Open Access. Powered by Scholars. Published by Universities.®
- Discipline
-
- Bioinformatics (15)
- Genomics (14)
- Cell and Developmental Biology (9)
- Genetics (8)
- Physical Sciences and Mathematics (8)
-
- Biology (7)
- Biochemistry, Biophysics, and Structural Biology (6)
- Molecular Genetics (6)
- Developmental Biology (5)
- Cell Biology (4)
- Ecology and Evolutionary Biology (4)
- Medicine and Health Sciences (4)
- Microbiology (4)
- Molecular Biology (4)
- Plant Sciences (4)
- Statistics and Probability (4)
- Agriculture (3)
- Animal Sciences (3)
- Biostatistics (3)
- Computer Sciences (3)
- Evolution (3)
- Systems Biology (3)
- Animal Experimentation and Research (2)
- Engineering (2)
- Immunology and Infectious Disease (2)
- Integrative Biology (2)
- Medical Specialties (2)
- Keyword
-
- Bioinformatics (5)
- Genomics (4)
- RNA-seq (3)
- Transcriptome (3)
- Algorithm (2)
-
- Comparative transcriptomics (2)
- Data mining (2)
- Feature selection (2)
- Gene expression (2)
- Lamprey (2)
- Machine learning (2)
- Regeneration (2)
- Transcriptomics (2)
- Agri-omics (1)
- Algebraic Control (1)
- Algorithms (1)
- Ambystoma mexicanum (1)
- Amphibian (1)
- Artificial intelligence (1)
- Basement membrane (1)
- Biosynthesis (1)
- Blocking Transitions (1)
- Bmal1 (1)
- Bmp5 (1)
- Boolean Networks (1)
- Bottleneck event (1)
- Cancer Genomics (1)
- Cellulose biosynthesis inhibitors (1)
- Chemical diversification (1)
- Chemical genetics (1)
- Publication Year
- Publication
-
- Theses and Dissertations--Biology (11)
- Theses and Dissertations--Computer Science (4)
- Biostatistics Faculty Publications (3)
- Theses and Dissertations--Plant and Soil Sciences (3)
- Theses and Dissertations--Veterinary Science (2)
-
- Mathematics Faculty Publications (1)
- Molecular and Cellular Biochemistry Faculty Publications (1)
- Physiology Faculty Publications (1)
- Plant Pathology Faculty Publications (1)
- Theses and Dissertations--Entomology (1)
- Theses and Dissertations--Mathematics (1)
- Theses and Dissertations--Neuroscience (1)
- Theses and Dissertations--Plant Pathology (1)
- Theses and Dissertations--Statistics (1)
- Publication Type
Articles 31 - 32 of 32
Full-Text Articles in Computational Biology
Small Rna Expression During Programmed Rearragement Of A Vertebrate Genome, Joseph R. Herdy Iii
Small Rna Expression During Programmed Rearragement Of A Vertebrate Genome, Joseph R. Herdy Iii
Theses and Dissertations--Biology
The sea lamprey (Petromyzon marinus) undergoes programmed genome rearrangements (PGRs) during embryogenesis that results in the deletion of ~0.5 Gb of germline DNA from the somatic lineage. The underlying mechanism of these rearrangements remains largely unknown. miRNAs (microRNAs) and piRNAs (PIWI interacting RNAs) are two classes of small noncoding RNAs that play important roles in early vertebrate development, including differentiation of cell lineages, modulation of signaling pathways, and clearing of maternal transcripts. Here, I utilized next generation sequencing to determine the temporal expression of miRNAs, piRNAs, and other small noncoding RNAs during the first five days of lamprey …
A Novel Computational Framework For Transcriptome Analysis With Rna-Seq Data, Yin Hu
A Novel Computational Framework For Transcriptome Analysis With Rna-Seq Data, Yin Hu
Theses and Dissertations--Computer Science
The advance of high-throughput sequencing technologies and their application on mRNA transcriptome sequencing (RNA-seq) have enabled comprehensive and unbiased profiling of the landscape of transcription in a cell. In order to address the current limitation of analyzing accuracy and scalability in transcriptome analysis, a novel computational framework has been developed on large-scale RNA-seq datasets with no dependence on transcript annotations. Directly from raw reads, a probabilistic approach is first applied to infer the best transcript fragment alignments from paired-end reads. Empowered by the identification of alternative splicing modules, this framework then performs precise and efficient differential analysis at automatically detected …