Publications

  1. Rachel M. Simpson, Andrew E. Bruno, Jonathan E. Bard, Michael J. Buck and Laurie K. Read. High-throughput sequencing of partially edited trypanosome mRNAs reveals barriers to editing progression and evidence for alternative editing. RNA, 2016. doi:10.1261/rna.055160.115
  2. Diana Fusco, Timothy J. Barnum, Andrew E. Bruno, Joseph R. Luft, Edward H. Snell, Sayan Mukherjee, Patrick Charbonneau. Statistical Analysis of Crystallization Database Links Protein Physico-Chemical Features with Crystallization Mechanisms. PLoS ONE, 9(7): e101123, 2014. doi:10.1371/journal.pone.0101123
  3. Andrew E. Bruno, Amanda M. Ruby, Joseph R. Luft, Thomas D. Grant, Jayaraman Seetharaman, Gaetano T. Montelione, John F. Hunt, Edward H. Snell. Comparing Chemistry to Outcome: The Development of a Chemical Distance Metric, Coupled with Clustering and Hierarchal Visualization Applied to Macromolecular Crystallography. PLoS ONE, 9(6): e100782, 2014. doi:10.1371/journal.pone.0100782
  4. Sreevidya Sadananda Sadasiva Rao, Lori A. Shepherd, Andrew E. Bruno, Song Liu, and Jeffrey C. Miecznikowski. Comparing Imputation Procedures for Affymetrix Gene Expression Datasets Using MAQC Datasets. Advances in Bioinformatics, vol. 2013, Article ID 790567, 2013. doi:10.1155/2013/790567
  5. J.U. Patel, S.J. Guercio, A.E. Bruno, M.D. Jones, T.R. Furlani. Implementing green technologies and practices in a high performance computing center. 2013 International Green Computing Conference Proceedings, IGCC 2013, Arlington, VA USA. June 27-29 2013. doi:10.1109/IGCC.2013.6604474
  6. Andrew E. Bruno, Jeffrey C. Miecznikowski, Maochun Qin, Jianmin Wang and Song Liu. FUSIM: a software tool for simulating fusion transcripts. BMC Bioinformatics, 14:13, 2013. doi:10.1186/1471-2105-14-13
  7. Thomas R. Furlani, Matthew D. Jones, Steven M. Gallo, Andrew E. Bruno, Charng-Da Lu, Amin Ghadersohi, Ryan J. Gentner, Abani Patra, Robert L. DeLeon, Gregor von Laszewski, Fugang Wang, and Ann Zimmerman. Performance metrics and auditing framework using application kernels for high-performance computer systems. Concurrency and Computation: Practice and Experience, 2012. doi:10.1002/cpe.2871
  8. Andrew E. Bruno, Li Li, James L. Kalabus, Yuzhuo Pan, Aiming Yu, Zihua Hu. miRdSNP: a database of disease-associated SNPs and microRNA target sites on 3’UTRs of human genes. BMC Genomics, 13(1):44, 2012. doi:10.1186/1471-2164-13-44
  9. Zihua Hu and Andrew E. Bruno. The influence of 3’UTRs on MicroRNA Function Inferred from Human SNP Data. Comparative and Functional Genomics, 2011:910769, 2011. doi:10.1155/2011/910769
  10. Thomas R. Furlani, Matthew D. Jones, Steven M. Gallo, Andrew E. Bruno, Charng-Da Lu, Amin Ghadersohi, Ryan J. Gentner, Abani K. Patra, Robert L. DeLeon, Gregor von Laszewski, Lizhe Wang, and Ann Zimmerman. Performance metrics and auditing framework for high performance computer systems. In Proceedings of the 2011 TeraGrid Conference: Extreme Digital Discovery, TG ‘11, pages 16:1-16:1, New York, NY, USA, 2011. ACM. doi:10.1145/2016741.2016759
  11. Daniel P. Gaile, Lori A. Shepherd, Andrew E. Bruno, Song Liu, Carl D. Morrison, Lara E. Sucheston, and Jeffrey C. Miecznikowski. iGenomicViewer: R package for visualisation of high dimension genomic data. International Journal of Bioinformatics Research and Applications, 6:584-593, 2010. doi:10.1504/IJBRA.2010.038739
  12. J. A. Delmerico, N. A. Byrnes, A. E. Bruno, M. D. Jones, S. M. Gallo, and V. Chaudhary. Comparing the performance of clusters, Hadoop, and Active Disks on microarray correlation computations. In Proc. International High Performance Computing (HiPC) Conference, pages 378-387, 2009. doi:10.1109/HIPC.2009.5433190 (Acceptance rate: 18.8%, 49 of 261)