A5009825116- Single-cell and spatial transcriptomics
- CRISPR and Genetic Engineering
- Immune Cell Function and Interaction
- T-cell and B-cell Immunology
- Immunotherapy and Immune Responses
- Pluripotent Stem Cells Research
- Extracellular vesicles in disease
- Neonatal Respiratory Health Research
- Gene expression and cancer classification
- CAR-T cell therapy research
- Genetics and Neurodevelopmental Disorders
- Epigenetics and DNA Methylation
- Cancer Genomics and Diagnostics
- RNA and protein synthesis mechanisms
- Genomics and Chromatin Dynamics
- IL-33, ST2, and ILC Pathways
- Retinal Development and Disorders
- Genetic Associations and Epidemiology
- Angiogenesis and VEGF in Cancer
- Cytomegalovirus and herpesvirus research
- RNA Research and Splicing
- Acute Myeloid Leukemia Research
- Zebrafish Biomedical Research Applications
- Cystic Fibrosis Research Advances
- Tracheal and airway disorders
Walter and Eliza Hall Institute of Medical Research
2016-2025
The University of Melbourne
2016-2025
Australian Regenerative Medicine Institute
2023
Monash University
2023
Weizmann Institute of Science
2006-2013
We have generated a mouse that cannot synthesize very long acyl chain (C22-C24) ceramides (Pewzner-Jung, Y., Park, H., Laviad, E. L., Silva, L. C., Lahiri, S., Stiban, J., Erez-Roman, R., Brugger, B., Sachsenheimer, T., Wieland, F. Prieto, M., Merrill, A. and Futerman, H. (2010) J. Biol. Chem. 285, 10902-10910) due to ablation of ceramide synthase 2 (CerS2). As result, significant changes were observed in the sphingolipid profile livers from these mice, including elevated C16-ceramide...
Innate lymphoid cells (ILCs) are enriched at mucosal surfaces, where they provide immune surveillance. All ILC subsets develop from a common progenitor that gives rise to pre-committed progenitors for each of the lineages. Currently, temporal control gene expression guides emergence these is poorly understood. We used global transcriptional mapping analyze in different progenitors. identified PD-1 be specifically expressed PLZF+ ILCp and revealed timing order transcription factors NFIL3,...
Single-cell RNA sequencing (scRNA-seq) technology allows researchers to profile the transcriptomes of thousands cells simultaneously. Protocols that incorporate both designed and random barcodes have greatly increased throughput scRNA-seq, but give rise a more complex data structure. There is need for new tools can handle various barcoding strategies used by different protocols exploit this information quality assessment at sample-level provide effective visualization these results in...
MR1-restricted mucosal-associated invariant T (MAIT) cells play a unique role in the immune system. These develop intrathymically through three-stage process, but events that regulate this are largely unknown. Here, using bulk and single-cell RNA sequencing-based transcriptomic analysis mice humans, we studied changing transcriptional landscape accompanies transition each stage. Many transcripts were sharply modulated during MAIT cell development, including SLAM (signaling lymphocytic...
Single-cell RNA sequencing (scRNA-Seq) has emerged as a powerful tool for understanding cellular heterogeneity and function. However the choice of sample multiplexing reagents can impact data quality experimental outcomes. In this study, we compared various reagents, including MULTI-Seq, Hashtag antibody, CellPlex, across diverse types such human peripheral blood mononuclear cells (PBMCs), mouse embryonic brain patient-derived xenografts (PDXs). We found that all worked well in cell robust...
Regulatory T cells (Tregs) are key immune regulators that have shown promise in enhancing cardiac repair post-MI, although the mechanisms remain elusive. Here, we show rapidly increasing Treg number circulation post-MI via systemic administration of exogenous Tregs improves function male mice, by limiting cardiomyocyte death and reducing fibrosis. Mechanistically, quickly home to infarcted heart adopt an injury-specific transcriptome mediates modulating monocytes/macrophages. Specially, lead...
How platelets are produced by megakaryocytes in vivo remains controversial despite more than a century of investigation. Megakaryocytes readily produce proplatelet structures vitro; however, visualization platelet release from proplatelets has remained elusive. We show that within the native prenatal and adult environments, frequency rate formation is incompatible with physiological demands replacement. resolve this inconsistency performing in-depth analysis plasma membrane budding, cellular...
Vγ9Vδ2 T cells are the largest population of γδ in adults and can play important roles providing effective immunity against cancer infection. Many studies have suggested that peripheral derived from fetal liver thymus postnatal plays little role development these cells. More recent evidence may also develop postnatally thymus. Here, we used high-dimensional flow cytometry, transcriptomic analysis, functional assays, precursor-product experiments to define pathway We identify three distinct...
Background Spatial transcriptomics allows gene expression to be measured within complex tissue contexts. Among the array of spatial capture technologies available is 10x Genomics’ Visium platform, a popular method which enables transcriptomewide profiling sections. offers range sample handling and library construction methods introduces need for benchmarking compare data quality assess how well technology can recover expected features biological signatures. Results Here we present...
Interleukin-(IL) 22 production by intestinal group 3 innate lymphoid cells (ILC3) is critical to maintain gut homeostasis. However, IL-22 needs be tightly controlled; reduced expression associated with epithelial barrier defect while its overexpression promotes tumor development. Here, using a single-cell ribonucleic acid sequencing approach, we identified core set of genes increased ILC3. Among these genes, programmed cell death 1 (PD-1), extensively studied in the context cancer and...
Abstract Archetypal human pluripotent stem cells (hPSC) are widely considered to be equivalent in developmental status mouse epiblast cells, which correspond at a late post-implantation stage of embryogenesis. Heterogeneity within hPSC cultures complicates this interspecies comparison. Here we show that subpopulation archetypal enriched for high self-renewal capacity (ESR) has distinct properties relative the bulk population, including cell cycle with very low G1 fraction and metabolomic...
Aberrant inflammation and structural lung damage occurs early in life for people with cystic fibrosis (CF). Even the era of CFTR modulators, anti-inflammatory therapy may still be needed to prevent establishment lifelong consequences bronchiectasis. In this study, we integrated transcriptome-wide single-cell RNA sequencing data, highly multiplexed surface protein expression, functional pathway analysis create a comprehensive paediatric lower airway atlas 44 immune epithelial cell populations...
Spatial transcriptomics allows gene expression to be measured within complex tissue contexts. Among the array of spatial capture technologies available is 10x Genomics' Visium platform, a popular method which enables transcriptome-wide profiling sections. offers range sample handling and library construction methods introduces need for benchmarking compare data quality assess how well technology can recover expected features biological signatures. Here we present SpatialBenchVisium, unique...