Sam Buckberry, PhD
The University of Western Australia
Faculty of Science
M316, 35 Stirling Highway
Crawley, WA 6009
Australia


Current position


NHMRC-ARC Dementia Research Fellow
Lister Lab (epigenetics and genomics)
Harry Perkins Institute of Medical Research
The University of Western Australia


Education


Doctor of Philosophy
The University of Adelaide (2012-2015)
Thesis: An integrative analysis of the human placental transcriptome.
Submitted April 2015 and accepted without change July 2015.
Awarded the Dean’s commendation for doctoral thesis excellence.

Bachelor of Health Science - First Class Honours
The University of Adelaide (2011)
This honours research revealed epigenetic imprinting plasticity of a long non-coding RNA in the human placenta during early development.

Bachelor of Science
Flinders University (2008-2010)
Extended Major in Biological Sciences
Graduated among the top 10% of students and received the Chancellor’s Commendation in two consecutive years.


Research funding


NHMRC-ARC Dementia Research Development Fellowship Grant (2016-2019): The Role of the neuronal methylome in natural brain ageing and the progression of Alzheimer’s Disease (APP1111206). BUCKBERRY S (CIA) $584,644

NHMRC Peter Doherty Biomedical Early Career Fellowship Award (2016-2019): The role of atypical DNA methylation in neuronal genome regulation and neurodevelopmental disorders (APP1110063). BUCKBERRY S (CIA) $314,644. This research fellowship was relinquished to accept the grant above.

Robinson Research Institute Seed Funding (2015-2016): A multi-faceted approach to understanding the consequences of diabetes in early pregnancy. BROWN HM, NOTTLE M, GATFORD K, DUNNING K, BREEN J & BUCKBERRY S. $25,000

Robinson Research Institute Seed Funding (2014-2015): Investigating new mechanisms regulating transcription in the pre-implantation embryo.
BROWN HM, BENT SJ, BUCKBERRY S, THOMPSON JG. $25,000


Awards, scholarships & fellowships



Training



Memberships and affiliations



Teaching


Lecturer for the Masters level topic The Objectives and Applications of Genomics 2017 (SCIE4001). School of Chemistry and Biochemistry, The University of Western Australia.

Teaching Assistant for RNA-Seq analysis workshops at BioInfoSummer Conference 2013, Australian Mathematical Sciences Institute and the University of Adelaide.

Teaching Assistant for the Bioinformatics Workshops 2013, the University of Adelaide.

Tutor and Coordinator for undergraduate biology Peer Assisted Study Sessions (PASS), Flinders University (2010–2011).


Conference presentations


Oral presentations

Characterising epigenome dynamics during the reprogramming of somatic cells to iPS cells. Lorne Genome Conference 2017. Lorne, Australia.

Characterising epigenome dynamics during the reprogramming of somatic cells to iPS cells. Best ECR oral presentation, Australiasian Genomic Technologies Association (AGTA) Conference 2016. Auckland, New Zealand.

Moving towards integrative epigenomic analyses. International Federation of Placenta Associations (IFPA) Conference 2015. Brisbane, Australia. Invited presentation.

Integrative analysis of placental transcriptome organization reveals highly conserved regulatory programs and points toward a preeclampsia gene cluster.
New investigator award session. International Federation of Placenta Associations (IFPA) Conference 2015. Brisbane, Australia.

Integrative transcriptome meta-analysis reveals widespread sex-biased gene expression patterns in human extra-embryonic tissue. Promega PhD Student Award, Lorne Genome Conference 2014. Lorne Victoria, Australia.

What can big data tell us about big tummies? Robinson Research Institute Symposium 2014. Adelaide, Australia. Invited presentation.

Using RNA sequencing to comprehensively profile the transcriptomes of reproductive tissues. Society for Reproductive Biology Conference 2014. Melbourne, Australia. Invited presentation.

Sexual inequality begins in utero with genome-wide differences in the human placental transcriptome. ANZPRA new investigator award session,
Society for Reproductive Biology Conference 2013. Sydney, Australia.

Using RNA sequencing to quantify placental transcriptomes. Methods in Reproductive Biology Symposium 2013. Mercy Hospital for Women, Melbourne, Australia. Invited presentation.

Sex-biased gene expression at the human fetal-maternal interface. Australian Society for Medical Research Annual Meeting 2013. Adelaide, Australia.

Quantitative allele-specific expression analysis reveals imprinting plasticity of the H19 lincRNA. ANZPRA new investigator award session,
Society for Reproductive Biology Conference 2012. Gold Coast, Australia.

Allele-specific expression of H19 and IGF2 in the human placenta across gestation. Honours award session, Australian Society for Medical Research Annual Meeting 2012. Adelaide, Australia.

Poster presentations

Placental transcriptome co-expression analysis reveals conserved regulatory programs and points toward a preeclampsia gene cluster. Australian Society for Medical Research Annual Meeting 2015. Adelaide, Australia

Quantitative analysis of imprinted genes in the human placenta revelas developmental stage-specific imprinting plasticity. Lorne Genome Conference 2013. Lorne, Australia.

Allele-specific expression of H19, IGF2 and IGF2R in the human placenta through gestation. Epigenetics Alliance Conference 2012. Adelaide, Australia.


Publications


Peer-reviewed articles

Wilson RL, Leemaqz SY, Goh Z, McAninch D, Jankovic-Karasoulos T, Leghi GE, Phillips JA, Colafella KM, Tran C, O’Leary S, Buckberry S, Pederson S, Robertson SA, Bianco-Miotto T, Roberts CT (2017). Zinc is a critical regulator of placental morphogenesis and maternal hemodynamics during pregnancy in mice. Scientific Reports Nov 9;7(1):15137 Pubmed

Valensisi C, Andrus C, Buckberry S, Doni Jayavelu N, Lund RJ, Lister R and Hawkins RD (2017). Epigenomic Landscapes of hESC-Derived Neural Rosettes: Modeling Neural Tube Formation and Diseases. Cell Reports 8:20 Pubmed

Lumb R, Buckberry S, Secker G, Lawrence D and Schwarz Q (2017). Transcriptome profiling reveals expression signatures of cranial neural crest cells arising from different axial levels. BMC Developmental Biology 17:5 Pubmed

Buckberry S, Bianco-Miotto T, Bent SJ, Clifton V, Shoubridge C, Shankar K and Roberts CT (2017). Placental transcriptome co-expression analysis reveals conserved regulatory programs across gestation. BMC Genomics 18:10 Pubmed

Mayne B, Bianco-Miotto T, Buckberry S, Breen J, Clifton V, Shoubridge C, Roberts CT (2016). Large scale gene expression meta-analysis reveals tissue-specific, sex-biased gene expression in humans. Frontiers in Genetics Pubmed

Highet AR, Buckberry S, Mayne BT, Khoda SM, Bianco-Miotto T, Roberts CT (2016). First trimester trophoblasts forming endothelial-like tubes in vitro emulate a ‘blood vessel development’ gene expression profile. Gene Expression Patterns Pubmed

Bianco-Miotto T, Mayne B, Buckberry S, Breen J, Rodriguez Lopez C, Roberts CT (2016). Recent progress towards understanding the role of DNA methylation in human placental development. Reproduction Pubmed

Highet HR, Khoda SM, Buckberry S, Leemaqz S, Bianco-Miotto T, Harrington E, Ricciardelli C & Roberts CT (2015). Hypoxia induced HIF-1/HIF-2 activity alters trophoblast transcriptional regulation and promotes invasion. European Journal of Cell Biology 94(12):589-602. Pubmed

Wilson RL1, Buckberry S1, Spronk F1, Laurence JA, Leemaqz S, O’Leary S, Bianco-Miotto T, Du J, Anderson PH & Roberts CT (2015). Vitamin D Receptor Gene Ablation in the Conceptus Has Limited Effects on Placental Morphology, Function and Pregnancy Outcome. PLoS ONE 10(6):e0131287. 1These authors contributed equally to this work. Pubmed

Buckberry S, Bianco-Miotto T, Bent SJ, Dekker GA & Roberts CT (2014). Integrative transcriptome meta-analysis reveals widespread sex-biased gene expression at the human fetal–maternal interface. Molecular Human Reproduction 20(8):810-9. Pubmed

Buckberry S, Bent SJ, Bianco-Miotto T & Roberts CT (2014). MassiR: a method for predicting the sex of samples in gene expression microarray datasets. Bioinformatics 30(14):2084-5. Pubmed

Buckberry S, Bianco-Miotto T & Roberts CT (2014). Imprinted and X-linked non-coding RNAs as potential regulators of human placental function, Epigenetics 9(1):81-9. Pubmed

Gatford KL, Heinemann GK, Thompson SD, Zhang JV, Buckberry S, Owens J, Dekker GA & Roberts CT (2014). Circulating IGF1 and IGF2 and SNP genotypes in pregnant and non-pregnant women and men. Endocrine Connections 3(3):138–149. Pubmed

Buckberry S, Bianco-Miotto T, Hiendleder S & Roberts CT (2012). Quantitative Allele-Specific Expression and DNA Methylation Analysis of H19, IGF2 and IGF2R in the Human Placenta across Gestation Reveals H19 Imprinting Plasticity. PLoS ONE 7(12):e51210. Pubmed

Buckberry S & Burke da Silva K (2012). Evolution: improving the understanding of undergraduate students with an active pedagogical approach. Evolution, Education & Outreach 5(2):266-273. Webpage

Feature articles

Buckberry S & Roberts CT (2014). Why are males more at risk in the womb? Australasian Science, November 2014. Webpage

Datasets

Buckberry S, Spronk F, Wilson RL, Laurence JA, Bianco-Miotto T, Leemaqz S, O’Leary S, Anderson PH & Roberts CT (2015). The effect of Vdr gene ablation on global gene expression in the mouse placenta. Genomics Data 6:72-73. Pubmed