Flexible strategies for association analysis with genomic phenotypes

Thesis (Ph.D.)--University of Washington, 2016-08

Cascade hydropower capacity increase profitability analysis with optimisation modelling

The electricity market and climate are both undergoing a change. The changes impact hydropower and provoke an interest for hydropower capacity increases. In this thesis a new methodology was developed utilising short-term hydropower optimisation and planning software for better capacity increase profitability analysis accuracy. In the methodology income increases are calculated in month long periods while varying average discharge and electricity price volatility. The monthly incomes are used for constructing year scenarios, and from different types of year scenarios a long-term profitability analysis can be made. Average price development is included utilising a multiplier. The method was applied on Oulujoki hydropower plants. It was found that the capacity additions that were analysed for Oulujoki were not profitable. However, the methodology was found versatile and useful. The result showed that short periods of peaking prices play major role in the profitability of capacity increases. Adding more discharge capacity to hydropower plants that initially bypassed water more often showed the best improvements both in income and power generation profile flexibility.

Survival analysis with internal covariates modelled using a longitudinal dispersion model and flexible links

Poster presented at the From Basic Sciences to Clinical Research: 1st International Congress of CiiEM. Egas Moniz, Caparica, Portugal, 27-28 November 2015

Preconcentration of polar phenolic compounds from water samples and soil extract by liquid-phase microextraction and determination via liquid chromatography with ultraviolet detection.

2016

Characterization of Chimney Flue Gas Flows : Flow Rate Measurements with Averaging Pitot Probes

Performance testing methods of boilers in transient operating conditions (start, stop and combustion power modulation sequences) need the combustion rate quantified to allow for the emissions to be quantified. One way of quantifying the combustion rate of a boiler during transient operating conditions is by measuring the flue gas flow rate. The flow conditions in chimneys of single family house boilers pose a challenge however, mainly because of the low flow velocity. The main objectives of the work were to characterize the flow conditions in residential chimneys, to evaluate the use of the Pitot-static method and the averaging Pitot method, and to develop and test a calibration method for averaging Pitot probes for low

Data analysis with merge trees

Today’s data are increasingly complex and classical statistical techniques need growingly more refined mathematical tools to be able to model and investigate them. Paradigmatic situations are represented by data which need to be considered up to some kind of trans- formation and all those circumstances in which the analyst finds himself in the need of defining a general concept of shape. Topological Data Analysis (TDA) is a field which is fundamentally contributing to such challenges by extracting topological information from data with a plethora of interpretable and computationally accessible pipelines. We con- tribute to this field by developing a series of novel tools, techniques and applications to work with a particular topological summary called merge tree. To analyze sets of merge trees we introduce a novel metric structure along with an algorithm to compute it, define a framework to compare different functions defined on merge trees and investigate the metric space obtained with the aforementioned metric. Different geometric and topolog- ical properties of the space of merge trees are established, with the aim of obtaining a deeper understanding of such trees. To showcase the effectiveness of the proposed metric, we develop an application in the field of Functional Data Analysis, working with functions up to homeomorphic reparametrization, and in the field of radiomics, where each patient is represented via a clustering dendrogram.

Design of a wearable platform for PPG analysis with multicore low-power processor

Photoplethysmography (PPG) sensors allow for noninvasive and comfortable heart-rate (HR) monitoring, suitable for compact wearable devices. However, PPG signals collected from such devices often suffer from corruption caused by motion artifacts. This is typically addressed by combining the PPG signal with acceleration measurements from an inertial sensor. Recently, different energy-efficient deep learning approaches for heart rate estimation have been proposed. To test these new solutions, in this work, we developed a highly wearable platform (42mm x 48 mm x 1.2mm) for PPG signal acquisition and processing, based on GAP9, a parallel ultra low power system-on-chip featuring nine cores RISC-V compute cluster with neural network accelerator and 1 core RISC-V controller. The hardware platform also integrates a commercial complete Optical Biosensing Module and an ARM-Cortex M4 microcontroller unit (MCU) with Bluetooth low-energy connectivity. To demonstrate the capabilities of the system, a deep learning-based approach for PPG-based HR estimation has been deployed. Thanks to the reduced power consumption of the digital computational platform, the total power budget is just 2.67 mW providing up to 5 days of operation (105 mAh battery).

Aïllament de dialquil glicerol dialquil tetraèters (GDGTs) i comparació interlaboratori de l'anàlisi d'aquests compostos

Projecte de recerca elaborat a partir d’una estada al Royal Netherlands Institute for Sea Research, Holanda, durant març i abril de 2007. Els glicerol dialkil glicerol tetraèters (GDGTs) són un grup de lípids presents a les membranes dels arqueobacteris que es troben presents en ambients aquàtics, en sòls i en sediments. La distribució d’aquests lípids en sediments s’utilitza per al càlcul dels índexs TEX86 i BIT, els quals són usats en estudis paleoambientals per reconstruir la temperatura i l’aport relatiu de matèria orgànica terrestre als sediments. El mètode d’anàlisi dels GDGTs intactes consisteix en HPLC/APCIMS (High performance liquid cromatography/Atmospheric pressure chemical ionization-Mass spectrometry). S’han comparat les tècniques d’anàlisi dels GDGTs entre el laboratori on s’ha realitzat l’estada i l’ICTA (UAB, Barcelona). Els resultats mostren que existeix una desviació de poca magnitud en el càlcul del TEX86 i el BIT explicat per diferències en el disseny de l’espectròmetre de masses i el procés d’integració dels cromatogrames obtinguts. Així mateix la diferència del procediment utilitzat per a la purificació de la mostra és responsable d’una divergència més important en l’obtenció dels índexs. Aquests resultats demostren que el procés de preparació de la mostra és crític en el càlcul dels índexs i ja s’estan realitzant proves per tal de determinar la causa de la discrepància. D’altra banda, l’estada al laboratori del NIOZ ha propiciat també l’aprenentatge de les tècniques emprades per a l’aïllament individual dels GDGTS, tals com la cromatografia líquida preparativa i el FIA (flow injection analysis). Aquest coneixement s’ha aplicat al laboratori de l’ICTA (UAB) per adaptar el procediment d’aïllament.

Liquid chromatography - Mass spectrometry

In this article, selected examples of applications of liquid chromatography coupled to mass spectrometry are given. The examples include the analysis of i) impurities in manufactured, pharmaceutical or synthesis products, ii) polyphenols in natural products, and iii) phytohormones in plant extracts. Finally, examples of applications of molecular characterization via flow injection analysis by electron spray ionization mass spectrometry (ESI-MS) are also given.

Sistemas interfaceados de análise por injeção em fluxo e eletroforese capilar (FIA - CE): desafios, aplicações e perspectivas

A review about the state-of-the-art of flow injection analysis (FIA) -- capillary electrophoresis (CE) systems is presented. The basic principles of flow injection and capillary electrophoresis are briefly revised. The main aspects of the FIA-CE hybridization, including advantages and shortcomings, are discussed. Some applications involving all different designs are also presented. This review covers the literature from 1997 up to 2000.

Módulo eletrônico de controle para válvulas solenóides

This technical note describes a new and simple electronic circuit for driving solenoid valves. The circuit is based on a single integrated circuit DRV103, which is able to drive resistive or inductive loads up to 1.5 A. Switching of 12-V loads can be controlled by TTLlevel signals in two distinct steps. Initially, 12 V is applied during 110 ms, followed by 4.2 V RMS until the end of the activation TTL pulse. This mode of operation is particularly suitable to drive solenoids, because it requires a higher voltage to start and a lower maintenance voltage. By using this circuit, power consumption and heating are reduced and the solenoid lifetime is enhanced. Moreover, this circuit is specially appropriated to build computercontrolled solenoid valves systems.

Determinação de parâmetros cinéticos em fluxo com câmara de gradiente e deteção espectrofotométrica: aplicação à reação entre o violeta de cristal e o ião hidróxido

A didactic experiment is proposed aimed to extend the Flow Injection Analysis (FIA) based methodology to the area of physical chemistry/chemical reactors for undergraduate labs. Our prime objective was to describe the use of a gradient chamber for determination of the rate constant for the reaction between crystal violet and the hydroxide ion. The study was complemented by determining the effect of temperature on the rate constant. The kinetic parameters, activation energy and reaction rate constant are determined based on an assumption of rate orders. The main didactic advantages of the proposed experimental set-up are the use of less reagents, contributing to a more environmental friendly experiment. The experiment illustrates also the reduction of associated errors and time by using automated analysis owing to decreased operator manipulation.

Incidència de microorganismes i de compostos orgànics volàtils en l'aparició de defectes sensorials en suro

La incidència sobre el suro de defectes sensorials amb descriptors de florit-humitat és un dels principals problemes amb què s'enfronta la indústria surera. Els principals compostos relacionats amb aquest defecte son cloroanisoles, metoxipirazines, geosmina i metilisoborneol. Aquesta recerca s'ha fet amb l'objectiu principal d'aprofundir en els mètodes de determinació de compostos volàtils en suro. S'ha desenvolupat una metodologia basada en la microextracció en fase sòlida i la cromatografia de gasos per a l'anàlisi conjunta d'aquests compostos en macerats de suro. El fet que la majoria dels compostos d'interès tingui un origen microbià ha fet necessari completar les anàlisis químiques amb mètodes de detecció i aïllament dels microorganismes susceptibles de produir-los. S'ha utilitzat un mètode per a l'estudi de la diversitat de fongs i bacteris en mostres de suro basat en l'estudi de marcadors genètics mitjançant l'anàlisi en gradients electroforètics desnaturalitzants. Per últim s'ha avaluat la capacitat de producció de defectes sensorials per microorganismes aïllats de suro utilitzant tècniques olfactomètriques.