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ABACBS 2020 Virtual Conference Conference Program

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ABACBS 2020 Virtual Conference Conference Program Conference committee members: Eduardo Eyras (Conference Convener) Aaron Darling Jimmy Breen Gavin Huttley Jean Wen Priyanka Surana Susan Wagner Melanie Smith Attila Horvath Fabio Zanini Sonika Tyagi Annette McGrath Ignatius Pang ABACBS 2020 Virtual Conference is Proudly Supported by Gold Conference Sponsor Silver Conference Sponsor Bronze Conference Sponsor ABACBS Day 1 (Tuesday 24th November) Time (AEDT) Parallel Session 1: Plant Genomics Parallel Session 2: Metagenomics (Session Chair: Jen Taylor) (Session Chair: Aaron Darling) Canberra Cafe Remo Link ​ Invited Speaker: Sue Rhee Invited Speaker: Ami Bhatt 12:30 Challenges and Opportunities​ for Bioinformatics Microproteins, Mobile​ Genetic elements and and Computational Biology in Plant Science Strain-level resolution in the microbiome – a path to precision medicine Session Talk #38 Session Talk #35 12:50 Stephanie Chen Feargal Ryan Unsupervised orthologous gene tree enrichment Intrapartum or Direct Antibiotic Exposure in Early for cost-effective phylogenomic analysis and a test Life Significantly Alters the Infant Microbiota and case on waratahs (Telopea spp.) Whole-blood Transcriptional Responses to Immunisation Session Talk #112 Session Talk #127 13:00 Charlotte Francois Luis Pedro Coelho New insights into plant-microbe interactions The AMPSphere: antimicrobial peptides (AMPs) in through Quantitative Trait Locus (QTL) mapping the global microbiome Session Talk #110 Session Talk #8 13:10 Chelsea Matthews Daniela Gaio Assessing PacBio long reads and de novo Over 25,000 metagenome assembled genomes genome assembly tools for useability and reveal the development of the post-weaning pig suitability to applications where resources are gut microbial community limited Invited Speaker: Bernice Waweru 13:20 ​ ​ Invited Speaker: Rob Edwards African-led genome sequencing of Lablab and ​ ​ Phage genome bioinformatics African Yam bean orphan crop genomes 13:40 Networking Session Remo Link ​ Time (AEDT) Parallel Session 3: Regulation Parallel Session 4: Biomedical Informatics (Session Chair: Sonika Tyagi) (Session Chair: Jimmy Breen) Invited Speaker: Jessica Mar 15:00 Invited Speaker: Paul Gardner ​ ​ Making sense of heterogeneity in gene expression Features of functional human genes data Session Talk #95 Session Talk #74 15:20 Lixinyu Liu Dhrithi Deshpande The landscape of alternative polyadenylation in A comprehensive analysis of code and data CD8 T cells in single-cell transcriptome availability in biomedical research Session Talk #9 Session Talk #99 Qian Du Gulrez Chahal 15:30 DNA hypomethylation induces intrapopulation CaraVaN: Prioritising Cardiac Variants in the heterogeneity of DNA replication timing and 3D Non-coding genome using boosting algorithm genome reorganisation Session Talk #63 Session Talk #100 Emma Gail Adria Closa 15:40 A predictive model for commonly-repressed Characterisation of a convergent malignant polycomb-target genes dissects DNA sequence phenotype in B-cell acute lymphoblastic leukaemia from gene expression Session Talk #136 Session Talk #101 Chi Nam Ignatius Pang David Goode 15:50 RNase III-CLASH of multi-drug resistant An Evolutionary Approach to Network Analysis of Staphylococcus aureus reveals a regulatory Cancer Transcriptomes Reveals Common mRNA 3’UTR required for intermediate Indicators of Enhanced Malignancy Across a vancomycin resistance Range of Solid Tumours Session Talk #12 Session Talk #120 Jiayue-Clara Jiang Nitika Kandhari 16:00 Integrated transcription factor profiling with Finding signatures of alternative polyadenylation transcriptome analysis: identification of L1PA2 as cancer biomarkers transposons as global regulatory modulators in a breast cancer model 16:10 Short Break Remo Link ​ 16:40 ABACBS Senior award & talk 17:40 ABACBS Day 1 Ends ABACBS Day 2 (Wednesday 25th November) Time (AEDT) Parallel Session 1: Phylodynamics & COVID19 Parallel Session 2: Non-model organisms (Session Chair: Fabio Zanini) (Session Chair: Alexie Papanicolaou) Canberra Cafe Remo Link ​ Invited Speaker: Torsten Seemann Invited Speaker: Karine Le Roch ​ ​ ​ 12:30 How bioinformatics and genomics helped Comparative 3D Genome Organization in Apicomplexan Australia's COVID response Parasites Session Talk #132 Session Talk #28 Clare Slogett Aidan Tay 12:50 AusTrakka – Working towards integrated Developing a computational safeguard to detect gene drive pathogen genomics for SARS-CoV-2 systems in wild populations Session Talk #70 Session Talk #106 Harman Singh Katarina Stuart 13:00 eMST, a scalable and interpretable method for Whole transcripts in genome assembly, annotation, and Phylogenetic analysis of hundreds and thousands assessment: the draft genome assembly of the globally of SARS-CoV-2 genomes invasive common starling, Sturnus vulgaris Session Talk #87 Invited Speaker: Rob Lanfear Swapnil Tichkule 13:10 ​ Anthroponotic transmission and adaptive introgression Confidence and truth in phylogenomics underlies cryptic population structure of Cryptosporidium hominis in Africa 13:30 Networking Session Remo Link ​ Parallel Session 3: Methods Parallel Session 4: Transcriptomics / RNA (Session Chair: Jean Yang) (Session Chair: Jean Wen) Invited Speaker: Kim-Ahn Le Cao ​ Invited Speaker: Yue Wan 14:30 Navigating through ‘omics data: a multivariate ​ Direct RNA sequencing identifies isoform specific structures perspective Session Talk #36 Session Talk #34 Yingxin Lin Oak Hatzimanolis 14:50 Transfer learning for data integration of single-cell Implementing an integrated analysis to identify and validate RNA-seq and ATAC-seq circular RNAs using patient-derived neuronal stem cells. Session Talk #43 Session Talk #125 Simon Sadedin Vincent Corbin 15:00 Exploring Neural Network models for CNV Moving beyond RNA sequence: uncovering the functional role detection from Exome Data of RNA structure Session Talk #82 Session Talk #133 Ebony Watson Sasdekumar Loganathan 15:10 Image-based Predictive Modelling for the Application of mixture model to RNA-seq data to discover Characterisation of Cellular Senescence ageing regulators Session Talk #118 Session Talk #49 Al J Abadi Angel Liang 15:20 Integrating multi-modal single-cell studies with a RNA splicing is a hierarchical supernetwork that co-operates latent component-based approach to drive osteoblast differentiation Session Talk #24 Session Talk #83 Legana Fingerhut Ruebena Dawes 15:30 ampir: an R package for fast genome-wide Features that determine 5’ cryptic splice site selection in prediction of antimicrobial peptides genetic disorders Session Talk #5 Session Talk #89 Thomas Quinn 15:40 Ke Ding Learning Distance-Dependent Motif Interactions: Long short-term memory RNN for mirtron identification An Interpretable CNN Model of Genomic Events 16:10 Short Break Remo Link ​ 16:40 ABACBS Awards session (MCR, ECR, ....) 17:40 ABACBS Day 2 Ends 18:30 Trivia Night Remo link ​ ABACBS Day 3 (Thursday 26th November) Time (AEDT) Parallel Session 1: Indigenous Genomics Parallel Session 2: Long reads (Session Chair: Bastien Llamas) (Session Chair: Lachlan Coin) Canberra Cafe Remo Link ​ Invited Speaker: Keolu Fox Invited Speaker: Karen Miga 12:30 ​ ​ ​ ​ Creating accountability in human population Telomere-to-Telomere Chromosome Assemblies: New genetics using base editing tools Insights Into Genome Biology and Structure Session Talk #58 Session Talk #4 12:50 Irene Gallego Romero Luyi Tian Characterising Diversity in Gene Regulation Comprehensive characterization of single cell full-length Across the Indonesian Archipelago isoforms in human and mouse with long-read sequencing Session Talk #123 Session Talk #33 13:00 Sally Wasef Nadia Davidson How Ancient genomes can help Aboriginal JAFFAL: Detecting fusion genes with long read transcriptome Australian communities: lessons from the Cape sequencing York project Session Talk #46 13:10 Zaka Yuen Invited Speaker: Alex Brown ​ ​ Systematic benchmarking of detection tools for CpG Challenges In Aboriginal health in the genomics methylation from Nanopore sequencing era Session Talk #93 13:20 Stephen Kazakoff Mapping cancer transcriptomes with long-read sequencing 13:30 Networking Session Remo Link ​ Parallel Session 3: Genomics Parallel Session 4: Single Cell (Session Chair: Sarah Kummerfeld) (Session Chair: Ellis Patrick) 14:30 Invited Speaker: Yu Lin Invited Speaker: Sara Ballouz ​ ​ Binning Metagenomic Sequences Sex-specific co-expression: a baseline to explore disease 14:50 Session Talk #41 Session Talk #85 Daniel Cameron Adam Chan VIRUSBreakend: Viral Integration Recognition An automated framework for elucidating hierarchical Using Single Breakends relationships in high dimensional cytometry data 15:00 Session Talk #56 Session Talk #109 Tinting Gong Elisabeth Roesch Structural variation signatures in primary prostate How does gene expression entropy change along cancer developmental trajectories? 15:10 Session Talk #76 Session Talk #114 Jacob Bradford Yue Cao CRISPR, faster, better - The Crackling method for Benchmarking single cell RNA-sequencing simulation whole-genome target detection methods 15:20 Session Talk #98 Session Talk #117 Anushi Shah Belinda Phipson Investigation of de novo mutations in human propeller: finding statistically significant differences in cell type genomes using whole genome sequencing proportions in single cell RNA-seq experiments datasets 15:30 Session Talk #103 Session Talk #16 Varuni Sarwal Marie Trussart A comprehensive benchmarking of WGS-based Removing unwanted variation with CytofRUV to integrate structural variant
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