Células de mamíferos são os hospedeiros mais frequentemente utilizados para a fabricação de proteínas biofarmacêuticas e para a produção de vacinas virais, A qualidade é um elemento-chave para o estabelecimento de um processo de bioconversão eficiente. No presente trabalho utilizamos a linhagem de células BHK- 21C13(Baby Hamster Kidney) adaptadas para cultivo em suspensão. O uso de Soro Fetal Bovino (SFB) é tradicionalmente utilizado, sendo considerado um suplemento universal, pois permite o crescimento em várias linhagens de células de mamíferos; porém, uso de SFB apresenta risco de infecção por prions, variabilidade entre lotes e aumento no custo em etapa de purificação (Downstream processing). O objetivo do presente trabalho foi comparar o cultivo de células BHK-21 C13 entre dois meios suplementados com SFB e sem SFB, através do estudo cinético para cultivo em suspensão estático e agitado com frascoT, frasco spinner e biorreator, respectivamente. Os parâmetros; Xmáx e µmáx, não foram significativamente influenciados pelo meio de cultura em cultivo estático, em cultivo com agitação em frasco spinner e também no cultivo em biorreator. O tempo de duplicação ficou próximo para todas as condições testadas. A produtividade alcançada foi: 0,032x106 cel/mL.h-1 para o meio com SFB e 0,031 X106 cel/mL.h-1 para o meio sem SFB. Ao final do processo foi possível obter uma concentração celular em torno de 4,7x106 cel/mL, tanto para o cultivo com SFB quanto para o cultivo sem SFB. Dessa forma, o uso de meio de cultivo sem SFB não alterou os principais parâmetros cinéticos, não apresentando as desvantagens do uso do SFB. / Mammalian cells are the most frequently used hosts for the production of biopharmaceutical proteins and viral vaccines. Quality is a key element for the establishment of an efficient bioconversion process. In this work, we used the cell line Baby Hamster Kidney C13 (BHK-21 C13) adapted to suspension culture was used. Fetal Bovine Serum (FBS) is traditionally used and it is considered a universal insert due to its power to increase cell growth in this kind of animal cells. However, the utilization of FBS introduces risks of infection from prions, variability between batches and increase in cost associated to purification stages (downstream processing). This work aimed to compare the kinetic behaviors of BHK-21 C13 cells in two media supplemented with FBS and without FBS using both one static and two suspension systems, T-flask, spinner flask and bioreactor respectively. The parameters; Xmax and µmax were not significantly influenced by the culture medium in T- flask culture static, in spinner flask cultivation and were neither significantly influenced by growing in culture media stirred bioreactor. The doubling time was close to all conditions tested. At the end of the growth phase it was possible to obtain a nearby cell concentration of 4.7 x 106 cells / ml, both for cultivation with FBS as for FBS without cultivation. Thus, the use of culture medium without FBS did not affect the main kinetic parameters. Besides, it does not show the disadvantages of culture media using FBS.

Células de mamíferos são os hospedeiros mais frequentemente utilizados para a fabricação de proteínas biofarmacêuticas e para a produção de vacinas virais, A qualidade é um elemento-chave para o estabelecimento de um processo de bioconversão eficiente. No presente trabalho utilizamos a linhagem de células BHK- 21C13(Baby Hamster Kidney) adaptadas para cultivo em suspensão. O uso de Soro Fetal Bovino (SFB) é tradicionalmente utilizado, sendo considerado um suplemento universal, pois permite o crescimento em várias linhagens de células de mamíferos; porém, uso de SFB apresenta risco de infecção por prions, variabilidade entre lotes e aumento no custo em etapa de purificação (Downstream processing). O objetivo do presente trabalho foi comparar o cultivo de células BHK-21 C13 entre dois meios suplementados com SFB e sem SFB, através do estudo cinético para cultivo em suspensão estático e agitado com frascoT, frasco spinner e biorreator, respectivamente. Os parâmetros; Xmáx e µmáx, não foram significativamente influenciados pelo meio de cultura em cultivo estático, em cultivo com agitação em frasco spinner e também no cultivo em biorreator. O tempo de duplicação ficou próximo para todas as condições testadas. A produtividade alcançada foi: 0,032x106 cel/mL.h-1 para o meio com SFB e 0,031 X106 cel/mL.h-1 para o meio sem SFB. Ao final do processo foi possível obter uma concentração celular em torno de 4,7x106 cel/mL, tanto para o cultivo com SFB quanto para o cultivo sem SFB. Dessa forma, o uso de meio de cultivo sem SFB não alterou os principais parâmetros cinéticos, não apresentando as desvantagens do uso do SFB. / Mammalian cells are the most frequently used hosts for the production of biopharmaceutical proteins and viral vaccines. Quality is a key element for the establishment of an efficient bioconversion process. In this work, we used the cell line Baby Hamster Kidney C13 (BHK-21 C13) adapted to suspension culture was used. Fetal Bovine Serum (FBS) is traditionally used and it is considered a universal insert due to its power to increase cell growth in this kind of animal cells. However, the utilization of FBS introduces risks of infection from prions, variability between batches and increase in cost associated to purification stages (downstream processing). This work aimed to compare the kinetic behaviors of BHK-21 C13 cells in two media supplemented with FBS and without FBS using both one static and two suspension systems, T-flask, spinner flask and bioreactor respectively. The parameters; Xmax and µmax were not significantly influenced by the culture medium in T- flask culture static, in spinner flask cultivation and were neither significantly influenced by growing in culture media stirred bioreactor. The doubling time was close to all conditions tested. At the end of the growth phase it was possible to obtain a nearby cell concentration of 4.7 x 106 cells / ml, both for cultivation with FBS as for FBS without cultivation. Thus, the use of culture medium without FBS did not affect the main kinetic parameters. Besides, it does not show the disadvantages of culture media using FBS.

Today’s massive usage of smartphones has put a high demand on all application developers in the matter of security. For us to be able to keep using all existing and new applications, a process that removes significant security vulnerabilities is essential. To remove these vulnerabilities, the applications have to be tested. In this thesis, we identify six methods for functional and security testing of client-server applications running Android and Python Flask. Regarding functional testing, we implement Espresso testing and RESTful API testing. In regards to the security testing of the system, we do not only implement fuzz testing, sniffing, reverse engineering and SQL injection testing on a system developed by a student group in a parallel project, but also discover a significant security vulnerability that directly affects the integrity and reliability of this system. Out of the six identified testing techniques, reverse engineering exposed the vulnerability. In conjunction with this, we verified that the system’s functionality works as it is supposed to.

Gruvavfall, i form av gråberg, från Kiirunavaara-gruvan i Kiruna, norra Sverige undersöktes för att se om surt lakvatten kan bildas från gråberget och om detta kan ha en påverkan på hur mycket kväve som kan lakas ut från gråberget. För detta ändamål gjordes dels en mineralogisk undersökning av gråberget, med siktning, röntgendiffraktion (XRD) och grundämnesanalys och dels laborativa skakförsök. Från skakförsöken, där olika kornstorlekar (8-16 mm, 2-4 mm och mindre än 1 mm) blandades med avjoniserat vatten med L/S-kvoten 10, kunde förändringar i pH, alkalinitet och lösta joner undersökas över en 10-veckors period.                       De främsta mineralen i gråberget i Kiirunavaara visades vara plagioklas, kvarts och biotit. I gråberget finns även 18 g pyrit/kg gråberg. Skakförsöken indikerar att lakvattnet från gråberget i Kiirunavaara är alkaliskt med ett pH över 9. Vittring av sulfidmineral sker, men neutraliseras av buffrande mineral som kalcit och ingen potential till produktion av surt lakvatten finns. Kväveutlakningen sker främst under de första dygnen, men mer än hälften av de kväveföreningar som antas finnas i gråberget lakas inte ut. Både nitrat och ammonium visade signifikanta korrelationer med pH, där högre pH-värden tydde på högre nitratkoncentrationer och lägre pH-värden på högre ammoniumkoncentrationer. Detta indikerar att även om inget samband kunde ses mellan produktion av surt lakvatten och kväveutlakning, så är mängden av olika kväveföreningar som lakas ut beroende av lakvattnets pH-värde. / Mining waste rock from the Kiirunavaara-mine in northern Sweden was studied to determine if there is a potential for production of acid mine drainage (AMD), if there is a leaching of nitrogen compounds from the waste rock and if a correlation between the two processes can be seen. A mineralogical characterization of the waste rock was done through dry sieving, X-Ray Diffraction (XRD) and elemental analysis. Through shake flask experiments, where waste rock of three different grain sizes (8-16 mm, 2-4 mm and less than 1 mm) were mixed with deionized water (L:S-ratio of 10), the change in pH, alkalinity and dissolved ions during a 10-week period was determined.                       The waste rock in Kiirunavaara was found to consist mainly of plagioclase, quartz and biotite, but the waste rock also contains 18 g pyrite per kg waste rock. The shake flask experiments indicate that the mine drainage from the waste rock in Kiirunavaara is alkaline, with a pH above 9. Weathering of sulphide minerals occur, but are neutralised by buffering minerals such as calcite and thus no potential for AMD-production exists. The leaking of nitrogen compounds occurs mainly during the first few days. Both ammonium and nitrate showed significant correlations with pH, where lower pH-values typically exhibited higher ammonium concentrations, while higher pH-values correlated with higher nitrate concentrations.

Abstract Efficient production of biologically functional recombinant proteins is a cornerstone of modern biotechnological research. Laboratory-scale protein production is most commonly accomplished in simple shaking bioreactors such as shake flasks. However, productivity of these cultures is often severely limited by low biomass yield and non-optimal growth conditions regarding medium composition, pH and oxygen supply. In many cases, poor culture performance can constitute a major research bottleneck. This study aims to improve recombinant protein production in shaking Escherichia coli cultures by use of enzyme-controlled, fed-batch-like glucose feeding in a rich medium, and by investigating the effects of culture aeration on different aspects of protein production. The results show that the enzymatic fed-batch medium can provide higher cell densities, volumetric protein yields and, in some cases, improved product solubility or activity compared to traditionally used media. While these improvements could be obtained in ordinary shaking vessels, the results also demonstrate that cultivation in shake flasks with elevated aeration capacity can further improve cell density and volumetric productivity in the fed-batch medium. However, enhanced aeration may also have an adverse effect on the expression of certain proteins such as Fab antibody fragments. Maximum volumetric Fab yield was achieved under reduced aeration rates, and lower oxygen availability also contributed to substantially increased accumulation of periplasmically produced Fab fragments into extracellular medium. Hence modification of aeration conditions and medium composition can be used to control periplasmic/extracellular product localization as outlined in this study. Moreover, high aeration was detrimental to expression in a glycerol-based lactose autoinduction medium, but this strict dependency on aeration level could be mitigated and robustness of expression improved by an autoinduction medium based on the enzymatic glucose feeding as the supporting carbon source instead of glycerol. The results of this study can be utilized to improve volumetric productivity, protein solubility and control of product localization in small-scale protein production, as well as to facilitate robust and efficient high-throughput protein expression for such applications as structural and functional characterization. / Tiivistelmä Biologisesti aktiivisten vierasproteiinien tehokas tuottaminen on yksi bioteknologisen tutkimuksen kulmakivistä. Laboratoriomittakaavan proteiinituotto toteutetaan yleisimmin yksinkertaisissa ravistelubioreaktoreissa, kuten ravistelupulloissa. Näiden viljelmien tuottavuutta rajoittaa kuitenkin usein biomassan matala saanto sekä epäoptimaaliset olosuhteet kasvualustan koostumuksen, pH:n ja hapen suhteen. Monissa tapauksissa viljelmän heikko tuottavuus muodostaa tutkimukselle merkittävän pullonkaulan. Tämän tutkimuksen tavoite on parantaa vierasproteiinien tuottoa Escherichia coli –ravisteluviljelmissä hyödyntäen entsymaattisesti kontrolloitua, panossyöttökasvatusta jäljittelevää glukoosisyöttöä rikkaassa kasvualustassa, sekä selvittää ilmastuksen vaikutusta proteiinituoton eri osatekijöihin. Tulosten mukaan glukoosisyöttöön perustuva kasvualusta mahdollistaa korkeamman solutiheyden sekä proteiinituoton verrattuna tavallisimmin käytettyihin kasvualustoihin. Joissain tapauksissa myös proteiinin liukoisuus tai aktiivisuus voi parantua. Vaikka nämä edut pystyttiin saavuttamaan myös tavanomaisissa ravistelupulloissa, voidaan panossyöttökasvualustan solutiheyttä ja tuottoa tilavuutta kohti edelleen lisätä käyttämällä korkeamman ilmastustehokkuuden ravistelupulloja. Toisaalta tehostetun ilmastuksen havaittiin olevan mahdollisesti haitallista tiettyjen proteiinien, kuten Fab-vasta-ainefragmenttien, tuotolle. Fab-fragmenttien maksimaalinen tuotto saavutettiin ilmastustehokkuutta laskemalla. Lisäksi matalampi hapen saatavuus edisti periplasmaan ohjattujen Fab-fragmenttien kerääntymistä solunulkoiseen kasvualustaan. Näin ollen ilmastusolosuhteita ja kasvualustan koostumusta muokkaamalla voidaan vaikuttaa tuotteen lopulliseen sijoittumiseen. Korkean ilmastustehokkuuden havaittiin myös olevan haitallista proteiinituotolle glyserolipohjaisessa autoinduktiokasvualustassa. Tätä riippuvuutta ilmastuksen tasosta pystyttiin vähentämään ja autoinduktion luotettavuutta parantamaan käyttämällä kasvualustaa jossa hiililähteenä toimii glyserolin sijaan entsymaattinen glukoosisyöttö. Tutkimuksen tuloksia hyödyntäen voidaan parantaa vierasproteiinien saantoa, liukoisuutta ja periplasmisen/solunulkoisen kerääntymisen säätelyä, sekä mahdollistaa luotettava ja tehokas proteiinituotto viljelmien suurta lukumäärää vaativiin sovelluksiin, kuten proteiinien rakenteen ja toiminnan tutkimukseen.

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Thisdiplomathesisdealswiththedesignofamonitoringsystemforsolidfuelboilers.The first describes the sensors most commonly used in boilers room including a description of the principle of operation. The main content of the thesis is the design of the own boiler monitoring system. First the appropriate structure of the entire system is selected followed by the detailed design of individual parts of the device electronic wiring and selection of suitable sensors. The result of the thesis is the basis for the production of the proposed device and created service program.

Práca sa zaoberá automatizáciou testovania technickej dokumentácie napísanej v značkovacom jazyku AsciiDoc pomocou open-source frameworku testovania technickej dokumentácie Emender implementovaného na CI/CD platforme. Framework bol rozšírený o webovú aplikáciu emenderwebservice s REST API, ktorá poskytuje užívateľské grafické rozhranie s výsledkami testov a mechanizmom na odrieknutie falošne pozitívnych výsledkov testov. Webová aplikácia bola vytvorená pomocou WSGI frameworku na tvorbu webových aplikácií Flask s databázou ktorá umožňuje agregáciu výsledkov testov a ich unikátnu identifikáciu. Aplikácia uľahčuje prístup ku výsledkom testov vygenerovaných frameworkom Emender v CI/CD systémoch a poskytuje technical writer-om ucelené užívateľské prostredie.

Den här rapporten behandlar ett projekt utfört i kandidatkursen TDDD96 - Kandidatprojekt i programvaruutveckling. Projektet är utfört av åtta studenter från datateknik- ochmjukvaruteknikprogrammen på Linköpings universitet (LiU) för kunden från institutionen för medicinsk teknik (IMT) på LiU. Syftet med projektet var att ta fram en prototypmed ett grafiskt gränssnitt för uppvisning och simulering av hur kroppen påverkas av t.ex.träning, sömn och kostintag. Modellerna som simulerats är framtagna av forskningsgrup-pen integrativ system biologi för institutionen för medicinsk teknik LiU och resultatet är i form av dataändringar och grafer i programmets gränssnit.

pH is a key parameter in the optimization of animal cell processes, and has be linked to specific patterns of consumption and production of extracellular metabolites. However, the effect of extracellular pH on intracellular metabolism has not been fully elucidated. Metabolic flux analysis is a mathematical method that can be used to generate the intracellular flux distributions in cells, e.g. as a function of some environmental parameter. In this work, the overall objective was to develop a culture system and experimental protocol for cultivation of CHO cells, which can be used to generate data for analysis of the relationship between extracellular pH and intracellular fluxes in CHO cells by metabolic flux analysis. First, shake-flask culture of an IgG-producing cell line was performed to select an academic and chemically-defined medium with known composition. This was followed by subsequent adaptation of the cells. It was found that the originally selected medium had to be supplemented with a commercial medium to produce acceptable growth and viability. Shake-flask culture was also performed to evaluate the effect of the biological buffer HEPES on cell growth and viability, and the pH-stability during culture. HEPES-concentrations in the investigated range (7.5-45 mM) did not show an apparent effect on cell growth or viability. The higher concentrations gave slightly better buffering capacity at inoculation, however were not sufficient to keep pH stable during culture. As a result, the idea of using shake flask culture and similar techniques for cultivation of cells at various pH set-points was dismissed. Instead, a culture system and protocol based on a 100 mL Spinner flask with pH-regulation was custom-designed for the project. Features of the final design included continuous monitoring of pH and DO, stable temperature at 37 °C, adjustable agitation rate, as well as the option to incorporate inflow of air, O2 and CO2. In addition, the possibility to disconnect the flask unit to perform medium exchange and sample collection away from the reactor site (i.e. in a laminar flow workbench) was integrated into the design and protocol. The system was demonstrated for pseudo-perfusion culture with the adapted IgG-producing cell line at pH 7.0 during 24 days. Optimized regulation settings were identified. It was shown that the system could support viable cell densities of up to 11 MVC/mL and high viability (> 90 %). During the final phase of culture, stable growth, at specific growth rates of approximately 0.7 Day-1, was achieved. The specific rates of consumption and production of the key metabolites glucose, glutamine, lactate and NH4+, as well as 20 amino acids were analyzed. A majority of the rates were in accordance with CHO cell metabolism. The expected consumption of a majority of the essential amino acids and main carbon sources glucose and glutamine were confirmed, as well as the associated production of by-products lactate and NH4+. The system and protocol developed in this work can be used in future experiments to generate data describing metabolic profiles as a function of various pH-set points. This data may then be used in metabolic flux analysis to further elucidate the metabolism behind pH effects in CHO cells. / pH är en viktig parameter i optimeringen av animalcellsprocesser och har sammankopplats med specifika konsumtions- och produktionsmönster rörande extracellulära metaboliter. Det extracellulära pH-värdets effekt på den intracellulära metabolismen är dock inte fullt klarlagd. Metabolisk flux analys är en matematisk metod som kan användas för att generera intracellulära fluxfördelningar i celler, exempelvis som en funktion av någon yttre parameter. Det övergripande målet i detta arbete var att utveckla ett odlingssystem och experimentellt protokoll för odling av CHO-celler som kan användas för att generera data för metabolisk flux analys där målet är att studera effekten av pH på den intracellulära cellmetabolismen. En IgG-producerande CHO-cellslinje odlades först i skakkolv för att välja ut ett akademiskt kemiskt definierat medium med känd sammansättning. Därefter följde försök att anpassa cellerna till det valda mediet. Det visade sig att ett kommersiellt medium behövde tillsättas för att ge godtagbar tillväxt och viabilitet. Effekten av den biologiska bufferten HEPES på cellernas tillväxt och viabilitet, samt pH-stabiliteten under odling, undersöktes också genom odling i skakkolv. HEPES-koncentrationer i det undersökta intervallet (7.5 – 45 mM) hade ingen större effekt på tillväxt och viabilitet. För de högre koncentrationerna var buffertkapaciteten något bättre precis vid inokulering. Dessa koncentrationer var dock ej tillräckliga för att ge stabilt pH under odlingen. Baserat på dessa resultat övergavs tanken på att använda skakkolvsodling för att odla celler vid olika pH-värden. Ett odlingssystem och ett protokoll baserat på en 100 mL Spinnerflaska med pH-reglering specialdesignades istället för projektet. I det färdiga systemet fanns lösningar för kontinuerlig övervakning av pH och DO, stabil temperatur vid 37 °C, justerbar omrörningshastighet, samt valmöjligheten att flöda in luft, O2 och CO2. Dessutom infördes möjligheten att koppla loss flaskenheten från reglersystemet för byte av medium och provtagning. För att demonstrera systemet genomfördes en odling med den anpassade IgG-producerande cellinjen enligt principen för pseudo-perfusion vid pH 7.0. Odlingen pågick under 24 dagar och optimerade reglerinställningar identifierades. Det visades att systemet kunde understödja cellkoncentrationer upp till 11 miljoner celler per milliliter, samt hög viabilitet (> 90 %). Under den senare delen av odlingen uppnåddes stabil tillväxt, vid specifika tillväxthastigheter omkring 0.7 per dygn. Den specifika konsumtions- och produktionshastigheten för metaboliterna glukos, glutamin, laktat och NH4+, samt 20 aminosyror analyserades. Majoriteten av hastigheterna stämde överens med typisk CHO-cellsmetabolism. Den förväntade konsumtionen av majoriteten av de essentiella aminosyrorna och huvudsakliga kolkällorna glukos och glutamin konfirmerades, såväl som den associerade produktionen av bi-produkterna laktat och NH4+. Odlingssystemet och det experimentella protokollet som utvecklades i detta arbete kan användas i framtida experiment för att generera data som beskriver metaboliska profiler som funktion av extracellulärt pH. Dessa data kan sedan användas i metabolisk flux analys för att dra slutsatser om pH-effekter i CHO-celler.