Monday, 12th February 45th Lorne Genome Conference 2024

Breakfast will be served from 7:15AM

• Role of H3K36M in head and neck cancer. - Lluis Morey
• New bright spots in the dark genome - Gerd Blobel
• Two sides of the same coin: characterisation of sex-specific functions of monotreme CTCFX and CTCFY gametologues - Filip Pajpach
• Three-dimensional chromatin structure influences replication dynamics during mild replication stress - Kate Giles

• Investigating functional convergence across millions of years of evolution - Navya Shukla
• Unraveling the Genomic Influence of Archaic Hominins on 3D Genome Interactions, Immune Pathways, and Gene Expression in Modern Humans  - Isabela Alvim
• Exploring the Genetic Landscape of Pregnancy-related Phenotypes and Complications through Low-Pass Whole Genome Sequencing in Over 100,000 Chinese Pregnancies - Mingyan Fang
• Biallelic variants in HMGCS1 are a novel cause of rare rigid spine syndrome - Lein Dofash
• Single-base precision design of PspCas13b enables systematic silencing of oncogenic fusions - Wenxin Hu
• The Hidden Diversity of Antibody Heavy Chains: Implications for Autoantibody Mediated Disease - Easton E Ford
• Reconstructing DNA methylation maps of ancient populations - Liran Carmel

• Circadian rhythm tempers establishment of X chromosome inactivation - Andrew Keniry
• The apparent loss of PRC2 chromatin occupancy as an artefact of RNA depletion - Evan Healy
• Paediatric Glioma Histone H3.3 K27M/G34R Mutations Drive Abnormalities in Phase-Separated PML Nuclear Bodies. - Lee Wong
• Studying the Clonal Dynamics of Haematopoietic Stem and Progenitor Cells suggests deterministic fate outcomes. - Ali Motazedian
• Nuclear F-actin and the DNA damage response regulate telomerase recruitment in human cells - Tracy M Bryan
• Fast-forward genetics identifies genes and mechanisms of chromatin remodelling in plants - Sourav Mukherjee
• Is the essential histone variant H2A.Z an oncohistone or a tumour suppressor? - David Tremethick

We've all understood that we need mentors and champions. But, until the good ones show up (or, until we're ready to meet them without feeling and then being weird), there's a lot we can do to help ourselves. In this workshop, Prof. Traude Beilharz will share the framework she used to clean up the relationships with herself, peers, and mentors to improve her personal and professional happiness.

Prof. Traude Beilharz is Head of the RNA-systems Lab within the Biomedicine Discovery Institute at Monash University. She has held grants and fellowships from the major national funders, has published in top-tier journals, and holds numerous leadership positions -including as President of Lorne Genome inc. In her private life Traude uses certifications in Life & Leadership Coaching to help underrepresented groups navigate careers in STEM.

• Julian Wells Medal Talk - Anne Voss

• Identifying DNA mutations directly from RNA-seq datasets - Li Yang

• Elucidating CRISPR-Cas13 Target Search Mechanisms in Live Human Cells - Gurjeet Kaur Gill Jagjeet Singh
• Three-dimensional genome architecture coordinates key regulators of lineage specification in mammary epithelial cells - Michael Milevskiy
• Molecular principles of CRISPR-Cas13 mismatch intolerance enable selective silencing of point-mutated oncogenic RNA with single-base precision - Carolyn E Shembrey
• U2 spliceosome factors mediate a transcriptional checkpoint for p300 transactivation - Jesse Balic
• Spatially resolved transcriptomics of human cortex reveals unique disease signatures and potential biomarkers for chronic traumatic encephalopathy - Cath M Suter
• Site-specific RNA modification editing reveals m⁶A RNA methylation controls expression of the NLRP3 inflammasome sensor. - Justin Wong

• Unravelling the hierarchical chromatin Landscape of Immune Memory Cells - Hannah D Coughlan
• Machine learning enables pan-cancer identification of persistent CTCF binding sites as mutational hotspots - Wenhan Chen
• Effects of scaling factors on sequencing depth bias in scRNA-seq and implications for downstream analysis and batch integration - Charles Herring
• Studying ovarian cancer subclones and their microenvironments using spatial transcriptomics   - Alistair Forrest
• Flipping the Fish: Comparative Gonadal Transcriptomics Reveals Dynamics of Fish Sex Reversal  - Megan MS Soria
• Investigating pulmonary fibrosis from single-molecule resolution spatial transcriptomics - Ruqian Lyu

• Transposable Elements: Genomes Under the Influence - Cedric Feschotte

• Investigating the dynamics of clonal behaviour in breast cancer - Katie A Fennell
• Long non-coding (lncRNAs) regulation in epithelial-mesenchymal transition - Chi Yau Liu
• Human skeletal muscle methylome and transcriptome changes after exercise - Nir Eynon
• Deciphering the molecular roles of the developmental epigenetic priming factors DPPA2/4 in cancer - Janith A Seneviratne
• Combinations of small non-coding RNAs as an efficient strategy for targeting oncogenic pathways - Saba Ataei Kachooei
• Capturing Genome-wide dynamics of bivalent chromatin in Breast Cancer - Eleanor Glancy
• A novel rna binding protein (zcchc24) regulates cancer cell plasticity - Shruti Deshpande
• Cell type annotation for imaging-based spatial transcriptomics data - Jinming Cheng
• Evaluating penetrance and pathogenicity in populations - Caroline F Wright
• The RNA binding protein Quaking regulates prostate cancer cell plasticity by influencing widespread changes in alternative splicing. - Yesha Ramani
• Bivalent Chromatin as an Exemplar of Epigenetic Plasticity in Breast Cancer - Natalie Choy
• Investigating the molecular mechanisms of histone arginine methylation during virus-specific CD8⁺ T cell differentiation   - Zhongming Zhang
• Planting ideas for medicine: What can plants teach us about Friedreich’s ataxia? - Rucha Sarwade
• Developing the First Single-Cell Multiome Mini-Atlas for Acute Myeloid Leukaemia - Reza Ghamsari
• Specific cPRC1 complexes drive H3K27M-mutant diffuse midline glioma - Dáire Gannon
• StableMate: a new statistical method to select stable predictors in omics data - Jarny Choi
• Novel neuropsychiatric disorder risk gene transcripts in human brain - Ricardo De Paoli-Iseppi
• Investigating the isoform profiles of neuropsychiatric risk genes during cortical development - Anran Li
• Dissecting SR Protein Function Using A Unique Model System - Jordyn Coutts
• DOT1L provides a memory of activation to delay irreversible polycomb repression - Omer Gilan
• A multi-omics approach to discovery of new direct targets of EPO signalling in human erythropoiesis - Charlene Lam
• Benchmarking 80 binary phenotypes from the openSNP dataset using deep learning algorithms and polygenic risk score tools - Muhammad Muneeb
• Genomic determinants of tissue-specific splicing variation in humans - Aaryan Chhabra
• Unlocking the hidden world of RNA isoforms: Insights from long-read single-cell sequencing in neurogenesis - Sefi Prawer
• Adipose eosinophils promote angiogenesis via vascular endothelial growth factor A (VEGFA) - Annalise M Psaila
• Developmental regulation of triplet expansion-induced epigenetic silencing in plants. - Byonkesh Nongthongbam
• GenoNet: An Interpretable Biologically Informed Multi-modal Deep Neural Network for Enhanced Copy Number Variants Curation through Pathway and Gene Ontology - Ivan Bakhshayeshi
• Constructing and Validating RNAseq-based typhoid disease classifier - Muhamad MF Fachrul
• Functional transcriptomic screen of cancer-associated long non-coding RNAs - Martin A Smith
• Analysing real-time qPCR data using limma with weighted cyclic loess normalisation - Waruni Abeysekera
• Promoter CpG methylation is an important mechanism for gamma-globin repression involving the MBD2-NuRD complex - Henry W Bell
• Disentangling copy number-based genome instability patterns in breast cancer - Jason J. Pitt
• New tricks for old histones: the histone variant that has a non-canonical function in the mRNA degradation - Nazmul Hasan Apu
• Rescuing social interactions and short term memory in a model of congenital intellectual disability - Maria I Bergamasco
• Spatiotemporal identification and lineage tracing of Mesendoderm progenitor cells in mammalian embryo - V. Pragathi Masamsetti
• An isoform-resolution transcriptomic atlas of colorectal cancer from long-read single-cell sequencing - Yvonne Tay
• ZMYND8 knock-out leads to widespread transcriptional changes and impaired brain organoid development - Juli Wang
• A translatable cell-based high throughput screening system to screen for regulators of Factor Inhibiting HIF (FIH) - Alison E Roennfeldt
• The epigenetic reader WDR5 is important for KLF3 genomic localisation and gene regulation - Manan Shah
• Investigating the roles of putative granule-associated genes and proteins in germline epigenetic processes in Caenorhabditis elegans - Carlotta Wills
• Directing an artificial zinc finger protein to new targets by fusion to histone readers - Mahdi Haddad
• Characterising the effector domains of the KLF transcription factor family - Vala VNS Nejad Safari
• Using super resolution microscopy to visualize epigenetic control of T cell fate - Gavin Koh
• Investigating the causal genetic variation that drives splicing changes - Michael Gitonobel
• Machine learning enables pan-cancer identification of mutational hotspots at persistent CTCF binding sites. - Susan Clark
• Novel mechanism of transposon silencing in Drosophila eugracilis - Rippei Hayashi
• Ancient Origins of Endogenous Retroviruses - Shashank Chary
• mTOR signalling regulates epigenetic factors during pluripotency state transitions  - Katherine Zyner
• Transient enhancer-promoter interactions precede transcription of androgen-induced genes upon DHT treatment in prostate cancer cells - Elyssa M Campbell
• Utilising single-cell data to prioritise genetic variants - Timo Lassmann
• Modelling epigenetic reprogramming as immunotherapy for metastatic breast cancer - Yolanda Colino Sanguino
• Exploring human transcriptome using T2T-CHM13 reference - Xueyi Dong
• Saliva as a sample type for the evaluation of miRNA biomarkers using small RNA sequencing - Matias Abregu
• Investigating human macrosatellite genetics and epigenetics in facioscapulohumeral muscular dystrophy using long-read nanopore sequencing - Lucinda Xiao
• Unravelling PU.1 mediated regulation of genome organisation in granulocytes. - Wendy Jia
• The mammalian oocyte as a cell system to study temporal control of RNA cytoplasmic polyadenylation - Lemia Bickalo
• Investigating the role of FANCM in breast cancer - Elissah Granger
• Developing computational methods for investigating key components of vertebrate enhancer sequences - Mia Gruzin
• Building a macrophage: promoter, enhancer and chromatin remodelling in ipsc-derived myeloid progenitors and their progeny. - Miguel Berrocal
• Investigating the role of the testes-specific cytoplasmic poly(A) polymerase PAPOLB in mouse spermatogenesis - Rachael E Turner
• Squigulator: simulation of nanopore sequencing signal data with tunable noise parameters - Hasindu Gamaarachchi
• Disrupted glucocorticoid receptor-mediated signalling causes a primary cilia defect in the fetal mouse renal tubule - Jianshen Lao
• Bovine Long Read Consortiom: Discovering the missing structural variation in the Bovine genome. - Amanda J Chamberlain