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Paul L. Nguyen is an American radiation oncologist and researcher specializing in prostate cancer research and clinical care. Nguyen has worked with the Dana–Farber Cancer Institute, the Brigham and Women's Hospital, and Harvard Medical School, and his research has sought to assess the effectivity of hormone-targeted therapy in treating prostate cancer, the importance of social systems like ...
DECIPHER is a web-based resource and database of genomic variation data from analysis of patient DNA. [ 1 ] [ 2 ] [ 3 ] It documents submicroscopic chromosome abnormalities ( microdeletions and duplications ) and pathogenic sequence variants (single nucleotide variants - SNVs, Insertions, Deletions, InDels), from over 25000 patients and maps ...
DECIPHER is a software that can be used to decipher and manage biological sequences efficiently using the programming language R. Features ...
Sequence alignment by genetic algorithm: Protein: Local or global: C. Notredame et al. 1996 (new version 1998) SAM Hidden Markov model: Protein: Local or global: A. Krogh et al. 1994 (most recent version 2002) Se-Al Manual alignment: Both: Local: A. Rambaut: 2002: StatAlign Bayesian co-estimation of alignment and phylogeny (MCMC) Both: Global ...
Name Description Knots [Note 1]Links References trRosettaRNA: trRosettaRNA is an algorithm for automated prediction of RNA 3D structure. It builds the RNA structure by Rosetta energy minimization, with deep learning restraints from a transformer network (RNAformer). trRosettaRNA has been validated in blind tests, including CASP15 and RNA-Puzzles, which suggests that the automated predictions ...
Ab Initio gene prediction is an intrinsic method based on gene content and signal detection. Because of the inherent expense and difficulty in obtaining extrinsic evidence for many genes, it is also necessary to resort to ab initio gene finding, in which the genomic DNA sequence alone is systematically searched for certain tell-tale signs of protein-coding genes.
The Smith-Waterman algorithm was an extension of a previous optimal method, the Needleman–Wunsch algorithm, which was the first sequence alignment algorithm that was guaranteed to find the best possible alignment. However, the time and space requirements of these optimal algorithms far exceed the requirements of BLAST.
Filter algorithms are general preprocessing algorithms that do not assume the use of a specific classification method. Wrapper algorithms, in contrast, “wrap” the feature selection around a specific classifier and select a subset of features based on the classifier's accuracy using cross-validation.
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