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While data processing pipelines in ChipSeq, RNA-seq, exome seq, proteomics and data integration are taught and discussed, the major focus of the workshop is made not at the specific parameter selection but at the downstream biological results: what are experimental caveats of the generating data, how to generate hypothesis based on the data, and how to design experiment based on the computational hypothesis.

The aim is to enrol 30 people, ideally, half of them are biologists interested in bioinformatics and half are bioinformatician interested in better integration with biology. There is a questionnaire to be filled during the registration process to facilitate this task.

Each day, half the time devoted to lectures and half the time devoted to practical session. For practical sessions people are paired up "bioinformatician"+"biologist" and then each day pairs are shuffled.

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Topics Covered

  • Transcriptomics:
    • RNA-seq and gene expression pipeline(star, deseq2, fastqc)
    • Biological interpretation of the transcriptional data: pathways analysis
    • Connecting different phenotypes based on transcriptional data and generating hypothesis
    • Cell mixture deconvolution
  • Introduction into metabolomics and data integration using networks:
    • Transcriptional-metabolomic integration using metabolomic networks (analysis, cytoscape, etc..)
    • Flux Balance Analysis
  • Medical and Population Genetics:
    • Genetic causes of a disease. DNA variants. HapMap & GWAS. Next generation sequencing. Exome and Genome sequencing.
    • Data analysis interpretation and validation of novel (hapmap, dbsnp, gatk, plink-seq, bwa, picard etc).
    • Mutation-phenotype relationship, genotype-phenotype interpretations, experimental validation
  • Epigenetic regulation and data analysis:
    • Bowtie, macs, sicer, meme, CHromHmm etc...
    • Using Encode data for hypothesis generation
    • Integration with transcription
  • Proteomics
    • Label vs label free quantitative proteomic analyses
    • Post-translational modifications

Information

  • Venue
    Seminar Room 6.1 and 6.2,
    Garvan Institute of Medical Research,
    384 Victoria St, Darlinghurst, Sydney
  • Date
    10 - 13 April (Mon - Thurs), 9am to 6pm
  • Cost
    $300
  • Spots to be filled
    30

Registration process

Candidates will be asked to answer a questionnaire. From them, 15 bioinformaticians and 15 biologist will be selected to participate in the 4 days boot camp stile workshop. Selected canddates will be invoices with a registration fee of $300 which includes assistance to the Workshop, both lunch and coffee breaks during the duration of the same.

Event is now full and closed to registrations.

Cancellations

All cancellations and requests for registration refunds must be made in writing to Belinda Platzer.

A substitute delegate (from your organisation) may attend in your place by prior arrangement with Maxim Artyomov and Mark Febbraio.

No refunds will be given for non-attendance at the workshop.

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