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The explosive growth of genetic sequence information has offered us comprehensive collections of the protein sequences found in many living organisms. The challenge of understanding these gene products has led to the development of functional proteomics methods, which collectively aim to imbue the raw sequence with biological understanding. Protein(More)
Alternative splicing is an important mechanism for generating protein diversity from a single gene. However, standard molecular biology techniques have only identified several hundred alternative splicing variants and created a bottleneck in terms of experimental validation. In this paper, we propose models of weighted alternative splicing graphs and ways(More)
Alternative splicing of premessenger RNA is an important layer of gene expression regulation in eukaryotic cell. About 40-60% of human genes have alternative splice forms, suggesting that alternative splicing is one of the most significant components of the functional complexity of the human genome. Alternative splicing can produce variant proteins and(More)
We present a spring-embedder model for drawing rooted and unrooted phylogenetic trees with straight edges. Our heuristic strives for uniform edge lengths, and we develop it in analogy to forces in natural systems, for a simple, elegant, conceptually intuitive, and efficient algorithm. These algorithms are implemented on a web-based phylogeny visualization(More)
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