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1.
Improving Multiple Sequence Alignments by Revising Sequence Families with Alignment Scoring Approaches
by Levchuk, Aleksandr Olegovich, M.S.  University of California, Riverside. 2011: 72 pages; 1505602.
2.
Convoy Detection Using Sequence Alignment
by Li, Kai, M.S.  Southern Illinois University at Edwardsville. 2019: 55 pages; 27665392.
3.
Structural RNA homology search and alignment using covariance models
by Nawrocki, Eric Paul, Ph.D.  Washington University in St. Louis. 2009: 281 pages; 3372748.
7.
Efficiency of pair-wise and multiple alignment algorithms in computational biology
by Vu, Man H., M.S.  California State University, Long Beach. 2010: 67 pages; 1486717.
8.
Chunk alignment for Corpus-Based Machine Translation
by Kim, Jae Dong, Ph.D.  Carnegie Mellon University. 2011: 143 pages; 3528565.
9.
Novel algorithms for structural alignment of non-coding RNAs
by Kolbe, Diana Lynn, Ph.D.  Washington University in St. Louis. 2010: 175 pages; 3408095.
10.
Efficient construction of accurate multiple alignments and large-scale phylogenies
by Wheeler, Travis John, Ph.D.  The University of Arizona. 2009: 185 pages; 3369689.
11.
The Paladin Suite: Multifaceted Characterization of Whole Metagenome Shotgun Sequences
by Westbrook, Anthony, M.S.  University of New Hampshire. 2017: 101 pages; 10685940.
12.
Algorithms for biological network alignment
by Flannick, Jason, Ph.D.  Stanford University. 2009: 152 pages; 3343954.
13.
Clustering, searching and evaluating biological sequence data
by Ghodsi, Mohammadreza, Ph.D.  University of Maryland, College Park. 2012: 104 pages; 3543455.
14.
A flexible comparative genomics framework for integrating heterogeneous sequence data
by Regier, Allison Ann Penner, Ph.D.  University of Notre Dame. 2011: 102 pages; 3496613.
15.
Applications and extensions of pClust to big microbial proteomic data
by Lockwood, Svetlana, Ph.D.  Washington State University. 2016: 100 pages; 10139743.
18.
Analyzing comparative sequence data to understand genome function and evolution
by Prasad, Arjun B., Ph.D.  The George Washington University. 2010: 223 pages; 3389713.
20.
Intron position in RNA polymerase genes and their relationship to eukaryotic phylogenies
by Robinson, Matthew C., M.S.  East Carolina University. 2010: 90 pages; 1484138.
21.
Statistical phylogenetic methods with applications to virus evolution
by Westesson, Oscar, Ph.D.  University of California, Berkeley. 2012: 258 pages; 3555992.
22.
Characterization of protein residue surface accessibility using sequence homology
by Mishra, Radhika Pallavi, M.S.  San Jose State University. 2010: 155 pages; 1477358.
23.
Cross-Lingual Alignment of Word & Sentence Embeddings
by Aldarmaki, Hanan, Ph.D.  The George Washington University. 2019: 113 pages; 13812118.
25.
27.
Two case studies of protein fold evolution: Bacteriophage Cro proteins and insect salivary lipocalins
by Roessler, Christian George, Ph.D.  The University of Arizona. 2010: 199 pages; 3432603.
28.
Pre-mRNA Architecture and Sequence Element Regulation of Alternative Splicing
by Mueller, William F., Ph.D.  University of California, Irvine. 2013: 176 pages; 3557196.
29.
Computation of evolutionary change
by Stanek, Edward Jason, Ph.D.  Iowa State University. 2009: 95 pages; 3352259.
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