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  • GIH Newsletter Feb 2021

    GIH Newsletter Feb 2021

    Published on: 8 February 2021
  • Improvements in the Sequencing and Assembly of Plant Genomes

    Publication: Improvements in the Sequencing and Assembly of Plant Genomes

    Published on: 22 January 2021
    Advances in DNA sequencing have reduced the difficulty of sequencing and assembling plant genomes. A range of methods for long read sequencing and assembly have been recently compared and we now extend the earlier study and report a comparison with more recent methods.
  • ONT PromethION device

    Publication: Comparison of long read methods

    Published on: 21 December 2020
    In a worlds first, the Genome Innovation Hub and colleagues completed the de novo assembly of the genome of the Australiian wild Macadamia, Macadamia jansenii. By benchmarking different methods for long read sequencing, this publication is a useful, up-to-date comparison of costs and software options for assembly and polishing.
  • kidney icon

    Publication: Spatially resolved transcriptome profiles

    Published on: 30 September 2020
    Spatially resolved transcriptome profiles of mammalian kidneys illustrate the molecular complexity of functional nephron segments, cell-to-cell interactions and genetic variants
  • RNAscope image

    Publication: Spatial analysis of ligand-receptor interactions

    Published on: 12 September 2020
    Spatial analysis of ligand-receptor interactions in skin cancer at genome-wide and single-cell resolution
  • Network image

    Development: Cap analysis gene expression (CAGE)

    Published on: 10 August 2020
    This project established the availability of CAGE through development of an optimized, cost -efficient in-house protocol, benchmarked against a commercially available ‘gold standard’ kit.
  • stLearn

    Publication: stLearn

    Published on: 6 August 2020
    stLearn: integrating spatial location, tissue morphology and gene expression to find cell types, cell-cell interactions and spatial trajectories within undissociated tissues
  • Australian Biocommons

    Webinar: Long read sequencing and assembly of Macadamia jansenii.

    Published on: 1 May 2020
    This webinar will present a comparison of three long read sequencing technologies applied to the de novo assembly of a plant genome, Macadamia jansenii.
    GIH Collaborative Project.
    Hosted by Australian BioCommons.

    Thursday, July 2, 2020, 12:00 PM 1:00 PM
  • Macadamia jansenii

    Webinar: De novo assembly of the genome of Macadamia jansenii

    Published on: 16 April 2020
    In this webinar, Professor Lachlan Coin will talk about his recent study with the Genome Innovation Hub at The University of Queensland for de novo assembly of the genome of Australia’s vulnerable plant species, Macadamia jansenii. In this study several long read sequencing technologies, including MGI’s unique single-tube Long Fragment Read (stLFR), are compared for the same sample.
    GIH Collaborative Project.
    Hosted by MGI
  • TraDIS-vault

    Bioinformatic tool: TraDIS-vault

    Published on: 6 April 2020
    A new tool for visualising TraDIS (Transposon Directed Insertion Site Sequencing ) data. Search for your gene of interest via our new web browser developed with Professor Ian Henderson at the Institute of Biomolecular Sciences (IMB), Dr Dom Gorse at the Queensland Facility for Advanced Bioinformatics (QFAB Bioinformatics) in collaboration with the Genome Innovation Hub (GIH) at the University of Queensland.
  • SpaCell logo

    Publication: SpaCell

    Published on: 1 April 2020
    SpaCell: integrating tissue morphology and spatial gene expression to predict disease cells
  • scSPLIT analysis

    Publication: Genotype-free demultiplexing of pooled scRNA-seq

    Published on: 6 February 2020
    Genome Biology, Open Access
  • stLearn

    Bioinformatic tool: stLearn - a downstream analysis toolkit

    Published on: 1 January 2020
    stLearn is designed to comprehensively analyse Spatial Transcriptomics (ST) data to investigate complex biological processes within an undissociated tissue.
  • scSPLIT tool

    Bioinformatic tool: scSPLIT

    Published on: 20 December 2019
    A new method for demultiplexing pooled scRNA-seq data, which does not require a sample genotype, but uses genetic differences learnt from the data. Developed at The University of Queensland's Genome Innovation Hub (GIH) by Jon Xu with Professor Lachlan Coin (The University of Melbourne, Doherty Institute) and colleagues.
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