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1.
Efficient construction of accurate multiple alignments and large-scale phylogenies
by Wheeler, Travis John, Ph.D.  The University of Arizona. 2009: 185 pages; 3369689.
2.
Algorithms for biological network alignment
by Flannick, Jason, Ph.D.  Stanford University. 2009: 152 pages; 3343954.
4.
Clustering, searching and evaluating biological sequence data
by Ghodsi, Mohammadreza, Ph.D.  University of Maryland, College Park. 2012: 104 pages; 3543455.
5.
Structural RNA homology search and alignment using covariance models
by Nawrocki, Eric Paul, Ph.D.  Washington University in St. Louis. 2009: 281 pages; 3372748.
6.
Novel algorithms for structural alignment of non-coding RNAs
by Kolbe, Diana Lynn, Ph.D.  Washington University in St. Louis. 2010: 175 pages; 3408095.
7.
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.
8.
Structure-Preserving Rearrangements: Algorithms for Structural Comparison and Protein Analysis
by Bliven, Spencer Edward, Ph.D.  University of California, San Diego. 2015: 159 pages; 3716489.
9.
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.
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11.
Statistical phylogenetic methods with applications to virus evolution
by Westesson, Oscar, Ph.D.  University of California, Berkeley. 2012: 258 pages; 3555992.
12.
Ambiguous fragment assignment for high-throughput sequencing experiments
by Roberts, Adam, Ph.D.  University of California, Berkeley. 2013: 93 pages; 3616509.
14.
Syntactic Agreement in Bilingual Corpora
by Burkett, David Ernesto, Ph.D.  University of California, Berkeley. 2012: 73 pages; 3555595.
15.
The structural and functional landscape of protein superfamilies: From the thioredoxin fold to parasite peptidases
by Atkinson, Holly J., Ph.D.  University of California, San Francisco. 2009: 159 pages; 3359576.
16.
The Yalahau Regional Wetland Survey: Ancient Maya Land Use in Northern Quintana Roo, Mexico
by Leonard, Daniel Ian, Ph.D.  University of California, Riverside. 2013: 694 pages; 3600580.
17.
The human gut microbiota: New analyses and methods on the continuum between disease and health
by Hartman, Amber Laura, Ph.D.  The Johns Hopkins University. 2009: 216 pages; 3399101.
20.
Chunk alignment for Corpus-Based Machine Translation
by Kim, Jae Dong, Ph.D.  Carnegie Mellon University. 2011: 143 pages; 3528565.
21.
Remote Homology Detection in Proteins Using Graphical Models
by Daniels, Noah Manus, Ph.D.  Tufts University. 2013: 122 pages; 3563611.
22.
Analyzing comparative sequence data to understand genome function and evolution
by Prasad, Arjun B., Ph.D.  The George Washington University. 2010: 223 pages; 3389713.
23.
Computational Pan-Genomics: Algorithms and Applications
by Cleary, Alan Michael, Ph.D.  Montana State University. 2018: 133 pages; 10792396.
24.
Evolution and Function of Compositional Patterns in Mammalian Genomes
by Prakash, Ashwin, Ph.D.  The University of Toledo. 2011: 185 pages; 3490731.
25.
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.
26.
Designing for Consensus and the Standards for Mathematical Practice
by Johnson, Raymond, Ph.D.  University of Colorado at Boulder. 2018: 221 pages; 10980722.
27.
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.
28.
Characterization of protein residue surface accessibility using sequence homology
by Mishra, Radhika Pallavi, M.S.  San Jose State University. 2010: 155 pages; 1477358.
29.
Mechanical Inference in Dynamic Ecosystems
by Langendorf, R. E., Ph.D.  University of Colorado at Boulder. 2018: 138 pages; 10792156.
30.
Improving gene annotation and understanding of mammalian evolution by identifying retrocopies of mRNA transcripts
by Baertsch, Robert D., Ph.D.  University of California, Santa Cruz. 2010: 92 pages; 3421298.
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