Physical Sciences and Mathematics Commons^™

Computational Methods Of Hidden Markov Models With Respect To Cpg Island Prediction In Dna Sequences, Roberto Angel Ortega

Open Access Theses & Dissertations

Hidden Markov models (HMM's) are a specific case of Markov models where, contrary to Markov chains, the observer is unaware of what state the model was in when the symbol is observed. Like Markov chains, HMM's assume that the future state of a sequence is dependent only on the current state of the sequence. The parameters associated with HMM's are transition and emission probabilities, where transition probabilities are associated with the probability of transitioning from one state to another, and emission probabilities are the probabilities associated with observing a symbol given it came from a specific state.

The structure of …

Prediction Of Ribonucleic Acid Secondary Structures Using A Heuristic Backtracking Search, Christopher Roman Cuellar

Open Access Theses & Dissertations

Ribonucleic acid (RNA) is essential for all forms of life. RNA is made up of a large chain of nucleotide bases: Guanine (G), Uracil (U), Cytosine (C), and Adenine (A). An RNA strand can fold on itself to allow G-C, A-U, and G-U bases to form hydrogen bonds, this is known as a secondary structure. Knowing the secondary structure of an RNA chain is very important because it will allow researchers to better understand its specific functions. RNA will create secondary structures that tend to minimize their free energy. RNA secondary structure prediction is the attempt to predict physical folding …

Monitoring Ecosystem Dynamics In An Arctic Tundra Ecosystem Using Hyperspectral Reflectance And A Robotic Tram System, Santonu Goswami

Open Access Theses & Dissertations

Global change, which includes climate change and the impacts of human disturbance, is altering the provision and sustainability of ecosystem goods and services. These changes have the capacity to initiate cascading affects and complex feedbacks through physical, biological and human subsystems and interactions between them. Understanding the future state of the earth system requires improved knowledge of ecosystem dynamics and long term observations of how these are being impacted by global change. Improving remote sensing methods is essential for such advancement because satellite remote sensing is the only means by which landscape to continental-scale change can be observed.

The Arctic …

Assessing Data Quality In A Sensor Network For Environmental Monitoring, Gesuri Ramirez

Open Access Theses & Dissertations

Assessing the quality of sensor data in environmental monitoring applications is important, as erroneous readings produced by malfunctioning sensors, calibration drift, and problematic climatic conditions, such as icing or dust, are common.Traditional data quality checking and correction is a painstaking manual process, so the development of automatic systems for this task is highly desirable.

This study investigates machine learning methods to identify and clean incorrect data from a real-world environmental sensor network, the Jornada Experimental Range, located in Southern New Mexico. We evaluated several learning algorithms and data replacement schemes, and developed a method to identify the problematic sensor. The …

Distributional Properties Of Inversions And Segmentation Algorithms For Rna Sequences, Sameera Dhananjaya Viswakula

Open Access Theses & Dissertations

Ribonucleic acid (RNA) is a long single stranded molecule made up of four types of nucleotide bases: Adenine (A), Cytosine(C), Guanine (G) and Uracil (U). It folds back on itself and forms C-G and A-U complementary base pairs. The set of such hydrogen-bonded pairs in an RNA molecule is called its secondary structure. Knowing the secondary structure of RNA is useful for understanding its biological function. Prediction of RNA secondary structure from the nucleotide sequence has been an important bioinformatics problem for over two decades.

The work in this thesis is motivated by the need to improve the secondary structure …

Development And Testing Of An Unmanned Aircraft System For Environmental Science, Jerald James Brady

Open Access Theses & Dissertations

For some environmental science applications, Unmanned Aircraft Systems (UASs) are increasingly recognized for their capacity to collect remotely sensed data in a safer, more efficient and effective manner than is permitted with manned aircraft and satellite remote sensing platforms. To date, however, technological, human, and other challenges have constrained adoption of UASs in the environmental sciences. This study developed and tested a new UAS for an archetypical environmental science research group (stakeholder) composed of non-UAS experts. Specifically, this thesis: 1) Assessed the research and operational needs of the stakeholder to determine the optimum UAS platform; 2) Developed an Unmanned Aerial …