AUG 20, 2014 02:15 PM PDT

Identifying transcriptional regulators of human embryonic development via expression variability

Speakers
  • Assistant Professor, Department of Systems & Computational Biology, Assistant Professor, Department of Epidemiology & Population Health, Albert Einstein College of Medicine
    Biography
      Jessica Mar is an Assistant Professor at Albert Einstein College of Medicine in the Department of Systems and Computational Biology in the Bronx, New York. The focus of the Mar lab is to understand how variability in gene expression contributes to the regulation of cellular phenotypes. Around the topic of variability, her work involves applications in single cell genomics, stem cells, genetics and cancer biology. Jessica Mar received her Bachelor of Science degree in Mathematics at the University of Queensland in Brisbane, Australia and First Class Honors in Statistics in 2002. She got her PhD in Biostatistics from Harvard University in 2008. Previously she was a postdoctoral research fellow at the Dana-Farber Cancer Institute in Boston, and a visiting scientist at the European Bioinformatics Institute in the UK. Since July 2016, Dr. Mar holds a joint appointment with the Australian Institute for Bioengineering and Nanotechnology at the University of Queensland, Australia as a Group Leader.

    Abstract:

    Understanding how genes coordinate their expression across cells in a growing embryo can provide insights into the transcriptional programs that control development. Intercellular variability of gene expression reflects how consistent expression levels are between cells of the same embryo. An analysis of expression variability can therefore identify which genes are consistently or heterogeneously expressed in a population of cells, and provides a window into regulatory control. Using an analysis of previously published single-cell RNA-seq data set on embryos at collected at different developmental stages, we have identified a putative set of gene expression markers of morulae and blastocyst stages based on changes in intercellular variability. We highlight how genes with extreme levels of variability are enriched for distinct functions and pathways; lowly variable genes operate in maintenance pathways such as protein synthesis, gene expression and cell cycle while highly variable genes tend to be involved in metabolism. Our results suggest that genes with critical and survival roles for the cell are expressed stably while those related to specialized functions are have variable inter-cellular expression. We identified genes with invariant expression across the development stages; such genes fall clearly into three categories of modes corresponding to off, on and highly activated levels of expression. Genes switched on are involved in critical regulatory pathways like EIF2 signaling, protein ubiquitination and mTOR signaling. Genes that are consistently off function in the development of specialized cell types and metabolites. Overall, our analysis suggests new regulators involved in controlling the development of human embryos that would have otherwise been missed using methods that focus on average expression levels and highlight the value in studying expression variability.


    Show Resources
    You May Also Like
    SEP 05, 2019 04:00 PM CEST
    C.E. CREDITS
    SEP 05, 2019 04:00 PM CEST
    DATE: September 5, 2019TIME: 7:00am PT, 10:00am ET, 4:00pm CEST PCR (Polymerase Chain Reaction) has gone through a massive evolution since its development in 1983. Besides it...
    MAY 16, 2019 04:00 PM CEST
    C.E. CREDITS
    MAY 16, 2019 04:00 PM CEST
    DATE: May 16, 2019TIME: 7:00am PDT, 10:00am EDT, 4:00pm CEST The emergence of NGS is revolutionizing the microbiological sciences and transforming medicine. Deep sequencing has...
    AUG 27, 2019 09:00 AM PDT
    C.E. CREDITS
    AUG 27, 2019 09:00 AM PDT
    DATE: August 27, 2019 TIME: 9:00am PDT, 12:00pm EDT Immunotherapies targeting PD-1 or PD-L1 have proven remarkably effective for treating cancer in some patients, with considerabl...
    JUN 19, 2019 10:00 AM PDT
    JUN 19, 2019 10:00 AM PDT
    DATE: June 19, 2019TIME: 10:00am PDT, 1:00pm EDT As we develop new methods to create more biologically relevant models for research in understanding disease etiology and in...
    OCT 02, 2019 11:00 AM PDT
    OCT 02, 2019 11:00 AM PDT
    DATE: October 2, 2019TIME: 11:00am PDT, 2:00pm EDT Ditch the Excel spreadsheets and manage your molecular workflows entirely in your LIMS Achieve configuration of molecular workf...
    JUN 05, 2019 05:00 PM CEST
    C.E. CREDITS
    JUN 05, 2019 05:00 PM CEST
    DATE: June 5, 2019TIME: 8:00am PDT, 11:00am EDT, 5:00pm CEST Eukaryotic cell cultures respond to the most subtle influence. Apart from the risk of contamination, minimal chan...
    Loading Comments...
    Show Resources