transcriptomics, epigenomics, bioinformatics
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  • Postdoctoral Scientist
  • Freelance Consultant

Research interests

Dr Shepherd is interested in the questions surrounding the transcriptional and epigenetic regulation of cell fate in terms of stem cell differentiation and somatic cell reprogramming. Her work involves applying high throughput transcriptomic and epigenomic techniques to address these sorts of problems within the context of in vitro stem cell systems and disease models. Recently Dr. Shepherd worked on the Stemformatics project, an ongoing collaborative effort between the stem cell research and bioinformatics communities aiming to improve accessibility, statistical interpretation and utility of genome-scale datasets for the advancement of stem cell genomics.

Dr Shepherd has recently taken a regulatory affairs position with the Human Tissue Authority (HTA) in London working on issues relating to cell therapy and regenerative medicine in the UK. She has a special interest in policy development around the clinical translation of human embryonic stem cell derivatives.


  1. Kolle G, Shepherd JL, Gardiner B, Kassahn K, Cloonan N, Wood DLA, Nourbaksh E, Taylor DF, Wani S, Chy HS, Zhou Q, McKernan K, Kuersten S, Laslett A, Grimmond SM. Deep-transcriptome and ribonome sequencing redefines the molecular networks of pluripotency and the extracellular space in human embryonic stem cells. Genome Res. 21(12):2014-25.2011.
  2. Shepherd JL, Gongora M, Heath PR, Holden H, Grimmond SM, Andrews PW, Moore HD. Mosaic expression of the pluripotency marker SSEA-3 correlates with altered cell cycle regulation within hESC colonies. Manuscript in preparation
  3. Shepherd JL, Avery K, Gongora M, Heath PR, Holden H, Grimmond SM, Moore HD. Transcriptional analysis of human embryonic stem cells and their differentiated counterparts cultured under feeder-free and feeder-dependent conditions. Manuscript in preparation.
  4. Avery K, Avery S, Shepherd JL, Heath PR, Moore HD. Sphingosine-1-phosphate mediates transcriptional regulation of key targets associated with survival, proliferation and pluripotency in human embryonic stem cells. Stem Cells Dev. 17:1195-1206. 2008.
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