Advanced Bioinformatics workshop for early career researchers.
The Australian Centre for Ancient DNA (ACAD) is pleased to present its 8th Early Career Researcher workshop, as 2 separate programs for 2017. Sponsored by CABAH, headlining this year's program are international experts Blanca Himes and Allan McRae for the 2 day NGS program; and Antonio Gonzalez Pena, Ran Bleckman and Dan Huson for the 3 day metagenomics workshop. Priority entry will be granted tto delegates wishing to do the full week's program.
Pre-requisites: Delegates must be fluent with UNIX environments and command lines, and will require an intermediate knowledge of the technology and analytical tools of NGS. There will be no introduction lectures in this program, so please be aware that tutors will pitch at an intermediate level.
Daniel's research emphasis is on the development of computational methods that enable analysis of microbiome data at scale. Daniel oversaw the American Gut Project from its infancy to a successful crowd funded multinational effort, and is currenlty reworking a central algorithm to the microbiome field, UniFrac, to allow it to scale effectively to hundreds of thousands of samples. Daniel is also a core developer and contributor for a few projects, most notably Qiita and QIIME.
Dr Himes obtained her PhD in Medical Physics and Bioinformatics from Harvard MIT. Her research has focused on asthma genetics and pharmacogenetics, using traditional statistical approaches and machine learning methods. Dr Himes is currently an Assistant Professor of Informatics in the Department of biostatistics, Epidemiology and Informatics at the University of Pennsylvania.
Dr Allan McRae obtained a BSc in Statistics from the University of Otago and his PhD in Quantitative Genetics from the University of Edinburgh. Allan currently leads the Systems Genomics theme in the Program in Complex Trait Genomics at the Institute for Molecular Bioscience, UoQ. His research group focuses on the understanding of genetic and environmental control of variation in low level biological traits, including DNA methlyation and gene expression, and how this can inform our understanding of complex disease.
Dan is Professor of Algorithims in Bioinformatics at the University of Tubingen. Dan's main focus is on developing new and advanced algorithms for bioinformatics with particular interest in Phylogenetic Trees and networks, metagenomic anlaysis, resequencing and genome analysis, miRNAs as well as Evolution and Ecology. He serves as a Member of the Scientific Advisory Board of CeGAT GmbH.
Program 13-17 November
|2 x day NGS program||2 x day Metagenomics program|
|includes morning tea break||
Monday 13th Blanca Himes
Tuesday 14th Allan McRae
Wednesday 15th Daniel McDonald
|Thursday 16th Dan Huson||
9:15 - 10:15am Welcome, introductions and PC login setups
10:15 From raw NGS Data to variants of interest.
|Genome-wide association studies: revealing the hidden genomic machinery||An introduction to microbial community data analysis with QIIME2 and Qiita||MALT, MEGAN
DIAMOND + MEGAN (for short reads
|Time allocated for debrief with tutors. Go through own datasets, ask questions about the week's program, etc.|
|includes afternoon tea break||Hands on: High-throughput data analysis pipeline: a comprehensive guide on using BWA and GATK||Hands on: GWAS session using PLINK and R.||Hands on: from sequences to results with QIIME2||Hands on: LAST+MEGAN-LR (long reads)|
|Public lectures 5-6pm||Allan McRae: The genomic basis of human disease||Daniel McDonald: From poop to glaciers: insights into our microbial world||Dan Huson: Computational microbiome sequencing data for short and long reads||Blanca Himes: Omics approaches to study asthma||N/A|
Registration $300 to attend the full week (5 day) program. $200 to attend either the Metagenomics 2 day session or 2 day NGS session. Payment online for registration is made available here
Venue Hands on session and lectures are in the Mawson Building, Computer Suite ground floor G12, and Mawson Lecture Theatre, ground floor G19 map here.
Accommodation The following is a list of accommodation venues we normaly use for their close proximity to the University and affordability:
- Adelaide Riviera Hotel, North Terrace, City. Standard room is around AUD $125.00 and approx 10mins walk to the University. Contact phone +61 8231 8000 or Toll free in Australia only # 1800 061 300.
- Hotel Grand Chanchellor Adelaide on Hindley - 65 Hindley Street, Adelaide city. 7mins walk to the University campus. Contact email: firstname.lastname@example.org / phone: +61 8 8231 5552 Standard room from $150/night.
- The Oaks Embassy 96 North Terrace, Adelaide. 1 bedroom apartment from AUD $135.00.
- Try the site Backpacker and Youth/Student Hostels in Adelaide where a listing of local backpackers is provided.
- Another site for students who are willing to share accommodation - check EasyRoommate or Adelaide Backpackers.