Starvation Shore, by Laura Waterman

Laura Carruth

LH: Tell me more about your work with teachers. LC: I run a week-long professional development workshop for K–12 teachers called “Why They Do What They Do at the Zoo: Animal Behavior and the Brain.” Also, I facilitate a summer neuroscience-themed camp for middle school-aged children. Both are sponsored by the Center for Behavioral Neuroscience. These projects have also received support from the...

GPU Accelerated Smith-Waterman

We present a novel hardware implementation of the double affine Smith-Waterman (DASW) algorithm, which uses dynamic programming to compare and align genomic sequences such as DNA and proteins. We implement DASW on a commodity graphics card, taking advantage of the general purpose programmability of the graphics processing unit to leverage its cheap parallel processing power. The results demonst...

Optimizing Smith-Waterman Alignments

Mutual correlation between segments of DNA or protein sequences can be detected by Smith-Waterman local alignments. We present a statistical analysis of alignment of such sequences, based on a recent scaling theory. A new fidelity measure is introduced and shown to capture the significance of the local alignment, i.e., the extent to which the correlated subsequences are correctly identified. It...

Laura Enflo, exjobbsrapport 061220

Sammanfattning Tiivistelmä List of Abbreviations

Laura Catherine Gioia