COMBINE/AYRCOB19 Program

Program for the COMBINE/AYRCOB Symposium 2019. Please note this may be subject to change.

The booklet can also be downloaded as a PDF.

Main program

8:00 Registration and poster hanging
8:50 Symposium Welcoming Address

Session 1 (Chair: Jinxin Zhao)

9:00 Roni Froumine Predicting CRISPR-Cas activity and exploring its relationship with antimicrobial resistance in Klebsiella pneumoniae.
9:15 Gerry Tonkin-Hill Preventing Pangenome Pitfalls with Panaro.
9:30 Maria Satti Comparative genomic analysis of Bifidobacterium species isolated from Egyptian fruit bat Rousettus egyptiacus.
9:45 Jieun Hani Kim CiteFuse: a comprehensive toolkit for the analysis of CITE-seq data.
10:00 Pablo Acera Mateos Comprehensive identification of nucleotide biochemical modifications from nanopore signal data.
10:15 Morning Tea

Session 2 (Chair: Anushi Shah)

10:45 Rachel Bowen-James Exploring somatic BAM compression.
11:00 Richard Lupat Application of Deep Learning Techniques in Extracting Features from Breast Cancer Genomic Data.
11:15 Tingting Gong Refining somatic structural variant detection and annotation for precision oncology.
11:30 Alessandra Whaite The role of proteomics in understanding the structure of natural protein fibres produced by molluscs and spiders.
11:45 Nhi Hin RNA-seq analysis in a zebrafish model of Alzheimer’s disease highlights the importance of iron homeostasis.
12:00 Fast forward talks (Chair: Yingxin Lin & Katarina Stuart)
12:20 Lunch & Poster session

Session 3 (Chair: Tingting Gong)

13:30 Marina Reixachs Ribosome profiling at isoform level reveals an evolutionary conserved impact of differential splicing on the proteome.
13:45 Ahmad Zeeshan Siddiqui Tissue-specific expression of circular RNAs in healthy human adults.
14:00 Qiuyi Li HIDTL, a new model of gene family evolution.
14:15 Ilariya Tarasova Exploration of time and division dependent gene expression during B cell division.
14:30 Xiangnan Xu LC-N2G: A Local Consistency Approach for Nutrigenomics Data Analysis.
14:45 Afternoon tea
15:15 Welcome to Country/Conference
15:40 Joint keynote of COMBINE, AYRCOB, ABACBS and GIW
16:30 COMBINE Awards, ABACBS Awards + ABACBS Award Q&A
17:10 Welcome reception drinks

Evening events

17:30 Career Panel at CPC Level 6 Seminar Room: Prof. Rafael Irizarry, Prof. Marcel Dinger, Dr. Denis Bauer, Dr. Emily Wong
19:00 Social Night at CPC Level 6 Seminar Room

Fast forward order

ID Title Presenter
1 Gene signature-based predictive models suitable for clinical translation. Dharmesh D. Bhuva
2 ampir: an R package to predict antimicrobial peptides in genomes. Legana Fingerhut
3 The unique methylation profile of the placenta can be used for quality control. Qianhui Wan
4 Investigation of de novo mutations in human genomes using whole genome sequencing datasets. Anushi Shah
5 CPOP: Cross-Platform Omics Prediction procedure enables precision medicine Kevin Wang
6 Opportunities and challenges of analysing multi-regional tumour biopsies to characterise heterogeneity in cancer Sebastian Hollizeck
7 Human transposons are an abundant supply of transcription factor binding sites and promoter activities in breast cancer cell lines. Jiayue-Clara Jiang
8 A 9-gene score for predicting B-ALL risk of relapse and survival. Feng Yan
9 Orthogonal evidence for Olfactory Receptors can be used for agonist prediction. Amara Jabeen
10 sPLSDA-batch: Batch effect correction in microbiome data. Yiwen Wang
11 Comparison of algorithms for mtDNA variant discovery from whole-genome sequencing data. Eddie K.K. Ip
12 Human Brain eQTL: Analysis and Insights. Letitia Sng
13 Strain level genotyping of microbial communities using long and short read phasing. Rhys Newell
14 The dynamic genome behind the emergence of octopod novelties. Brooke Whitelaw
15 Bioinformatic analysis of genome-wide SNPs elucidates cryptic species boundaries and potential speciation of Australian toadlets (Myobatrachidae: Uperoleia) Frederick Jaya
16 Predicting the functional effect of genetic changes using variant effect prediction algorithms Emma Darling

 

Posters

Poster ID Title Author
1 Comparative analysis of alternative promoters in immune and non-immune tissues by RNA-seq and H3K4me3 ChIP-seq data Marco Montes de Oca
2 Transcriptome profiling of individuals with compromised nonsense-mediated mRNA decay implicates immune system and neuronal cell dysfunction in neurodevelopmental disorders Urwah Nawaz
3 Multi-breed comparison of canine lymphoma susceptibility Victor Wei Tse Hsu
4 Benchmarking short and long read Capture sequencing techniques to identify novel transcripts in neuropsychiatric disorder risk genes Shweta S. Joshi
5 Assessing the performance of recombination detection methods using simulated viral sequences Frederick Jaya
6 ConanVarvar: a versatile tool for the detection of large syndromic copy number variation from whole genome sequencing data Mikhail Gudkov
7 Identifying candidate cis-regulatory variants in regulatory T cells for Type 1 Diabetes research Ning Liu
8 A comprehensive miRSeq profile of miRNA in the human placenta across early gestation. Melanie Smith
9 Investigating Tumour Heterogeneity using Computational Modelling of Patient-Specific Network Rewiring John Salamon
10 Development of a one-stop thalassaemia screening method by next generation sequencing Yujie Cao
11 Functional studies of plastid-targeted protein 1 (PTP-1) gene associated with desiccation tolerance in the resurrection plant Craterostigma plantagineum Ahmad Mollazadeh Taghipour
12 Genome-wide cell-free DNA fragmentation in patients with cancer Stephen Cristiano
13 Benchmarking state-of-the-art genome assembly methods for eukaryotic genomes
14 Introme: Identifying atypical splice-altering mutations as drivers of high-risk paediatric cancer Patricia Sullivan
15 Autoencoder-based cluster ensembles for single-cell RNA-seq data analysis Thomas Geddes
16 Integrative Approaches in Functional Genomics to Identify Genetic Dependencies in Paediatric Cancer Claire Sun
17 SVEnsemble: an algorithm for ensemble structural variant calling using re-evaluated quality scores via probabilistic random forest Ruining Dong
18 A Bayesian hierarchical model for detecting differential gene expression distributions for RNA-seq data Aedan Roberts
19 ReorientExpress: reference-free orientation of nanopore cDNA reads with deep learning akanksha srivastava
20 scDC: Single cell differential composition analysis Yue Cao
21 Understanding the in vivo function of A-to-I RNA editing by ADARs Xining Li
22 Predicting the functional effect of genetic changes using variant effect prediction algorithms Emma Darling
23 FlowGrid: A python package for fast clustering for millions of single cell transcriptomic profiles Xiunan Fang
24 Using tRNA-seq, RNA-seq, and proteomics data analysis to investigate the importance of tRNA modifications ‚A case study of tRNA Guanine and Inosine-N1-methyltransferase TRM5 in Arabidopsis thaliana. Pei Qin Ng
25 Single-cell transcriptomic and epigenomics map effector to memory CD4+ T cell transition in vivo. Megan Soon
26 openMTB: A System for Evidence-Driven Personalized Cancer Treatments in Molecular Tumor Boards Rui Chen
27 A Mix-And-Match Library Approach for Enriching Plasma Proteome Discovery Zainab Noor
28 Accurate identification of mRNA splice sites using Oxford Nanopore sequencing YUPEI YOU
29 The role of kinases in the differentiation of bone marrow stromal cells into osteoblasts: a systematic analysis by knockdown Angelita Liang
30 Spatial Analysis of Highly Multiplexed Microscopy Data Nicolas Canete
31 Using genomics to reveal drivers of invasion success Katarina Stuart
32 Multiscale hierarchical classification of single cells into cell-types and sample size learning Yingxin Lin
33 The relationship between maternal gut microbiota during pregnancy and the offspring’s immune phenotype: a birth cohort study. Yuan Gao
34 Discovery of perturbation gene targets via free text metadata mining in Gene Expression Omnibus Gordon Qian
35 A Case Study of Cutting-Edge Immunology: Interrogating Results from a Large-Scale RNA-Sequencing Experiment Samuel Old
36 Inference of the parsimonious mechanism underlying the emergence of alpha-blocking in human electroencephalography Agus Hartoyo
37 Identifying the genes that yield the benefits of dietary restriction without the costs. Javier Ortega
38 Integration of transcriptomics data in a genome-scale metabolic model to decipher the mechanisms of polymyxin resistance in Acinetobacter baumannii Jinxin Zhao
39 Gene signature-based predictive models suitable for clinical translation Dharmesh D. Bhuva
40 Bioinformatic analysis of genome-wide SNPs elucidates cryptic species boundaries and potential speciation of Australian toadlets (Myobatrachidae: Uperoleia) Frederick Jaya
41 ampir: an R package to predict antimicrobial peptides in genomes Legana Fingerhut
42 The unique methylation profile of the placenta can be used for quality control. Qianhui Wan
43 Investigation of de novo mutations in human genomes using whole genome sequencing datasets Anushi Shah
44 CPOP: Cross-Platform Omics Prediction procedure enables precision medicine Kevin Wang
45 Opportunities and challenges of analysing multi-regional tumour biopsies to characterise heterogeneity in cancer Sebastian Hollizeck
46 Human transposons are an abundant supply of transcription factor binding sites and promoter activities in breast cancer cell lines. Jiayue-Clara Jiang
47 A 9-gene score for predicting B-ALL risk of relapse and survival Feng Yan
48 Orthogonal evidence for Olfactory Receptors can be used for agonist prediction Amara Jabeen
49 sPLSDA-batch: Batch effect correction in microbiome data Yiwen Wang
50 Comparison of algorithms for mtDNA variant discovery from whole-genome sequencing data Eddie K.K. Ip
51 Human Brain eQTL: Analysis and Insights Letitia Sng
52 Strain level genotyping of microbial communities using long and short read phasing Rhys Newell
53 The dynamic genome behind the emergence of octopod novelties Brooke Whitelaw