2013
- Protannotator: A semi-automated pipeline for chromosome-wise functional annotation of the “missing†human proteome Mohammad Tawhidul Islam , Gagan Garg , William S. Hancock , Brian A. Risk , Mark S. Baker , and Shoba Ranganathan Journal of proteome research (Dec 6, 2013).
- A peptide-spectrum scoring system based on ion alignment, intensity and pair probabilities. Risk BA, Edwards NJ, Giddings MC. Journal of proteome research (July 22, 2013).
- Peppy: proteogenomic search software. Risk BA, Spitzer WJ, Giddings MC. Journal of proteome research (April 24, 2013). PMID: 23614390
2012
- Whole human genome proteogenomic mapping for ENCODE cell line data: identifying protein-coding regions. Khatun J, Yu Y, Wrobel JA, Risk BA, Gunawardena HP, Secrest A, Spitzer WJ, Xie L, Wang L, Chen X, Giddings MC. BMC Genomics. (28 February 2013) – PMID: 23448259
- An integrated encyclopedia of DNA Elements in the human genome. The ENCODE consortium. Nature 489, 57–74 (06 September 2012) – PMID: 22955616
- Landscape of transcription in human cells. Djebali S, Davis CA, Merkel A, Dobin A, Lassmann T, Mortazavi AM, Tanzer A, Lagarde J, Risk BA, Lin W, Schlesinger F, Xue C, Marinov GK, Khatun J, Williams BA, Zaleski C, et al. Nature 489, 101–108 (06 September 2012) – PMID: 22955620
- Long non-coding RNAs are rarely translated. Balázs B, Hui J, Khatun J, Wood E, Risk B, Gundling W, et al. Genome Res. 2012 September; 22(9): 1646-1657. – PMID: 22955977
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