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1.
Genome-Wide Analysis of Plant Heterochromatic Short-Interfering RNAs
by Wang, Feng, Ph.D.  The Pennsylvania State University. 2017: 141 pages; 13918164.
2.
Assembling improved gene annotations in Clostridium acetobutylicum with RNA sequencing
by Ralston, Matthew T., M.S.  University of Delaware. 2015: 152 pages; 1585177.
3.
Small RNA regulation during Phytophthora sojae infection in soybean
by Wong, James Tac, Ph.D.  University of California, Riverside. 2013: 205 pages; 3610971.
4.
Phylogenomic Analysis of Fundulidae Using RNA-Sequencing Data
by Rodgers, Rachel, M.S.  Southern Illinois University at Edwardsville. 2017: 72 pages; 10265232.
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Using RNA Mimicry of Viroids to Uncover New Noncoding RNA Structural Motifs and Pathways
by Freidhoff, Paul, Ph.D.  University of the Sciences in Philadelphia. 2020: 186 pages; 27665966.
7.
Quantifying Nucleotide Variation in RNA Virus Populations by Next-generation Sequencing
by Fedewa, Gregory, Ph.D.  University of California, San Francisco. 2018: 69 pages; 10936274.
8.
Investigating the Origin and Functions of a Novel Small RNA in Escherichia coli
by Kacharia, Fenil Rashmin, M.S.  Portland State University. 2016: 61 pages; 10157423.
10.
Discovery and characterization of small non-coding RNAs in Vibrio cholerae that contribute to gene regulation during infection
by Bradley, Evan, Ph.D.  Sackler School of Graduate Biomedical Sciences (Tufts University). 2012: 182 pages; 3624938.
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Development of Computational Tools to Analyze New Experimental Technologies for the Study of Noncoding RNA
by Schoenberg, Michael Rutenberg, Ph.D.  Yale University. 2019: 222 pages; 13810036.
13.
Ambiguous fragment assignment for high-throughput sequencing experiments
by Roberts, Adam, Ph.D.  University of California, Berkeley. 2013: 93 pages; 3616509.
14.
The role of read depth in the design and analysis of sequencing experiments
by Robinson, David Garrett, Ph.D.  Princeton University. 2015: 164 pages; 3713946.
15.
Multi-Class Computational Evolution: Development, Benchmark Comparison, and Application to RNA-Seq Biomarker Discovery
by Crabtree, Nathaniel Mark, Ph.D.  University of Arkansas at Little Rock. 2017: 106 pages; 10620232.
16.
Control of RNA Structure by CspA Proteins in Rhizobia
by Peele Price, Jason, Ph.D.  Washington State University. 2017: 189 pages; 10605605.
17.
Poisson multiscale methods for high-throughput sequencing data
by Xing, Zhengrong, Ph.D.  The University of Chicago. 2016: 229 pages; 10195268.
19.
A Motif Discovery and Analysis Pipeline for Heterogeneous Next-Generation Sequencing Data
by Ramsay, Trevor, M.S.  University of California, Davis. 2015: 72 pages; 1599520.
21.
gibbSeq: A new Bayesian method for multiple comparisons for RNA-seq data
by Acheampong, Daniel Asare, M.S.  New Mexico Institute of Mining and Technology. 2017: 77 pages; 10264015.
23.
Inferring dinoflagellate genome structure, function, and evolution from short-read high-throughput RNA-Seq
by Gibbons, Theodore Robert, Ph.D.  University of Maryland, College Park. 2015: 132 pages; 10011582.
25.
The effect of component base pairs on the stability of Potato Spindle Tuber Viroid (PSTVd) loop E RNA
by Salvo, Renee M., Ph.D.  University of the Sciences in Philadelphia. 2017: 168 pages; 10585744.
26.
Exploration of Novel RNA Targets of Slicing by Mammalian Argonaute2 in Development
by Jee, David, Ph.D.  Weill Medical College of Cornell University. 2019: 197 pages; 13880964.
28.
Robust Inference and Network Analysis for Non-Gaussian Gene-Expression Data
by Specht, Alicia T., Ph.D.  University of Notre Dame. 2017: 126 pages; 13836379.
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