategies of chromatin remodelling at the promoters abs# 203 Norah Algahtani Role of IL-6 in inducing epigenetics modifications in breast stromal fibroblasts abs# 204 Pamela Mukhopadhyay What determines whether an X-linked gene is dependent upon Smchd1 for X inactivation? abs# 205 Junxin Liang Role of NPMT in cell growth and DNA damage repair abs# 206 Sharon Hollins miRNA regulation of gene expression in the adult entorhinal cortex following maternal infection and adolescent cannabinoid exposure abs# 207 Nur Anuar Targeting a multi-copy histone variant gene for knockout using TALEN technology in mice. abs# 208 Lloyd Graham CRNDE – A long non-coding RNA involved in development, energy metabolism and cancer abs# 209 Daniele Belluoccio Comprehensive Human and Mouse DNA Methylation Profiling with SureSelect Target Enrichment System abs# 210 Renae Domaschenz Comparative Epigenetic Landscapes and Regulation of the Epigenome Across Divergent Taxa abs# 211 Ricardo De Paoli-Iseppi Characterisation of Multiple Endocrine Neoplasia Type 1 (MEN1) promoter methylation in disease severity abs# 212 Edwina Wing-Lun Maternal obesity alters cardiac microRNA expression in offspring independent of genotype abs# 213 Sarah Ashley Maternal folate status as a modifier of epigenetic profile in human neonatal CD4+ T cells abs# 214 Belinda Goldie Detection and analysis of miRNA in the nucleus of human neuronal cells abs# 215 Jessica Stringer Polycomb Repressive Complex 2 in germ-line development and epigenetic inheritance. abs# 216 Susan van Dijk DNA methylation profiling in a child cohort abs# 217 Natasha Jansz Identifying Functional Interactions Between Smchd1 and Other Epigenetic Modifiers. abs# 218 Ying Hu Conference Program The wnt antagonist gene sfrp5 is down-regulated in azoxymethane-induced rat colon tumors abs# 219 Navind Jayasooriah Sertoli cell microvesicles as a vector for epigenetic inheritance abs# 220 Shreya Bhattacharya Identifying miRNA signatures that define Osteosarcoma abs# 221 Raul Chavez Valencia In vitro exposure of human blood mononuclear cells to active vitamin D does not induce substantial change to DNA methylation on a genome-scale abs# 222 Joshua Atkins The influence of copy number variation on microRNA and target genes in a cohort of patients with schizophrenia abs# 223 Sarah Kinkel Function of PRC2 accessory factors in haematopoietic stem cells. abs# 224 Darcy Moore Identification of epigenetic modifiers involved in neural stem cell function abs# 225 Ksenia Skvortsova The Role of 5-hydroxymethylcytosine and DNA Demethylation in Cancer abs # 226 Emma Cazaly Epigenomic and genomic analysis of familial prostate cancer. abs# 227 Amanda Khoury Does the boundary element CTCF play a role in epigenetic deregulation of domains in cancer? abs# 228 Qian Du Role of the Epigenetic Modifier MBD2 in DNA Methylation in Cancer abs# 229 Lauren Bourke The first mouse mutants of a novel epigenetic modifier Rearranged L-Myc Fusion (Rlf) display defects in heart development abs# 230 Justin Bloomfield Epigenetic Profiling During Brassica Reproductive Development abs# 231 Kelan Chen Structural and Functional Characterization of Epigenetic Regulator Smchd1 abs# 232 Raphael Ricon Alteration of DNA methylation pattern of QQS along Arabidopsis development abs#233 Conference Program Thursday 5th December 2013 Session 5: Epigenetics and Disease 2 8:30am - 10:30am Chair: Hamish Scott Whitesands Conference Room 8:30 AM Peter Jones Reactivating Epigenetically Silenced Genes abs# 18 9:00 AM Clare Stirzaker Epigenetic prognostic biomarker panel has potential to stratify triple negative breast cancers abs# 19 9:20 AM Maxim Ivanov Hydroxymethylcytosine (5hmC) in human liver: quantification, genome-wide mapping and profiling with singlebase resolution in ADME genes abs# 20 9:40 AM Stephen Bradford Epigenome profiling of primary human subcutaneous and visceral adipocytes reveals differences in potential regulation of developmental and metabolism genes. abs# 21 10:00 AM Jingde Zhu Not available at time of printing abs# 22 Morning Tea 10:30am - 11:00am Session 6 – Chromatin 11:00am - 1:00pm Chair: Adele Holloway Whitesands Lobby Whitesands Conference Room 11:00 AM David Tremethick Histone variant selectivity at the transcription start site: H2A.Z or H2A.Lap1 abs# 23 11:30 AM Philippe Collas Closing the nuclear lamina down on gene promoters abs# 24 11:50 AM Fatima Valdes Mora Defining the role of aberrant H2A.Z acetylation of promoter and enhancer regions in cancer-associated gene activation abs# 25 12:10 PM Anjum Zafar Chromatin tethered Protein Kinase C family members and their dual- signalling and nuclear role in regulating transcription of inducible genes in cancer stem cells abs# 26 12:30 PM Peggy Farnham Using GWAS, Epigenomics, and Genome Engineering to Characterize Cancer-Associated Enhancers abs# 27 Lunch Break 1:00pm - 2:00pm Whitesands Lobby Afternoon Break 2:00pm - 4:00pm Session 7- Epigenetics Across Species 4:00pm - 6:00pm Chair: Jennifer Cropley Whitesands Conference Room 4:00 PM Frank Grutzner Evolution of replication timing, interchromosomal interaction and monoallelic expression in mammals abs# 28 4:30PM Ben Oldroyd TBA abs# 29 5:00 PM Ozren Bogdanovic Reading the epigenome: developmental and evolutionary dynamics of 5-(hydroxy) methylcytosine readers in vertebrates abs# 30 Conference Program 5:20PM Michelle Garred BiSulfite Amplicon Sequencing and Targeted Expression Profiling on the Illumina MiSeq 5:35 PM David Martin Genome methylation in D. melanogaster: it’s there after all abs# 31 abs# 32 Dinner & Free Evening 6:30pm - 11:59pm This evening is free for delegates to do as they please. Morning Tea 10:30am - 11:00am Whitesands Lobby Session 9 - Epigenetics and RNA 11:00am - 12:40pm Chair: Ryan Lister Whitesands Conference Room 11:00 AM Peter Waterhouse TBA abs# 38 11:30 AM Charles Nicolet Evaluation of Commercially Available RNA Amplification Kits on Small Input Samples for RNA-Seq abs# 39 11:45 AM Rob Richards RNA pathogenesis via Toll-like receptor-activated inflammation in expanded repeat neurodegenerative diseases abs# 40 12:05 PM Shu Ly Lim HEN1 is involved in the stabilization of pachytene piRNAs, retrotransposon silencing and translational regulation during spermatogenesis. abs# 41 12:25 PM Kevin Morris Genomic dark matter: the complexity of long Non-Coding RNAs from mechanism to therapeutic abs# 42 Lunch Break 12:55pm - 2:10pm Whitesands Lobby Session 10 - Developmental Epigenetics 2:10pm - 3:30pm Chair: Richard Saffery Whitesands Conference Room 2:00 PM Jeffrey Craig Epigenetic studies of a newborn twin cohort: insights into pre- and postnatal development abs# 43 2:30 PM Julian Peat Dissecting epigenetic reprogramming in the zygote: active demethylation by TET3 and the 6th base. abs# 44 2:50 PM Timothy Spector Large Scale Integrated Epigenomic Twin studies for Common complex traits abs# 45 Afternoon Tea 3:30pm - 4:00pm Whitesands Lobby Keynote Lecture 4:00pm - 5:00pm Chair: Catherine Suter Whitesands Conference Room 4:00 PM Vincent Colot Transgenerational Epigenetic Inheritance In Arabidopsis Awards and Conference Close 5:00pm - 5:30pm Conference Dinner Cruise 6:30pm - 11:00pm Moonshadow Cruise Vessel abs# 46 Whitesands Conference Room Conference Program Dinner Bus Transfers will collect delegates attending dinner from the front of the Conference Venue at 6.30pm Sharp. Don't be late. Saturday 7th December 9.00AM Bus departs Shoal Bay Resort and Spa back to Newcastle Airport, Sydney (Garvan) and Sydney Airport (Domestic Terminal). Please be on time as the bus will not wait.