Putting the Pieces Together: Exons and piRNAs: A Dissertation

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dc.contributor.advisorMelissa J. Moore, PhD
dc.contributor.advisorPhillip D. Zamore, PhD
dc.contributor.authorRoy, Christian K.
dc.contributor.departmentRNA Therapeutics Institute
dc.date2022-08-11T08:08:45.000
dc.date.accessioned2022-08-23T16:06:33Z
dc.date.available2022-08-23T16:06:33Z
dc.date.issued2014-05-21
dc.date.submitted2014-11-10
dc.description.abstractAnalysis of gene expression has undergone a technological revolution. What was impossible 6 years ago is now routine. High-throughput DNA sequencing machines capable of generating hundreds of millions of reads allow, indeed force, a major revision toward the study of the genome’s functional output—the transcriptome. This thesis examines the history of DNA sequencing, measurement of gene expression by sequencing, isoform complexity driven by alternative splicing and mammalian piRNA precursor biogenesis. Examination of these topics is framed around development of a novel RNA-templated DNA-DNA ligation assay (SeqZip) that allows for efficient analysis of abundant, complex, and functional long RNAs. The discussion focuses on the future of transcriptome analysis, development and applications of SeqZip, and challenges presented to biomedical researchers by extremely large and rich datasets.
dc.description.thesisprogramBiochemistry and Molecular Pharmacology
dc.identifier.contextkey6345234
dc.identifier.doi10.13028/M2X60K
dc.identifier.legacycoverpagehttps://escholarship.umassmed.edu/gsbs_diss/726
dc.identifier.legacyfulltexthttps://escholarship.umassmed.edu/cgi/viewcontent.cgi?article=1725&context=gsbs_diss&unstamped=1
dc.identifier.submissionpathgsbs_diss/726
dc.identifier.urihttps://hdl.handle.net/20.500.14038/32086
dc.language.isoen_US
dc.legacy.embargo2015-06-23T00:00:00-07:00
dc.publisherUniversity of Massachusetts Medical School
dc.rightsCopyright is held by the author, with all rights reserved.
dc.subjectDissertations, UMMS
dc.subjectDNA
dc.subjectGene Expression
dc.subjectGene Expression Profiling
dc.subjectHigh-Throughput Nucleotide Sequencing
dc.subjectProtein Isoforms
dc.subjectRNA
dc.subjectRNA, Small Interfering
dc.subjectSequence Analysis, DNA
dc.subjectTranscriptome
dc.subjectDNA
dc.subjectGene Expression
dc.subjectGene Expression Profiling
dc.subjectHigh-Throughput Nucleotide Sequencing
dc.subjectProtein Isoforms
dc.subjectRNA
dc.subjectSmall Interfering RNA
dc.subjectDNA Sequence Analysis
dc.subjectTranscriptome
dc.subjectBiochemistry
dc.subjectBioinformatics
dc.subjectComputational Biology
dc.subjectGenetics
dc.subjectGenomics
dc.subjectSystems Biology
dc.titlePutting the Pieces Together: Exons and piRNAs: A Dissertation
dc.typeDoctoral Dissertation
dspace.entity.typePublication
html.description.abstract<p>Analysis of gene expression has undergone a technological revolution. What was impossible 6 years ago is now routine. High-throughput DNA sequencing machines capable of generating hundreds of millions of reads allow, indeed force, a major revision toward the study of the genome’s functional output—the transcriptome. This thesis examines the history of DNA sequencing, measurement of gene expression by sequencing, isoform complexity driven by alternative splicing and mammalian piRNA precursor biogenesis. Examination of these topics is framed around development of a novel RNA-templated DNA-DNA ligation assay (SeqZip) that allows for efficient analysis of abundant, complex, and functional long RNAs. The discussion focuses on the future of transcriptome analysis, development and applications of SeqZip, and challenges presented to biomedical researchers by extremely large and rich datasets.</p>
refterms.dateFOA2022-08-25T04:24:13Z
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