PUBLICATIONS

Johnstone, TG, Bazzini, AA and Giraldez, AJ (2016), Upstream ORFs are prevalent translational repressors in vertebrates. The EMBO Journal.

Kasper DM, Wang G, Gardner KE, Johnstone TG, Reinke V (2014). The C.elegans SNAPc Component SNPC-4 Coats piRNA Domains and Is Globally Required for piRNA Abundance. Developmental Cell, 31

Bazzini AA & Johnstone TG, Christiano R, Mackowiak SD, Obermayer B, Fleming ES, Vejnar CE, Lee MT, Rajewsky N, Walther TC Giraldez, AJ (2014). Identification of small ORFs in vertebrates using ribosome footprinting and evolutionary conservation. EMBO Journal

Vartanian K, Slottke R, Johnstone T, Casale A, Planck SR, Choi D., Smith JR, Rosenbaum JT, Harrington CA (2009). Gene expression profiling of whole blood: comparison of target preparation methods for accurate and reproducible microarray analysis. BMC Genomics, 10 (2).

 

ABSTRACTS/POSTERS/PRESENTATIONS

Johnstone, TG; Bazzini, AA; Giraldez, AJ. Upstream ORFs act as prevalent translational repressors in vertebrates. Yale Genetics Retreat (September 2015)

Bazzini AA* & Johnstone TG*, Christiano R, Mackowiak SD, Obermayer B, Fleming ES, Vejnar CE, Lee MT, Rajewsky N, Walther TC Giraldez, AJ. Identification of smallORFs in vertebrates using ribosome footprinting and evolutionary conservation. Keystone Symposium: Non-coding RNAs – Marching into Mechanism, March 2014

Johnstone, T; Bazzini, A; Christiano, R; Fleming, E; Walther, T; Giraldez, A. Visualizing Translation: Analysis of coding regions in the zebrafish transcriptome. Yale Genetics Retreat (November 2013)

Bazzini, A; Johnstone, T; Christiano, R; Fleming, E; Walther, T; Giraldez, A. Identification of Non-Coding RNAs and Small Coding Regions using Ribosome Profiling. 8th Annual European Zebrafish Meeting (July 2013)

Shatkay, H; Narayanaswamy, R; Nagaral, S; Harrington, N; Mv, R; Somanath, G; Tarpine, R; Schutter, K; Johnstone, T; Blostein, D; Istrail, S; Kambahmettu, C. OCR-based Image Features for Biomedical Image and Article Classification: Identifying Documents relevant to Cis-Regulatory Elements. ACM Conference on Bioinformatics, Computational Biology and Biomedicine (ACMBCB, October 2012)

Johnstone T. (2012) Gene Regulatory Networks: An algorithm to discover causal relationships through systematic experimentation. Presented at Brown University Biological Sciences Undergraduate Honors Poster Session and as senior honors thesis, Awarded Senior Thesis Prize in Biology, April 2012

Tarpine R; Hart J; Johnstone T; Aguiar D; Istrail S. (2011) Report on the CYRENE Project: A cis-Lexicon containing the regulatory architecture of 586 regulatory genes experimentally validated using the “Davidson Criteria”. Presented at Developmental Biology of the Sea Urchin XX in April 2011

Chan L; Ho J; Johnstone T; Kao J; Richman E; Weis J (2010). A Quad State Light Pattern Controlled Circuit and E. Cargo Delivery System. Presented at MIT iGEM Jamboree in November 2010. *All authors contributed equally

Kunduru, V; Prasad, S; Lee, D; Johnstone, T; Harrington, C. (2010) Microelectrode Array Cell Sorter for Rapid Separation of Blood Cells. Presented at Oregon Clinical and Translational Research Awards 2010

Shutter K; Halpert J; Johnstone T; Moskowitz D; Aguiar D; Tarpine R; Istrail S. (2009) Report on the CYRENE Project: A cis-Lexicon Containing the cis-Regulatory Architecture of 300 Regulatory Genes. Presented at Developmental Biology of the Sea Urchin XIX in October 2009