Hydrodynamic induced deformation of and orientation of a microscopic elastic filament

We describe simulations of an elastic filament immersed in a fluid and subjected to a body force. The coupling between the fluid flow and the friction that the filament experiences induces bending and alignment perpendicular to the force. With increasing force there are four shape regimes, ranging from slight distortion to an unsteady tumbling motion. We also find marginally stable structures. The instability of these shapes and the alignment are explained by induced bending and nonlocal hydrodynamic interactions. These effects are experimentally relevant for stiff microfilaments.

Experiments on anisotropic radial viscous fingering

We observe dendritic patterns in fluid flow in an anisotropic Hele-Shaw cell and measure the tip shapes and trajectories of individual dendritic branches under conditions where the pattern growth appears to be dominated by surface tension anisotropy and also under conditions where kinetic effects appear dominant. In each case, the tip position depends on a power law in the time, but the exponent of this power law can vary significantly among flow realizations. Averaging many growth exponents a yields a =0.640.09 in the surface tension dominated regime and a =0.660.09 in the kinetic regime. Restricting the analysis to realizations when a is very close to 0.6 shows great regularity across pattern regimes in the coefficient of the temporal dependence of the tip trajectory.

Benchmarking therapeutic drug monitoring software: A systematic evaluation of available computer tools

Introduction: Therapeutic drug monitoring (TDM) aims at optimizing treatment by individualizing dosage regimen based on measurement of blood concentrations. Maintaining concentrations within a target range requires pharmacokinetic and clinical capabilities. Bayesian calculation represents a gold standard in TDM approach but requires computing assistance. In the last decades computer programs have been developed to assist clinicians in this assignment. The aim of this benchmarking was to assess and compare computer tools designed to support TDM clinical activities.¦Method: Literature and Internet search was performed to identify software. All programs were tested on common personal computer. Each program was scored against a standardized grid covering pharmacokinetic relevance, user-friendliness, computing aspects, interfacing, and storage. A weighting factor was applied to each criterion of the grid to consider its relative importance. To assess the robustness of the software, six representative clinical vignettes were also processed through all of them.¦Results: 12 software tools were identified, tested and ranked. It represents a comprehensive review of the available software's characteristics. Numbers of drugs handled vary widely and 8 programs offer the ability to the user to add its own drug model. 10 computer programs are able to compute Bayesian dosage adaptation based on a blood concentration (a posteriori adjustment) while 9 are also able to suggest a priori dosage regimen (prior to any blood concentration measurement), based on individual patient covariates, such as age, gender, weight. Among those applying Bayesian analysis, one uses the non-parametric approach. The top 2 software emerging from this benchmark are MwPharm and TCIWorks. Other programs evaluated have also a good potential but are less sophisticated (e.g. in terms of storage or report generation) or less user-friendly.¦Conclusion: Whereas 2 integrated programs are at the top of the ranked listed, such complex tools would possibly not fit all institutions, and each software tool must be regarded with respect to individual needs of hospitals or clinicians. Interest in computing tool to support therapeutic monitoring is still growing. Although developers put efforts into it the last years, there is still room for improvement, especially in terms of institutional information system interfacing, user-friendliness, capacity of data storage and report generation.

Do seismic waves sense fracture connectivity?

A defining characteristic of fractured rocks is their very high level of seismic attenuation, which so far has been assumed to be mainly due to wave-induced fluid flow (WIFF) between the fractures and the pore space of the embedding matrix. Using oscillatory compressibility simulations based on the quasi-static poroelastic equations, we show that another important, and as of yet undocumented, manifestation of WIFF is at play in the presence of fracture connectivity. This additional energy loss is predominantly due to fluid flow within the connected fractures and is sensitive to their lengths, permeabilities, and intersection angles. Correspondingly, it contains key information on the governing hydraulic properties of fractured rock masses and hence should be accounted for whenever realistic seismic models of such media are needed.

Automation of DEM Cutting for Hydrologic/Hydraulic Modeling, TR-631, 2015

Hydrologic analysis is a critical part of transportation design because it helps ensure that hydraulic structures are able to accommodate the flow regimes they are likely to see. This analysis is currently conducted using computer simulations of water flow patterns, and continuing developments in elevation survey techniques result in higher and higher resolution surveys. Current survey techniques now resolve many natural and anthropogenic features that were not practical to map and, thus, require new methods for dealing with depressions and flow discontinuities. A method for depressional analysis is proposed that uses the fact that most anthropogenically constructed embankments are roughly more symmetrical with greater slopes than natural depressions. An enforcement method for draining depressions is then analyzed on those depressions that should be drained. This procedure has been evaluated on a small watershed in central Iowa, Walnut Creek of the South Skunk River, HUC12 # 070801050901, and was found to accurately identify 88 of 92 drained depressions and place enforcements within two pixels, although the method often tries to drain prairie pothole depressions that are bisected by anthropogenic features.

Säätöventtiilin virtaustekniset ominaisuudet

Virtauslaskennan käyttö jokapäiväisessä insinöörityössä on lisääntynyt viime vuosina nopeaa vauhtia. Virtauslaskennan avulla voidaan tutkia säätöventtiilin virtauskenttää, mikä antaa suunnittelijalle mahdollisuuden korjata virtauskanavan ongelmakohtia jo tuotekehityksen alkuvaiheessa. Tämändiplomityön tavoitteena on määrittää uuden säätöventtiilin mitoituskertoimet jatutkia virtauslaskennan käytettävyyttä säätöventtiilisuunnittelussa. Teoreettisessa tarkastelussa on käsitelty venttiilivirtaukselle ominaisia virtausteknisiä yhtälöitä ja ilmiöitä, säätöventtiilin standardin määräämiä mitoitusyhtälöitä sekä neste- että kaasumelua. Lisäksi kerrotaan yleisimmistä säätöventtiilisovellutuksista ja esitellään suunnitteilla oleva uusi säätöventtiili. Virtauslaskennan avulla tutkittiin venttiilin kapasiteettiaja virtauskenttää. Alustavaa laskentaa tehtiin venttiilin paineenpalautumiskertoimen ja alkavan kavitaation määrittämiseksi. Virtauslaskenta tehtiin Fluent ja Cfdesign -virtauslaskentaohjelmilla. Virtauslaskennan antamia tuloksia verrattiin laboratoriossa saatuihin mittaustuloksiin. Laboratoriokokeiden avulla määritettiin uuden säätöventtiilin mitoituskertoimet. Lisäksi mitattiin säätöventtiilin aiheuttamaa neste- ja kaasumelua.

Effects of colonization asymmetries on metapopulation persistence.

Ocean currents, prevailing winds, and the hierarchical structures of river networks are known to create asymmetries in re-colonization between habitat patches. The impacts of such asymmetries on metapopulation persistence are seldom considered, especially rarely in theoretical studies. Considering three classical models (the island, the stepping stone and the distance-dependent model), we explore how metapopulation persistence is affected by (i) asymmetry in dispersal strength, in which the colonization rate between two patches differs in direction, and (ii) asymmetry in connectivity, in which the overall colonization pattern displays asymmetry (circulating or dendritic networks). Viability can be drastically reduced when directional bias in dispersal strength is higher than 25%. Re-colonization patterns that allow for strong local connectivity provide the highest persistence compared to systems that allow circulation. Finally, asymmetry has relatively weak effects when metapopulations maintain strong general connectivity.

Simulation of Boundary Layers and Heat Transfer in the Entrance Region of Pipes

The study of fluid flow in pipes is one of the main topic of interest for engineers in industries. In this thesis, an effort is made to study the boundary layers formed near the wall of the pipe and how it behaves as a resistance to heat transfer. Before few decades, the scientists used to derive the analytical and empirical results by hand as there were limited means available to solve the complex fluid flow phenomena. Due to the increase in technology, now it has been practically possible to understand and analyze the actual fluid flow in any type of geometry. Several methodologies have been used in the past to analyze the boundary layer equations and to derive the expression for heat transfer. An integral relation approach is used for the analytical solution of the boundary layer equations and is compared with the FLUENT simulations for the laminar case. Law of the wall approach is used to derive the empirical correlation between dimensionless numbers and is then compared with the results from FLUENT for the turbulent case. In this thesis, different approaches like analytical, empirical and numerical are compared for the same set of fluid flow equations.

Electron tunneling in heavily In-doped polycrystalline CdS films

The electrical properties of heavily In‐doped polycrystalline CdS films have been studied as a function of the doping level. The films were prepared by vacuum coevaporation of CdS and In. Conductivity and Hall measurements were performed over the temperature range 77-400 K. The conductivity decreases weakly with the temperature and shows a tendency towards saturation at low temperatures. A simple relationship σ=σ0(1+βT2) is found in the low‐temperature range. The temperature dependence of the mobility is similar to that of the conductivity since the Hall coefficient is found to be a constant in the whole temperature range. We interpret the experimental results in terms of a modified version of grain‐boundary trapping Seto"s model, taking into account thermionic emission and tunneling of carriers through the potential barriers. The barriers are found to be high and narrow, and tunneling becomes the predominating transport mechanism.

Komponenttien lämpöteknisten parametrien karakterisointilaitteiston suunnittelu ja toteutus

Elektroniikan pienentyessä ja tehotiheyden kasvaessa tarvitaan paremmin suunniteltuja jäähdytysjärjestelyjä. Suunnittelun apuna voidaan käyttää perinteisiä lämmönsiirtoyhtälöitä, virtauslaskentaa ja mittauksia. Tässä työssä on suunniteltu ja rakennettu mittauslaitteisto nimenomaan elektroniikan komponenttien ja jäähdytyselementtien lämpötilojen ja painehäviöiden mittaamiseen. Koeajona laitteistolla on mitattu jäähdytyselementin lämpötilajakauma kahdella eri virtausnopeudella ja lämpötilalla sekä verrattu niitä aikaisemmin mitattuihin tapauksiin sekä Fluent- virtauslaskentaohjelmalla laskettuihin tuloksiin.

ADVANCED NUMERICAL METHODS FOR SIMULATING MICROBUBBLE IN AN AERATED MIXING TANK

Fluid mixing in mechanically agitated tanks is one of the major unit operations in many industries. Bubbly flows have been of interest among researchers in physics, medicine, chemistry and technology over the centuries. The aim of this thesis is to use advanced numerical methods for simulating microbubble in an aerated mixing tank. Main components of the mixing tank are a cylindrical vessel, a rotating Rushton turbine and the air nozzle. The objective of Computational Fluid Dynamics (CFD) is to predict fluid flow, heat transfer, mass transfer and chemical reactions. The CFD simulations of a turbulent bubbly flow are carried out in a cylindrical mixing tank using large eddy simulation (LES) and volume of fluid (VOF) method. The Rushton turbine induced flow is modeled by using a sliding mesh method. Numerical results are used to describe the bubbly flows in highly complex liquid flow. Some of the experimental works related to turbulent bubbly flow in a mixing tank are briefly reported. Numerical simulations are needed to complete and interpret the results of the experimental work. Information given by numerical simulations has a major role in designing and scaling-up mixing tanks. The results of this work have been reported in the following scientific articles: ·Honkanen M., Koohestany A., Hatunen T., Saarenrinne P., Zamankhan P., Large eddy simulations and PIV experiments of a two-phase air-water mixer, in Proceedings of ASME Fluids Engineering Summer Conference (2005). ·Honkanen M., Koohestany A., Hatunen T., Saarenrinne P., Zamankhan P., Dynamical States of Bubbling in an Aerated Stirring Tank, submitted to J. Computational Physics.

Diagenetic processes in a partially dolomitized carbonate reservoir: Casablanca oil field, Valencia Trough, offshore Spain.

Mesozoic and Neogene carbonates located in the Valencia Trough (offshore Spain, western Mediterranean Sea)are oil reservoirs. This paper investigates the diagenetic evolution of the Upper Jurassic limestones, currently dolomitized, that constitute the main reservoir of the Casablanca oil field. Core samples from Casablanca-1A well have been studied to determine the diagenetic products and their relation with porosity evolution, and to reconstruct the fluid flow history prior to and during oil emplacement. On the basis of petrological observations and geochemical analyses (major, minor and trace element composition and oxygen, carbon and strontium isotope composition), a major dolomitization event is recognized postdating subaerial exposure, erosion and karstification. The dolomitization event originated two replacive dolomites (RD1 and RD2) and two dolomite cements (saddle dolomite cement, SDC, and milky-white dolomite cement, MDC)which are partially cogenetic. RD1, RD2 and SDC precipitated at increasing temperatures (over 60ºC and below 110ºC), probably from meteoric water mixed with marine water. The last dolomite type milky-white dolomite cement) precipitated with increasing burial conditions and by arrival of hydrothermal fluids during the Miocene. The post-dolomitization sequence comprises precipitation of calcite cement and partial calcitization of all previous dolomites. The oxygen, carbon and strontium isotope compositions suggest that this calcite cementation occurred from meteoric waters mixed with Burdigalian - Langhian marine waters trapped in the sediments and expelled by compaction in the moderate to deep burial realm. Normal faults were the conduits for upward migration of these fluids as well as for later oil expulsion from the Burdigalian - Langhian source rocks. Late corrosion associated with organic acid-enriched fluids took place prior or simultaneously to oil migration during the Pliocene, enhancing porosity and increasing eservoir quality.

Turbulenttisen putkivirtauksen numeerinen mallinnus.

Numeerisella mallinnuksella on tavoitteena täydentää ja korvata kokeellista tutkimusta. Tässä tutkimuksessa on mallinnettu CFX 4.1- ja CFX 4.2-ohjelmien avulla lämmönsiirtoa putken sisäpinnalla. Virtausaineena putkessa on käytetty vettä ja vesi-monopropyleeniglykoliliuosta. Tarkasteltujen virtaustapausten Reynoldsin luku vaihtelee 200 - 30000. Kun glykolipitoisuus on suuri ja liuoksen lämpötila on pieni virtaus on laminaarista ja tällöin lämmönsiirtymiskerroin on pieni. Lämmönsiirron tehostamiseksi putkeen on asennettu turbulaattorilanka. Työssä on selvitetty edellytyksiä mallintaa hydraulisesti sileässä putkessa tapahtuvaa virtausta. Reynoldsin luvun ollessa alle 2300 mallinnuksessa on käytetty laminaarimallia. Reynoldsin luvuilla 2300-30000, turbulenttisella alueella, on käytetty pienten Reynoldsin luvun k-ɛ-mallia. Malli vaatii toimiakseen tiheän laskentaverkon putken seinämän läheisyydessä. Tarkastellulla alueella virtauksen ja lämmönsiirron mallinnuksen tulokset ovat vastaavat kuin teorian perusteella lasketut ja kokeellisista mittauksista saatavat tulokset. Lämmönsiirron tehostamiseksi putkeen on asennettu turbulaattorilanka. Tässä työssä on numeerisin menetelmin (pienten Reynoldsin luvun k-ɛ-malli ja k-ɛ-malli) suoritettu laskentaa yhdellä turbulaattorilankarakenteella. Laskennan vertailuaineistona on käytetty aikaisemmasta kokeellisesta tutkimuksesta saatua mittausdataa. Kokeellisessa tutkimuksessa turbulaattorirakenteena on käytetty putken seinämällä kiertyvää turbulaattorilankaa. Todellinen kolmiulotteinen geometria osoittautui vaikeaksi mallintaa. Toimivaa mallia ei ollut mahdollista toteuttaa aikataulun puitteissa ja mallin laskentakapasiteetin tarve kasvoi liian suureksi. Lankarakenne yksinkertaistettiin tasavälein toistuvaksi riparakenteeksi, joka on helpompi mallintaa aksisymmetriaa käyttäen kaksiulotteisena. Mallin tuloksista painehäviö asettuu kirjallisuudesta saatavan vertailuaineiston kanssa samalle tasolle, mutta lämmönsiirtymiskerroin on vertailuaineistoa huomattavasti suurempi.

Virtausjakauman kokeellinen määritys levylämmönsiirtimissä

Diplomityön tavoitteena oli kokeellisen tutkimuksen keinoin selvittää juotettujen levylämmönsiirtimien levypakkarakenteessa virtausten käyttäytyminen ja jakautuminen sekä löytää ideoita ja kehitysehdotuksia levylämmönsiirtimen levypakan ja levyprofiilin kehittämiseksi. Kokeellinen tutkimus suoritettiin Oy Danfoss Ab LPM:n levylämmönsiirtimien tutkimuslaboratoriossa. Virtausjakauman tutkimusta varten suunniteltiin ja valittiin tutkimuslaitteisto, joka koostui termoelementtiantureista, tiedonkeruulaitteistosta sekä ohjelmistosta. Lämmönsiirtimistä mitattiin ensiö- ja toisiopuolen tilavuusvirrat ja painehäviöt sekä lämpötilat ennen ja jälkeen lämmönsiirtimen. Tutkimuslaitteiston avulla mitattiin lämpötiloja lämmönsiirtimen sisältä levyväleistä. Mittaukset suoritettiin neljällä levypakkarakenteella useilla massavirran arvoilla. Mittaustuloksista määritettiin levylämmönsiirtimien lämpö- ja virtaustekniset ominaisuudet nesteen Reynoldsin luvun funktiona sekä selvitettiin nesteen virtausjakaumat. Mittaustuloksien perusteella laskettuja virtausjakauman arvoja verrattiin teorian mukaan laskettuihin jakaumiin. Mitatuista siirtimistä lasketut massavirrat viittaavat siihen, että suurin osa nesteestä virtaa siirtimien keskeltä tai lähempää loppupäätä kuin alkupäästä. Teorian mukaan suurin nestemäärä virtaisi siirtimen alkupäästä vähentyen tasaisesti kohti levypakan loppupäätä. Teorian mukaiselle virtausjakaumalle ja lasketuille jakaumille ei löydetty yhteyttä. Tutkimuksessa havaittiin suuria, jopa yli 20 asteen, lämpötilaeroja levyväleistä ulostulevissa virtauksissa. Levyvälien virtauksen käyttäytymisen ja jakautumisen tutkiminen nähdäänkin levypakan pitkittäistä kehittämistä suurempana mielenkiinnon ja kehittämisen kohteena.

Gp120/CD4 blocking antibodies are frequently elicited in ART-naïve chronically HIV-1 infected individuals

Antibodies with the ability to block the interaction of HIV-1 envelope glycoprotein (Env) gp120 with CD4, including those overlapping the CD4 binding site (CD4bs antibodies), can protect from infection by HIV-1, and their elicitation may be an interesting goal for any vaccination strategy. To identify gp120/CD4 blocking antibodies in plasma samples from HIV-1 infected individuals we have developed a competitive flow cytometry-based functional assay. In a cohort of treatment-naïve chronically infected patients, we showed that gp120/ CD4 blocking antibodies were frequently elicited (detected in 97% plasma samples) and correlated with binding to trimeric HIV-1 envelope glycoproteins. However, no correlation was observed between functional CD4 binding blockade data and titer of CD4bs antibodies determined by ELISA using resurfaced gp120 proteins. Consistently, plasma samples lacking CD4bs antibodies were able to block the interaction between gp120 and its receptor, indicating that antibodies recognizing other epitopes, such as PGT126 and PG16, can also play the same role. Antibodies blocking CD4 binding increased over time and correlated positively with the capacity of plasma samples to neutralize the laboratory-adapted NL4.3 and BaL virus isolates, suggesting their potential contribution to the neutralizing workforce of plasma in vivo. Determining whether this response can be boosted to achieve broadly neutralizing antibodies may provide valuable information for the design of new strategies aimed to improve the anti-HIV-1 humoral response and to develop a successful HIV- 1 vaccine.