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  • 1.
    A. Strumpfer, Johan
    et al.
    University of Illinois at Urbana Champaign, Urbana, IL, USA; Beckman Institute, Urbana, IL, USA.
    von Castelmur, Eleonore
    Institute of Integrative Biology, University of Liverpool, Liverpool, IL, USA.
    Franke, Barbara
    Institute of Integrative Biology, University of Liverpool, Liverpool, United Kingdom.
    Barbieri, Sonia
    Institute of Integrative Biology, University of Liverpool, Liverpool, United Kingdom.
    Bogomolovas, Julijus
    Universitätsmedizin Mannheim, Mannheim, Germany.
    Qadota, Hiroshi
    Department of Pathology, Emory University, Atlanta, GA, USA.
    Konarv, Petr
    European Molecular Biology Laboratory, Hamburg, Germany.
    Svergun, Dmitri
    European Molecular Biology Laboratory, Hamburg, Germany.
    Labeit, Siegfried
    Department for Integrative Pathophysiology, Universitätsmedizin Mannheim, Mannheim, Germany.
    Schulten, Klaus
    University of Illinois at Urbana Champaign, Urbana, IL, USA Beckman Institute, Urbana, IL, USA.
    Benian, Guy
    Department of Pathology, Emory University, Atlanta, GA, USA.
    Mayans, Olga
    Institute of Integrative Biology, University of Liverpool, Liverpool, United Kingdom.
    Stretching of Twitchin Kinase2012In: Biophysical Journal, ISSN 0006-3495, E-ISSN 1542-0086, Vol. 102, no 3 Supplement 1, p. 361a-362aArticle in journal (Refereed)
    Abstract [en]

    The giant proteins from the titin family, that form cytoskeletal filaments, have emerged as key mechanotransducers in the sarcomere. These proteins contain a conserved kinase region, which is auto-inhibited by a C-terminal tail domain. The inhibitory tail domain occludes the active sites of the kinases, thus preventing ATP from binding. It was proposed that through application of a force, such as that arising during muscle contraction, the inhibitory tail becomes detached, lifting inhibition. The force-sensing ability of titin kinase was demonstrated in AFM experiments and simulations [Puchner, et al., 2008, PNAS:105, 13385], which showed indeed that mechanical forces can remove the autoinhibitory tail of titin kinase. We report here steered molecular dynamics simulations (SMD) of the very recently resolved crystal structure of twitchin kinase, containing the kinase region and flanking fibronectin and immuniglobulin domains, that show a variant mechanism. Despite the significant structural and sequence similarity to titin kinase, the autoinhibitory tail of twitchin kinase remains in place upon stretching, while the N-terminal lobe of the kinase unfolds. The SMD simulations also show that the detachment and stretching of the linker between fibronectin and kinase regions, and the partial extension of the autoinhibitory tail, are the primary force-response. We postulate that this stretched state, where all structural elements are still intact, may represent the physiologically active state.

  • 2.
    Aakumiah, Prince Osei
    Linköping University, The Tema Institute, Department of Water and Environmental Studies.
    Water Management and Health in Ghana: Caes Study - Kumasi2007Independent thesis Advanced level (degree of Master (Two Years)), 20 credits / 30 HE creditsStudent thesis
    Abstract [en]

    There have been multiple cases of drinking water related diseases in Ghana, particularly the cities. Kumasi, the second largest city is recording high figures of drinking water related diseases. The Ghana water and sewage company is supposed to provide adequate safe drinking water to the people. However, the company has failed to provide this service effectively. Various reasons have been given by the company on its inability to perform efficiently. Meanwhile the government decided lately to privatise water in the cities to facilitate access to quality water through what is called “FULL COST RECOVERY”. This attracted a lot of international companies to Ghana but this has also generated protest and demonstrations. The argument is that these foreign companies are basically profit oriented and considering the fact that most of the affected people are very poor, suggesting they cannot afford it.

    The study is aimed at finding out the relationship between water management and health in the study area and how effective water management through full community participation could help provide adequate safe drinking water. The study was a non-interventional descriptive type using both qualitative and quantitative methods. It was conducted in Kumasi, the second largest city in Ghana. A total of 100 residents from the communities was selected through systematic sampling and interviewed. This includes 86 local residents and 14 key informer interviews. The study also relied on observation as well as some selected literature.

    The results confirmed that drinking water related diseases is on the increase with the most affected people being the poor living in shanty and informal areas of the city. It was also found that most people in the city are willing to render any services to provide safe drinking water. But in relative terms, most of these people are very poor with high percentage of illiterates and may only contribute if there is a good relation and trust among all. It however appears that community participation is a good option for the city provided that stakeholders are made to play effective roles.

  • 3.
    Aalberg, Laura
    et al.
    National Bureau of Investigation, P.O. Box 285, FIN-01301 Vantaa, Finland.
    Andersson, Kjell
    Swedish National Laboratory of Forensic Science, SKL, SE-581 94 Linköping, Sweden.
    Bertler, Christina
    Swedish National Laboratory of Forensic Science, SKL, SE-581 94 Linköping, Sweden.
    Borén, Hans
    Linköping University, The Institute of Technology. Linköping University, Department of Physics, Chemistry and Biology, Organic Analytical Chemistry .
    Cole, Michael D.
    Forensic Science Unit, University of Strathclyde, 204 George Street, Glasgow, UK.
    Dahlén, Johan
    Swedish National Laboratory of Forensic Science, SKL, SE-581 94 Linköping, Sweden.
    Finnon, Yvonne
    Forensic Science Unit, University of Strathclyde, 204 George Street, Glasgow, UK.
    Huizer, Henk
    Netherlands Forensic Institute, Volmerlaan 17, 2288 GD Rijswijk, The Netherlands.
    Jalava, Kajsa
    National Bureau of Investigation, P.O. Box 285, FIN-01301 Vantaa, Finland.
    Kaa, Elisabet
    Department of Forensic Medicine, University of Aarhus, Skovagervej 2, DK-8240 Risskov, Denmark.
    Lock, Eric
    Netherlands Forensic Institute, Volmerlaan 17, 2288 GD Rijswijk, The Netherlands/Institut de Police Scientifique, University of Lausanne, Batiment de Chimie, CH-1015 Lausanne-Dorigny, Switzerland.
    Lopes, Alvaro
    Laboratorio de Policia Cientifica, Policia Judiciaria, Rua Gomes Freire 174, 1169-007 Lisbon, Portugal.
    Poortman-van-der Meer, Anneke
    Department of Forensic Medicine, University of Aarhus, Skovagervej 2, DK-8240 Risskov, Denmark.
    Sippola, Erkki
    National Bureau of Investigation, P.O. Box 285, FIN-01301 Vantaa, Finland.
    Development of a harmonised method for the profiling of amphetamines: I. Synthesis of standards and compilation of analytical data2005In: Forensic Science International, ISSN 0379-0738, E-ISSN 1872-6283, Vol. 149, no 2-3, p. 219-229Article in journal (Refereed)
    Abstract [en]

    Reference material was synthesised for 21 substances that are frequently present as synthetic impurities, i.e. by-products, in illicitly produced amphetamine. Each of these substances is a typical by-product for at least one of the three approaches most often used to synthesise amphetamine, namely, the Leuckart, the reductive amination of benzyl methyl ketone, and the nitrostyrene routes. A large body of data on the substances was recorded, including the following: mass spectra, ultraviolet spectra, Fourier transform infrared spectra, infrared spectra in gas phase, and 1H NMR and 13C NMR spectra. © 2004 Elsevier Ireland Ltd. All rights reserved.

  • 4. Aavikko, R.
    et al.
    Saarinen, K.
    Magnusson, Björn
    Linköping University, The Institute of Technology. Linköping University, Department of Physics, Chemistry and Biology, Semiconductor Materials.
    Janzén, Erik
    Linköping University, The Institute of Technology. Linköping University, Department of Physics, Chemistry and Biology, Semiconductor Materials.
    Clustering of Vacancies in Semi-Insulating SiC Observed with Positron Spectroscopy2006In: Materials Science Forum, Vols. 527-529, 2006, Vol. 527-529, p. 575-578Conference paper (Refereed)
  • 5. Aavikko, R.
    et al.
    Saarinen, K.
    Tuomisto, F.
    Magnusson, Björn
    Linköping University, Department of Physics, Chemistry and Biology, Semiconductor Materials. Linköping University, The Institute of Technology.
    Nguyen, Son Tien
    Linköping University, Department of Physics, Chemistry and Biology, Semiconductor Materials. Linköping University, The Institute of Technology.
    Janzén, Erik
    Linköping University, Department of Physics, Chemistry and Biology, Semiconductor Materials. Linköping University, The Institute of Technology.
    Clustering of vacancy defects in high-purity semi-insulating SiC2007In: Physical Review B. Condensed Matter and Materials Physics, ISSN 1098-0121, E-ISSN 1550-235X, Vol. 75, no 8, p. 085208-Article in journal (Refereed)
    Abstract [en]

    Positron lifetime spectroscopy was used to study native vacancy defects in semi-insulating silicon carbide. The material is shown to contain (i) vacancy clusters consisting of four to five missing atoms and (ii) Si-vacancy-related negatively charged defects. The total open volume bound to the clusters anticorrelates with the electrical resistivity in both as-grown and annealed materials. Our results suggest that Si-vacancy-related complexes electrically compensate the as-grown material, but migrate to increase the size of the clusters during annealing, leading to loss of resistivity. © 2007 The American Physical Society.

  • 6.
    Abadias, Gregory
    et al.
    University of Poitiers, France.
    Sarakinos, Kostas
    Linköping University, Department of Physics, Chemistry and Biology, Plasma and Coating Physics. Linköping University, The Institute of Technology.
    Fenker, Martin
    FEM, Germany.
    Kassavetis, Spiros
    Aristotle University of Thessaloniki, Greece.
    Editorial Material: Preface in SURFACE and COATINGS TECHNOLOGY, vol 255, issue , pp2014In: Surface & Coatings Technology, ISSN 0257-8972, E-ISSN 1879-3347, Vol. 255Article in journal (Other academic)
    Abstract [en]

    n/a

  • 7.
    Abadir Guirgis, Georg
    Linköping University, Department of Computer and Information Science.
    Lärarperspektiv på riskutbildningen för motorcyklister2011Independent thesis Basic level (degree of Bachelor), 12 credits / 18 HE creditsStudent thesis
    Abstract [sv]

    Under det senaste decenniet har det i Sverige blivit allt populärare att åka motorcykel. Enobligatorisk riskutbildning för behörighet A och A1 infördes från och med den 1 november2009. Då riskutbildningen är ny har få utvärderingar gjorts.Denna studie utvärderar riskutbildningen för motorcyklister utifrån trafikskolläraresperspektiv. Målet har varit att sammanställa synpunkter och erfarenheter från lärarna påutbildningen. Ett ytterligare mål har varit att undersöka trafikskollärarnas upplevda effekter avutbildningen på elevers trafikbeteende. Sex semistrukturerade intervjuer med trafikskolläraresamt en observationsstudie på olika trafikskolor genomfördes. Utöver detta genomfördesdeltagande observation av en fortbildning där 15 trafikskollärare deltog. Resultatet frånstudien visar att lärarna anser att behovet av riskutbildningen är stort och attimplementationen av den nya riskutbildningen gått bra. Förutom att elever efter utbildningenrefererar till den, vilket enligt lärarna indikerar att de tagit till sig vad som sagts, märks det nui större utsträckning än tidigare att elever kör lugnare och tänker sig mer för i vissasituationer. Detta påtalades vara ett klart önskvärt resultat.

  • 8.
    Abadir Guirgis, Georg
    Linköping University, Department of Computer and Information Science. Linköping University, Faculty of Arts and Sciences.
    Mindre energi och rätt tid: Utvärdering av utbildning och träning för lokförare i energieffektiv körning – en simulatorstudie2013Independent thesis Advanced level (degree of Master (Two Years)), 20 credits / 30 HE creditsStudent thesis
    Abstract [en]

    During the 80’s, the first train simulator was introduced in Swedish train driver education and is still the only full scale simulator being used to educate train drivers in Sweden. The reason for this seems to be a lack of educational and economic motives for an expanded usage of simulators within education and training. Energy savings within the railway domain, i.e. energy-efficient driving, is currently a topic for all train operators in Sweden. Some operators already educate their drivers in energy efficient driving and tests of energy efficiency in real traffic has shown a potential energy saving of 16 %, after drivers have completed a theoretical education in energy-efficient driving. Because there were some uncertainties in the data from the tests carried out in real traffic, where conditions and experimental procedures varied between the drivers and it also turned out that education and access to a support system while driving resulted in a small saving in energy (13 %) there was a need to examine the potential savings under controlled conditions. Therefore, a study was conducted using a train simulator. In the simulator, the researcher has full control over the data and conditions are the same for all drivers. The simulator used in the study was developed by VTI (Swedish National Road and Transport Research Institute) and modeled after an X50 Regina. The purpose of this study was to investigate whether the same theoretical education in energy-efficient driving, in combination with simulator training under ideal conditions, could contribute to the same, or better energy saving compared to the results of the tests from real traffic. Furthermore, the effect of feedback during training with regard to energy savings was also investigated. 24 train driver students were divided into three groups with 8 students in each. Two of these groups completed two sessions (reference and test session) with theoretical education and simulator training between the sessions. The last group (control group) completed two sessions (reference and test session) without education and training between the sessions. The two groups that were given theoretical education conducted their simulator training under two different conditions, where one group trained with feedback (energy consumption and rail gradient) and the other group trained without feedback. It turns out that a theoretical education in energy efficient driving, combined with 30 minutes of simulator training, resulted in a total saving of about 24 % energy for both groups. Also, considering that the control group improved their energy consumption by simply driving the simulator two times (8 % total energy saving), the energy saving was almost equal to the result of the tests in real traffic. Since the results were equal even though the conditions differed, there is reason to investigate how different driving conditions affect the outcome. There is also a need to better understand why education in combination with a support system resulted in a lower energy saving than for those who were only given education during the tests in real traffic, and also why feedback during training in the simulator did not give a detectable effect. Basically, there are many reasons to further investigate how to design simulator training and support systems for train drivers. In addition to the energy savings, the results showed that drivers improved their arrival times i.e. arrive more accurate in relation to the time table. The results suggest that there is great potential for train simulators in the Swedish train driver education, both for training and for evaluating the effects of the training.

  • 9.
    Abbas, Muhammad Hassan
    et al.
    Linköping University, Department of Computer and Information Science.
    Khan, Mati-ur-Rehman
    Linköping University, Department of Computer and Information Science.
    Correlational Analysis of Drivers Personality Traits and Styles in a Distributed Simulated Driving Environment2007Independent thesis Basic level (professional degree), 20 credits / 30 HE creditsStudent thesis
    Abstract [en]

    In this thesis report we conducted research study on driver's behavior in T-Intersections using simulated environment. This report describes and discusses correlation analysis of driver's personality traits and style while driving at T-Intersections.

    The experiments were performed on multi user driving simulator under controlled settings, at Linköping University. A total of forty-eight people participated in the study and were divided into groups of four, all driving in the same simulated world.

    During the experiments participants were asked to fill a series of well-known self-report questionnaires. We evaluated questionnaires to get the insight in driver's personality traits and driving style. The self-report questionnaires consist of Schwartz's configural model of 10 values types and NEO-five factor inventory. Also driver's behavior was studied with the help of questionnaires based on driver's behavior, style, conflict avoidance, time horizon and tolerance of uncertainty. Then these 10 Schwartz's values are correlated with the other questionnaires to give the detail insight of the driving habits and personality traits of the drivers.

  • 10.
    Abbas, Qaisar
    Uppsala universitet, Avdelningen för teknisk databehandling.
    Weak Boundary and Interface Procedures for Wave and Flow Problems2011Doctoral thesis, monograph (Other academic)
    Abstract [en]

    In this thesis, we have analyzed the accuracy and stability aspects of weak boundary and interface conditions (WBCs) for high order finite difference methods on Summations-By-Parts (SBP) form. The numerical technique has been applied to wave propagation and flow problems.

    The advantage of WBCs over strong boundary conditions is that stability of the numerical scheme can be proven. The boundary procedures in the advection-diffusion equation for a boundary layer problem is analyzed. By performing Navier-Stokes calculations, it is shown that most of the conclusions from the model problem carries over to the fully nonlinear case.

    The work was complemented to include the new idea of using WBCs on multiple grid points in a region, where the data is known, instead of at a single point. It was shown that we can achieve high accuracy, an increased rate of convergence to steady-state and non-reflecting boundary conditions by using this approach.

    Using the SBP technique and WBCs, we have worked out how to construct conservative and energy stable hybrid schemes for shocks using two different approaches. In the first method, we combine a high order finite difference scheme with a second order MUSCL scheme. In the second method, a procedure to locally change the order of accuracy of the finite difference schemes is developed. The main purpose is to obtain a higher order accurate scheme in smooth regions and a low order non-oscillatory scheme in the vicinity of shocks.

    Furthermore, we have analyzed the energy stability of the MUSCL scheme, by reformulating the scheme in the framework of SBP and artificial dissipation operators. It was found that many of the standard slope limiters in the MUSCL scheme do not lead to a negative semi-definite dissipation matrix, as required to get pointwise stability.

    Finally, high order simulations of shock diffracting over a convex wall with two facets were performed. The numerical study is done for a range of Reynolds numbers. By monitoring the velocities at the solid wall, it was shown that the computations were resolved in the boundary layer. Schlieren images from the computational results were obtained which displayed new interesting flow features.

  • 11.
    Abbas, Qaisar
    et al.
    Uppsala universitet, Avdelningen för teknisk databehandling.
    Nordström, Jan
    Uppsala universitet, Avdelningen för teknisk databehandling.
    Weak versus strong no-slip boundary conditions for the Navier-Stokes equations2010In: Engineering Applications of Computational Fluid Mechanics, ISSN 1994-2060, Vol. 4, p. 29-38Article in journal (Refereed)
  • 12.
    Abbas, Qaisar
    et al.
    Uppsala universitet, Avdelningen för teknisk databehandling.
    Nordström, Jan
    Uppsala universitet, Avdelningen för teknisk databehandling.
    Weak versus Strong No-Slip Boundary Conditions for the Navier-Stokes Equations2008In: Proc. 6th South African Conference on Computational and Applied Mechanics, South African Association for Theoretical and Applied Mechanics , 2008, p. 52-62Conference paper (Other academic)
  • 13.
    Abbas, Qaisar
    et al.
    Uppsala universitet, Avdelningen för teknisk databehandling.
    van der Weide, Edwin
    Nordström, Jan
    Uppsala universitet, Avdelningen för teknisk databehandling.
    Accurate and stable calculations involving shocks using a new hybrid scheme2009In: Proc. 19th AIAA CFD Conference, AIAA , 2009Conference paper (Refereed)
  • 14.
    Abbas, Qaisar
    et al.
    Uppsala universitet, Avdelningen för teknisk databehandling.
    van der Weide, Edwin
    Faculty of Engineering Technology, University of Twente, AE Enschede, The Netherlands.
    Nordström, Jan
    Uppsala universitet, Avdelningen för teknisk databehandling.
    Energy Stability of the MUSCL Scheme2010In: Proc. 7th South African Conference on Computational and Applied Mechanics, South African Association for Theoretical and Applied Mechanics , 2010, p. 65:1-8Conference paper (Other academic)
  • 15.
    Abbas, Qaisar
    et al.
    Uppsala universitet, Avdelningen för teknisk databehandling.
    van der Weide, Edwin
    Nordström, Jan
    Uppsala universitet, Avdelningen för teknisk databehandling.
    Energy stability of the MUSCL scheme2010In: Numerical Mathematics and Advanced Applications: 2009, Berlin: Springer-Verlag , 2010, p. 61-68Conference paper (Refereed)
  • 16.
    Abbasi, Mazhar Ali
    Linköping University, Department of Science and Technology. Linköping University, The Institute of Technology.
    The synthesis, characterization and device fabrication of ZnO, NiO and their composite nanostructures2014Doctoral thesis, comprehensive summary (Other academic)
    Abstract [en]

    Electronics industry has been revolutionized since last few decades because of the fabrication of electronic devices by using nanoscale based materials. But the more innovative feature in the electronic devices is the use of transparent materials, which makes the transparent electronic devices as one of the most interesting research field in nanoscience and nano-technology now a days. In order to have high performance electronic devices based on the wide band gap compound semiconductors, a selection of right transparent material is crucial step. Among all the transparent metal oxides, ZnO is one of the potential candidates due to the ease in the synthesis process, wide bandgap of 3.37 eV, a high exciton binding energy of 60 meV and diverse morphologies. Since p-type ZnO based nanodevices are still difficult to fabricate due to the instability and unreliability of p-type ZnO nanomaterial, therefore several p-type semiconductors are used for the development of p-n junctions. Among those NiO is suitable p-type compound semiconductor to make p-n junction with ZnO because of its wide band gap of 3.7 eV and environment friendly conditions for its synthesis. Keeping these attractive properties of n-type ZnO and p-type NiO, the synthesis of composite nanostructures of these two transparent oxides and fabrication of their electronic devices is presented in this dissertation work.

    I started my work with the synthesis of ZnO nanostructures focusing on the effect of different anions of zinc salts on the morphology and crystallinity of ZnO nanostructures. Then I grow honey-comb like NiO nanostructures on 3D nickel foam and used these nanostructures for the detection of Zinc ion. After that synthesized NiO and ZnO based composite nanostructures and characterized them, having main focus on the luminescence properties of ZnO when decorated with NiO nanostructures. The composite nanostructures of p-type NiO and n-type ZnO showed enhancement in the luminescence properties. Since pn junction is the back bone of electronic devices so working on the designing of band alignment along with the current transport properties of p-type NiO/n-type ZnO composite structures, an attempt was put forwarded to explain the phenomenon of these compound semiconducting materials. Different devices based on these two compound semiconducting materials are fabricated and designed in the present dissertation work, however still more work is required to improve the efficiency of devices like LEDs and UV detectors.

    List of papers
    1. Anions effect on the low temperature growth of ZnO nanostructures
    Open this publication in new window or tab >>Anions effect on the low temperature growth of ZnO nanostructures
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    2012 (English)In: Vacuum, ISSN 0042-207X, E-ISSN 1879-2715, Vol. 86, no 12, p. 1998-2001Article in journal (Refereed) Published
    Abstract [en]

    Seed mediated aqueous chemical growth (ACG) route was used for the growth of ZnO nanostructures on Si substrate in four different growth mediums. The growth medium has shown to affect the morphology and the size of the different nanostructures. We observed that the medium containing zinc nitrate anions yields the nanorods, in a medium containing zinc acetate anions nano-candles are obtained. While in a medium containing zinc chloride anions ZnO nano-discs were obtained and in a medium containing zinc sulfate anions nano-flakes are achieved. Growth in these different mediums has also shown effect on the optical emission characteristics of the different ZnO nanostructures.

    Place, publisher, year, edition, pages
    Elsevier, 2012
    Keywords
    ZnO, Chemical growth, Nanostructures, Optical properties
    National Category
    Engineering and Technology
    Identifiers
    urn:nbn:se:liu:diva-84909 (URN)10.1016/j.vacuum.2012.05.020 (DOI)000308672000041 ()
    Available from: 2012-10-26 Created: 2012-10-26 Last updated: 2018-02-16
    2. Potentiometric Zinc Ion Sensor Based on Honeycomb-Like NiO Nanostructures
    Open this publication in new window or tab >>Potentiometric Zinc Ion Sensor Based on Honeycomb-Like NiO Nanostructures
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    2012 (English)In: Sensors, ISSN 1424-8220, E-ISSN 1424-8220, Vol. 12, no 11, p. 15424-15437Article in journal (Refereed) Published
    Abstract [en]

    In this study honeycomb-like NiO nanostructures were grown on nickel foam by a simple hydrothermal growth method. The NiO nanostructures were characterized by field emission electron microscopy (FESEM), high resolution transmission electron microscopy (HRTEM) and X-ray diffraction (XRD) techniques. The characterized NiO nanostructures were uniform, dense and polycrystalline in the crystal phase. In addition to this, the NiO nanostructures were used in the development of a zinc ion sensor electrode by functionalization with the highly selective zinc ion ionophore 12-crown-4. The developed zinc ion sensor electrode has shown a good linear potentiometric response for a wide range of zinc ion concentrations, ranging from 0.001 mM to 100 mM, with sensitivity of 36 mV/decade. The detection limit of the present zinc ion sensor was found to be 0.0005 mM and it also displays a fast response time of less than 10 s. The proposed zinc ion sensor electrode has also shown good reproducibility, repeatability, storage stability and selectivity. The zinc ion sensor based on the functionalized NiO nanostructures was also used as indicator electrode in potentiometric titrations and it has demonstrated an acceptable stoichiometric relationship for the determination of zinc ion in unknown samples. The NiO nanostructures-based zinc ion sensor has potential for analysing zinc ion in various industrial, clinical and other real samples.

    Place, publisher, year, edition, pages
    MDPI, 2012
    Keywords
    honeycomb NiO nanostructures, potentiometric response, ion selective electrode, selectivity, selective ionophore
    National Category
    Engineering and Technology
    Identifiers
    urn:nbn:se:liu:diva-86653 (URN)10.3390/s121115424 (DOI)000311429500060 ()
    Available from: 2012-12-20 Created: 2012-12-20 Last updated: 2017-12-06
    3. Decoration of ZnO nanorods with coral reefs like NiO nanostructures by the hydrothermal growth method and their luminescence study
    Open this publication in new window or tab >>Decoration of ZnO nanorods with coral reefs like NiO nanostructures by the hydrothermal growth method and their luminescence study
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    2014 (English)In: Materials, ISSN 1996-1944, E-ISSN 1996-1944, Vol. 7, no 1, p. 430-440Article in journal (Refereed) Published
    Abstract [en]

    Composite nanostructures of coral reefs like p-type NiO on n-type ZnO nanorods have been decorate on fluorine-doped tin oxide glass substrates by the hydrothermal growth. Structural characterization was performed by field emission scanning electron microscopy,  high-resolution transmission electron microscopy and X-ray diffraction techniques. This investigation has shown that the adopted synthesis has led to high crystalline quality nanostructures. Morphological study shows that the coral reefs like nanostructures are densely packed on the ZnO nanorods. Cathodoluminescence (CL) spectra for the synthesized composite nanostructures were dominated by a near band gap emission at 380 nm and by a broad interstitial defect related luminescence centered at ~630 nm. Spatially resolved CL images reveal that the luminescence originates mainly from the ZnO nanorods.

    Place, publisher, year, edition, pages
    MDPI, 2014
    Keywords
    ZnO nanorods; NiO nanostructure; composite nanostructures; defect states; cathodoluminescent
    National Category
    Natural Sciences
    Identifiers
    urn:nbn:se:liu:diva-103339 (URN)10.3390/ma7010430 (DOI)000336088500030 ()
    Available from: 2014-01-17 Created: 2014-01-17 Last updated: 2018-07-20Bibliographically approved
    4. The determination of valence band offset and the current transport properties of the p-NiO/n-ZnO heterojunction
    Open this publication in new window or tab >>The determination of valence band offset and the current transport properties of the p-NiO/n-ZnO heterojunction
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    2013 (English)Manuscript (preprint) (Other academic)
    Abstract [en]

    The electron transport in the electronic devices has significant influence on the device performance, thus current transport properties determination is highly demanded for a particular device. Herein, we report the facile hydrothermal growth method based fabrication of p-NiO/n-ZnO heterojunction. The material characterization was performed by scanning electron microscopy, X-ray diffraction, transmission electron microscopy and X-ray photo electron spectroscopy. These techniques provided the good crystal quality, pure phase of p-NiO and n-ZnO nanostructures respectively. The measured valance band offset of composite nanostructure is 2.25 eV and conduction band offset was found to be 2.58 eV. The current transport properties of the fabricated p-n junction are governed by three different I-V regions. The impedance spectroscopy was used for the determination of the role of grain boundaries at the interface.

    Keywords
    Zinc oxide, nickel oxide, heterojunction, diode, current transport properties
    National Category
    Natural Sciences
    Identifiers
    urn:nbn:se:liu:diva-103340 (URN)
    Available from: 2014-01-17 Created: 2014-01-17 Last updated: 2014-03-27Bibliographically approved
    5. Fabrication of UV photo-detector based on coral reef like p-NiO/n-ZnO nanocomposite structures
    Open this publication in new window or tab >>Fabrication of UV photo-detector based on coral reef like p-NiO/n-ZnO nanocomposite structures
    Show others...
    2013 (English)In: Materials letters (General ed.), ISSN 0167-577X, E-ISSN 1873-4979, Vol. 108, p. 149-152Article in journal (Refereed) Published
    Abstract [en]

    In this research work, a UV photo-detector is fabricated on fluorine doped tin oxide (FTO) glass substrate by exploiting the advantageous features of p-n heterojunctions based on p-NiO and n-ZnO composite nanostructures forming a coral-reef like structures. Scanning electron microscopy (SEM) and X-ray diffraction results showed uniform morphology and good crystal quality of the synthesised nanostructures respectively. I-V measurements have shown nonlinear and rectifying response of the p-NiO/n-ZnO heterojunction. The proposed photodiode exhibited excellent UV response with acceptable photocurrent generation of about 3.4 mA and the responsivity of 2.27 A/W at -3 biasing voltage.

    Place, publisher, year, edition, pages
    Elsevier, 2013
    Keywords
    p-NiO/n-ZnO composite nanostructures, Photodiode, UV-visible spectrophotometry
    National Category
    Engineering and Technology
    Identifiers
    urn:nbn:se:liu:diva-99403 (URN)10.1016/j.matlet.2013.06.083 (DOI)000324562900038 ()
    Available from: 2013-10-17 Created: 2013-10-17 Last updated: 2017-12-06
    6. The fabrication of white light-emitting diodes using the n-ZnO/NiO/p-GaN heterojunction with enhanced luminescence
    Open this publication in new window or tab >>The fabrication of white light-emitting diodes using the n-ZnO/NiO/p-GaN heterojunction with enhanced luminescence
    Show others...
    2013 (English)In: Nanoscale Research Letters, ISSN 1931-7573, E-ISSN 1556-276X, Vol. 8, no 320Article in journal (Refereed) Published
    Abstract [en]

    Cheap and efficient white light-emitting diodes (LEDs) are of great interest due to the energy crisis all over the world. Herein, we have developed heterojunction LEDs based on the well-aligned ZnO nanorods and nanotubes on the p-type GaN with the insertion of the NiO buffer layer that showed enhancement in the light emission. Scanning electron microscopy have well demonstrated the arrays of the ZnO nanorods and the proper etching into the nanotubes. X-ray diffraction study describes the wurtzite crystal structure array of ZnO nanorods with the involvement of GaN at the (002) peak. The cathodoluminescence spectra represent strong and broad visible emission peaks compared to the UV emission and a weak peak at 425 nm which is originated from GaN. Electroluminescence study has shown highly improved luminescence response for the LEDs fabricated with NiO buffer layer compared to that without NiO layer. Introducing a sandwich-thin layer of NiO between the n-type ZnO and the p-type GaN will possibly block the injection of electrons from the ZnO to the GaN. Moreover, the presence of NiO buffer layer might create the confinement effect.

    Keywords
    White light-emitting diode; ZnO nanorods; Nanotubes; NiO buffer layer
    National Category
    Natural Sciences
    Identifiers
    urn:nbn:se:liu:diva-103341 (URN)10.1186/1556-276X-8-320 (DOI)000331642900001 ()
    Available from: 2014-01-17 Created: 2014-01-17 Last updated: 2017-12-06Bibliographically approved
  • 17.
    Abbasi, Mazhar Ali
    et al.
    Linköping University, Department of Science and Technology. Linköping University, The Institute of Technology.
    Hussain Ibupoto, Zafar
    Linköping University, Department of Science and Technology. Linköping University, The Institute of Technology.
    Hussain, Mushtaque
    Linköping University, Department of Science and Technology. Linköping University, The Institute of Technology.
    Nur, Omer
    Linköping University, Department of Science and Technology, Physics and Electronics. Linköping University, The Institute of Technology.
    Willander, Magnus
    Linköping University, Department of Science and Technology, Physics and Electronics. Linköping University, The Institute of Technology.
    The fabrication of white light-emitting diodes using the n-ZnO/NiO/p-GaN heterojunction with enhanced luminescence2013In: Nanoscale Research Letters, ISSN 1931-7573, E-ISSN 1556-276X, Vol. 8, no 320Article in journal (Refereed)
    Abstract [en]

    Cheap and efficient white light-emitting diodes (LEDs) are of great interest due to the energy crisis all over the world. Herein, we have developed heterojunction LEDs based on the well-aligned ZnO nanorods and nanotubes on the p-type GaN with the insertion of the NiO buffer layer that showed enhancement in the light emission. Scanning electron microscopy have well demonstrated the arrays of the ZnO nanorods and the proper etching into the nanotubes. X-ray diffraction study describes the wurtzite crystal structure array of ZnO nanorods with the involvement of GaN at the (002) peak. The cathodoluminescence spectra represent strong and broad visible emission peaks compared to the UV emission and a weak peak at 425 nm which is originated from GaN. Electroluminescence study has shown highly improved luminescence response for the LEDs fabricated with NiO buffer layer compared to that without NiO layer. Introducing a sandwich-thin layer of NiO between the n-type ZnO and the p-type GaN will possibly block the injection of electrons from the ZnO to the GaN. Moreover, the presence of NiO buffer layer might create the confinement effect.

  • 18.
    Abbasi, Mazhar Ali
    et al.
    Linköping University, Department of Science and Technology, Physics and Electronics. Linköping University, The Institute of Technology.
    Hussain Ibupoto, Zafar
    Linköping University, Department of Science and Technology, Physics and Electronics. Linköping University, The Institute of Technology.
    Hussain, Mushtaque
    Linköping University, Department of Science and Technology, Physics and Electronics. Linköping University, The Institute of Technology.
    Pozina, Galia
    Linköping University, Department of Physics, Chemistry and Biology, Thin Film Physics. Linköping University, The Institute of Technology.
    Lu, Jun
    Linköping University, Department of Physics, Chemistry and Biology, Thin Film Physics. Linköping University, The Institute of Technology.
    Hultman, Lars
    Linköping University, Department of Physics, Chemistry and Biology, Thin Film Physics. Linköping University, The Institute of Technology.
    Nur, Omer
    Linköping University, Department of Science and Technology, Physics and Electronics. Linköping University, The Institute of Technology.
    Willander, Magnus
    Linköping University, Department of Science and Technology, Physics and Electronics. Linköping University, The Institute of Technology.
    Decoration of ZnO nanorods with coral reefs like NiO nanostructures by the hydrothermal growth method and their luminescence study2014In: Materials, ISSN 1996-1944, E-ISSN 1996-1944, Vol. 7, no 1, p. 430-440Article in journal (Refereed)
    Abstract [en]

    Composite nanostructures of coral reefs like p-type NiO on n-type ZnO nanorods have been decorate on fluorine-doped tin oxide glass substrates by the hydrothermal growth. Structural characterization was performed by field emission scanning electron microscopy,  high-resolution transmission electron microscopy and X-ray diffraction techniques. This investigation has shown that the adopted synthesis has led to high crystalline quality nanostructures. Morphological study shows that the coral reefs like nanostructures are densely packed on the ZnO nanorods. Cathodoluminescence (CL) spectra for the synthesized composite nanostructures were dominated by a near band gap emission at 380 nm and by a broad interstitial defect related luminescence centered at ~630 nm. Spatially resolved CL images reveal that the luminescence originates mainly from the ZnO nanorods.

  • 19.
    Abbey-Lee, Robin
    et al.
    Linköping University, Department of Physics, Chemistry and Biology, Biology. Linköping University, Faculty of Science & Engineering. Max Planck Inst Ornithol, Germany.
    Araya-Ajoy, Yimen G.
    Norwegian Univ Sci and Technol, Norway.
    Mouchet, Alexia
    Max Planck Inst Ornithol, Germany.
    Moiron, Maria
    Max Planck Inst Ornithol, Germany.
    Stuber, Erica F.
    Univ Nebraska Lincoln, NE USA.
    Kempenaers, Bart
    Max Planck Inst Ornithol, Germany.
    Dingemanse, Niels J.
    Max Planck Inst Ornithol, Germany; Ludwig Maximilians Univ Munchen, Germany.
    Does perceived predation risk affect patterns of extra-pair paternity? A field experiment in a passerine bird2018In: Functional Ecology, ISSN 0269-8463, E-ISSN 1365-2435, Vol. 32, no 4, p. 1001-1010Article in journal (Refereed)
    Abstract [en]

    Non-consumptive predator effects have been shown to influence a wide range of behavioural, life history and morphological traits. Extra-pair reproduction is widespread among socially monogamous birds and may incur predation costs. Consequently, altered rates of extra-pair reproduction are expected in circumstances characterized by increased adult perceived predation risk. In addition, extra-pair reproduction is expected to be most affected for birds with phenotypes that generally increase predation risk (such as more active individuals). In two consecutive years, perceived predation risk was manipulated for great tits Parus major breeding in 12 nest-box plots by broadcasting sounds of their main predator (European sparrowhawk Accipiter nisus; six plots). As a control treatment, sounds of a sympatric, avian non-predator species were broadcast (Eurasian blackbird Turdus merula; six plots). Levels of extra-pair paternity did not differ between plots with different predation risk treatments. Males that moved more in a novel environment (more active or faster exploring) tended to have offspring with fewer partners, but this effect did not vary with predation risk treatment. From an adaptive viewpoint, predation costs associated with extra-pair reproduction may be small and may not outweigh the benefits of extra-pair behaviour. Research on a broader range of taxa with different mating strategies is now needed to confirm the generality of our findings.

  • 20.
    Abbey-Lee, Robin N.
    et al.
    Linköping University, Department of Physics, Chemistry and Biology, Biology. Linköping University, Faculty of Science & Engineering.
    Uhrig, Emily J.
    Department of Zoology, Stockholm University, 10691 Stockholm, Sweden.
    Zidar, Josefina
    Linköping University, Department of Physics, Chemistry and Biology, Biology. Linköping University, Faculty of Science & Engineering.
    Favati, Anna
    Department of Zoology, Stockholm University, 10691 Stockholm, Sweden.
    Almberg, Johan
    Linköping University, Department of Physics, Chemistry and Biology, Biology. Linköping University, Faculty of Science & Engineering.
    Dahlblom, Josefin
    Department of Neuroscience, Uppsala Biomedical Centre BMC, Uppsala University, Uppsala, Sweden.
    Winberg, Svante
    Department of Neuroscience, Uppsala Biomedical Centre BMC, Uppsala University, Uppsala, Sweden.
    Løvlie, Hanne
    Linköping University, Department of Physics, Chemistry and Biology, Biology. Linköping University, Faculty of Science & Engineering.
    The influence of rearing on behavior, brain monoamines and gene expression in three-spined sticklebacks2018Data set
    Abstract [en]
    1. The causes of individual variation in behavior are often not well understood, and potential underlying mechanisms include both intrinsic and extrinsic factors, such as early environmental, physiological, and genetic differences.
    2. In an exploratory laboratory study, we raised three-spined sticklebacks (Gasterosteus aculeatus) under 4 different environmental conditions (simulated predator environment, complex environment, variable social environment, and control). We investigated how these manipulations related to behavior, brain physiology and gene expression later in life, with focus on brain dopamine and serotonin levels, turnover rates, and gene expression.
    3. The different rearing environments influenced behavior and gene expression, but did not alter monoamine levels or metabolites. Specifically, compared to control fish, fish exposed to a simulated predator environment tended to be less aggressive, more exploratory, and more neophobic; and fish raised in both complex and variable social environments tended to be less neophobic. Exposure to a simulated predator environment tended to lower expression of dopamine receptor DRD4A, a complex environment increased expression of dopamine receptor DRD1B, while a variable social environment tended to increase serotonin receptor 5-HTR2B and increased serotonin transporter SLC6A4A expression. Despite both behavior and gene expression varying with early environment, there was no evidence that gene expression mediated the relationship between early environment and behavior.
    4. Our results confirm that environmental conditions early in life can affect phenotypic variation. However, the mechanistic pathway of the monoaminergic systems translating early environmental variation into observed behavioral responses was not detected.
  • 21.
    Abbey-Lee, Robin N.
    et al.
    Linköping University, Department of Physics, Chemistry and Biology, Biology. Linköping University, Faculty of Science & Engineering.
    Uhrig, Emily
    Linköping University, Department of Physics, Chemistry and Biology, Biology. Linköping University, Faculty of Science & Engineering.
    Zidar, Josefina
    Linköping University, Department of Physics, Chemistry and Biology, Biology. Linköping University, Faculty of Science & Engineering.
    Favati, A.
    Department of Zoology, Stockholm University, Stockholm, Sweden.
    Almberg, J.
    Linköping University, Department of Physics, Chemistry and Biology, Biology. Linköping University, Faculty of Science & Engineering.
    Dahlbom, J.
    Department of Neuroscience, Uppsala Biomedical Centre BMC, Uppsala University, Uppsala, Sweden.
    Winberg, S.
    Department of Neuroscience, Uppsala Biomedical Centre BMC, Uppsala University, Uppsala, Sweden.
    Løvlie, Hanne
    Linköping University, Department of Physics, Chemistry and Biology, Biology. Linköping University, Faculty of Science & Engineering.
    The Influence of Rearing on Behavior, Brain Monoamines, and Gene Expression in Three-Spined Sticklebacks2018In: Brain, behavior, and evolution, ISSN 0006-8977, E-ISSN 1421-9743, Vol. 91, no 4, p. 201-213Article in journal (Refereed)
    Abstract [en]

    The causes of individual variation in behavior are often not well understood, and potential underlying mechanisms include both intrinsic and extrinsic factors, such as early environmental, physiological, and genetic differences. In an exploratory laboratory study, we raised three-spined sticklebacks <i>(Gasterosteus aculeatus)</i> under 4 different environmental conditions (simulated predator environment, complex environment, variable social environment, and control). We investigated how these manipulations related to behavior, brain physiology, and gene expression later in life, with focus on brain dopamine and serotonin levels, turnover rates, and gene expression. The different rearing environments influenced behavior and gene expression, but did not alter monoamine levels or metabolites. Specifically, compared to control fish, fish exposed to a simulated predator environment tended to be less aggressive, more exploratory, and more neophobic; and fish raised in both complex and variable social environments tended to be less neophobic. Exposure to a simulated predator environment tended to lower expression of dopamine receptor DRD4A, a complex environment increased expression of dopamine receptor DRD1B, while a variable social environment tended to increase serotonin receptor 5-HTR2B and serotonin transporter SLC6A4A expression. Despite both behavior and gene expression varying with early environment, there was no evidence that gene expression mediated the relationship between early environment and behavior. Our results confirm that environmental conditions early in life can affect phenotypic variation. However, the mechanistic pathway of the monoaminergic systems translating early environmental variation into observed behavioral responses was not detected.

  • 22.
    Abbey-Lee, Robin
    et al.
    Linköping University, Department of Physics, Chemistry and Biology, Biology. Linköping University, Faculty of Science & Engineering.
    Uhrig, Emily
    Linköping University, Department of Physics, Chemistry and Biology, Biology. Linköping University, Faculty of Science & Engineering. Southern Oregon Univ, OR 97520 USA.
    Garnham, Laura
    Linköping University, Department of Physics, Chemistry and Biology, Biology. Linköping University, Faculty of Science & Engineering.
    Lundgren, Kristoffer
    Linköping University, Department of Physics, Chemistry and Biology, Biology. Linköping University, Faculty of Science & Engineering.
    Child, Sarah
    Linköping University, Department of Physics, Chemistry and Biology, Biology. Linköping University, Faculty of Science & Engineering. Univ Manchester, England.
    Lovlie, Hanne
    Linköping University, Department of Physics, Chemistry and Biology, Biology. Linköping University, Faculty of Science & Engineering.
    Experimental manipulation of monoamine levels alters personality in crickets2018In: Scientific Reports, ISSN 2045-2322, E-ISSN 2045-2322, Vol. 8, article id 16211Article in journal (Refereed)
    Abstract [en]

    Animal personality has been described in a range of species with ecological and evolutionary consequences. Factors shaping and maintaining variation in personality are not fully understood, but monoaminergic systems are consistently linked to personality variation. We experimentally explored how personality was influenced by alterations in two key monoamine systems: dopamine and serotonin. This was done using ropinirole and fluoxetine, two common human pharmaceuticals. Using the Mediterranean field cricket (Gryllus bimaculatus), we focused on the personality traits activity, exploration, and aggression, with confirmed repeatability in our study. Dopamine manipulations explained little variation in the personality traits investigated, while serotonin manipulation reduced both activity and aggression. Due to limited previous research, we created a dose-response curve for ropinirole, ranging from concentrations measured in surface waters to human therapeutic doses. No ropinirole dose level strongly influenced cricket personality, suggesting our results did not come from a dose mismatch. Our results indicate that the serotonergic system explains more variation in personality than manipulations of the dopaminergic system. Additionally, they suggest that monoamine systems differ across taxa, and confirm the importance of the mode of action of pharmaceuticals in determining their effects on behaviour.

  • 23.
    Abdalla, Hassan
    Linköping University, Department of Physics, Chemistry and Biology, Complex Materials and Devices. Linköping University, Faculty of Science & Engineering.
    Charge and Energy Transport in Disordered Organic Semiconductors2018Doctoral thesis, comprehensive summary (Other academic)
    Abstract [en]

    Improvement of the performance of organic disordered semiconductors (OSC) is driven by the understanding   of the underlying charge transport mechanisms and systematic exploitation thereof. There exists a multitude of materials and material systems based on polymers and small molecules with promising performance for use in organic light emitting diodes, photovoltaics, organic field-effect transistors and thermoelectrics. However, universal understanding of many classes of these materials has eluded researchers, due to their broad   spectrum of morphologies, molecular structures and electrical properties. Building on the large body of existing models, this thesis deals with charge transport phenomena from the perspective of transport energetics, by studying the interplay between a few but important concepts commonly accepted to play a crucial role in all  OSC materials; energetic disorder, charge carrier hopping and Coulomb interactions. The influence of these concepts on the energetic landscape through which charge carriers move and how this translates to experimentally observed transport phenomena are studied by a combination of experimental work, kinetic Monte Carlo (MC) simulations and empirical and analytical models.

    The universal scaling and collapse of the temperature and electric field dependence of the conductivity of PEDOT:PSS to a single curve is shown to be functionally equivalent to the scaling of the effective temperature, which describes the effect of field heating as a broadening of the charge carrier distribution. From numerical investigation of the energy relaxation, an empirical model is developed that relates the physical meaning   behind both concepts to the heat balance between Joule heating of the carrier distribution via the effective temperature and energy loss to the lattice. For this universal description to be applicable a strongly energy- dependent density of states (DOS) as well as Coulomb interactions and large carrier concentrations are needed.

    Chemical doping is a common way of improving charge transport in OSC and is also beneficial for energy transport, which combined leads to an increased thermoelectric power factor. The ensuing thermoelectric investigations not only showed the potential of these materials for use in thermoelectric generators, but are  also helpful in unraveling charge transport mechanism as they give direct insight into the energetics of a material. Interestingly, doped OSC exhibit the same universal power-law relationship between thermopower and conductivity, independent of material system or doping method, pointing towards a common energy and charge transport mechanism. In this thesis an analytical model is presented, which reproduces said universal power-law behavior and is able to attribute it to Variable Range Hopping (VRH) or a transition between Nearest Neighbour Hopping (NNH) and VRH at higher concentrations. This model builds on an existing three- dimensional hopping formalism that includes the effect of the attractive Coulomb potential of ionized dopants that leads to a broadening of the DOS. Here, this model is extended by including the energy offset between   host and dopant material and is positively tested against MC simulations and a set of thermoelectric measurements covering different material groups and doping mechanisms.

    Organic field effect transistors (OFETs) have become increasingly comparable in electrical mobility to their inorganic (silicon) counterparts. The spatial extent of charge transport in OFETs has been subject to debate since their inception with many experimental, numerical and analytical studies having been undertaken. Here it is shown that the common way of analyzing the dimensionality of charge transport in OFETs may be prone to misinterpretations. Instead, the results in this thesis suggest that charge transport in OFETs is, in fact, quasi- two-dimensional (2D) due to the confinement of the gate field in addition to a morphology-induced preferred in-plane direction of the transport. The inherently large charge carrier concentrations in OFETs in addition to   the quasi-2D confinement leads to increased Coulomb interaction between charge carriers as compared to bulk material, leading to a thermoelectric behavior that deviates from doped organic systems. At very large concentrations interesting charge transport phenomena are observed, including an unexpected simultaneous increase of the concentration dependence and the magnitude of the mobility, the appearance of a negative transconductance, indicating a transition to an insulating Mott-Hubbard phase. The experimental and   numerical results in this thesis relate these phenomena the intricacies of the interplay between Coulomb interactions, energetic disorder and charge carrier hopping.

    List of papers
    1. Effective Temperature and Universal Conductivity Scaling in Organic Semiconductors
    Open this publication in new window or tab >>Effective Temperature and Universal Conductivity Scaling in Organic Semiconductors
    2015 (English)In: Scientific Reports, ISSN 2045-2322, E-ISSN 2045-2322, Vol. 5, article id 16870Article in journal (Refereed) Published
    Abstract [en]

    We investigate the scalability of the temperature-and electric field-dependence of the conductivity of disordered organic semiconductors to universal curves by two different but commonly employed methods; by so-called universal scaling and by using the effective temperature concept. Experimentally both scaling methods were found to be equally applicable to the out-of-plane charge transport in PEDOT: PSS thin films of various compositions. Both methods are shown to be equivalent in terms of functional dependence and to have identical limiting behavior. The experimentally observed scaling behavior can be reproduced by a numerical nearest-neighbor hopping model, accounting for the Coulomb interaction, the high charge carrier concentration and the energetic disorder. The underlying physics can be captured in a simple empirical model, describing the effective temperature of the charge carrier distribution as the outcome of a heat balance between Joule heating and (effective) temperature-dependent energy loss to the lattice.

    Place, publisher, year, edition, pages
    Nature Publishing Group, 2015
    National Category
    Physical Sciences
    Identifiers
    urn:nbn:se:liu:diva-123329 (URN)10.1038/srep16870 (DOI)000364933800002 ()26581975 (PubMedID)
    Available from: 2015-12-14 Created: 2015-12-11 Last updated: 2018-10-08
    2. Impact of doping on the density of states and the mobility in organic semiconductors
    Open this publication in new window or tab >>Impact of doping on the density of states and the mobility in organic semiconductors
    2016 (English)In: PHYSICAL REVIEW B, ISSN 2469-9950, Vol. 93, no 23, p. 235203-Article in journal (Refereed) Published
    Abstract [en]

    We experimentally investigated conductivity and mobility of poly(3-hexylthiophene) (P3HT) doped with tetrafluorotetracyanoquinodimethane (F(4)TCNQ) for various relative doping concentrations ranging from ultralow (10(-5)) to high (10(-1)) and various active layer thicknesses. Although the measured conductivity monotonously increases with increasing doping concentration, the mobilities decrease, in agreement with previously published work. Additionally, we developed a simple yet quantitative model to rationalize the results on basis of a modification of the density of states (DOS) by the Coulomb potentials of ionized dopants. The DOS was integrated in a three-dimensional (3D) hopping formalism in which parameters such as energetic disorder, intersite distance, energy level difference, and temperature were varied. We compared predictions of our model as well as those of a previously developed model to kinetic Monte Carlo (MC) modeling and found that only the former model accurately reproduces the mobility of MC modeling in a large part of the parameter space. Importantly, both our model and MC simulations are in good agreement with experiments; the crucial ingredient to both is the formation of a deep trap tail in the Gaussian DOS with increasing doping concentration.

    Place, publisher, year, edition, pages
    AMER PHYSICAL SOC, 2016
    National Category
    Other Physics Topics
    Identifiers
    urn:nbn:se:liu:diva-130276 (URN)10.1103/PhysRevB.93.235203 (DOI)000378813800009 ()
    Note

    Funding Agencies|Chinese Scholarship Council (CSC)

    Available from: 2016-08-01 Created: 2016-07-28 Last updated: 2018-08-29
    3. Range and energetics of charge hopping in organic semiconductors
    Open this publication in new window or tab >>Range and energetics of charge hopping in organic semiconductors
    2017 (English)In: Physical Review B, ISSN 2469-9950, E-ISSN 2469-9969, Vol. 96, no 24, article id 241202Article in journal (Refereed) Published
    Abstract [en]

    The recent upswing in attention for the thermoelectric properties of organic semiconductors (OSCs) adds urgency to the need for a quantitative description of the range and energetics of hopping transport in organic semiconductors under relevant circumstances, i.e., around room temperature (RT). In particular, the degree to which hops beyond the nearest neighbor must be accounted for at RT is still largely unknown. Here, measurements of charge and energy transport in doped OSCs are combined with analytical modeling to reach the univocal conclusion that variable-range hopping is the proper description in a large class of disordered OSC at RT. To obtain quantitative agreement with experiment, one needs to account for the modification of the density of states by ionized dopants. These Coulomb interactions give rise to a deep tail of trap states that is independent of the materials initial energetic disorder. Insertion of this effect into a classical Mott-type variable-range hopping model allows one to give a quantitative description of temperature-dependent conductivity and thermopower measurements on a wide range of disordered OSCs. In particular, the model explains the commonly observed quasiuniversal power-law relation between the Seebeck coefficient and the conductivity.

    Place, publisher, year, edition, pages
    AMER PHYSICAL SOC, 2017
    National Category
    Condensed Matter Physics
    Identifiers
    urn:nbn:se:liu:diva-144143 (URN)10.1103/PhysRevB.96.241202 (DOI)000418616700001 ()
    Note

    Funding Agencies|Chinese Scholarship Council (CSC); Knut och Alice Wallenberg stiftelse

    Available from: 2018-01-10 Created: 2018-01-10 Last updated: 2018-08-29
    4. Investigation of the dimensionality of charge transport in organic field effect transistors
    Open this publication in new window or tab >>Investigation of the dimensionality of charge transport in organic field effect transistors
    2017 (English)In: Physical Review B, ISSN 2469-9950, E-ISSN 2469-9969, Vol. 95, no 8, article id 85301Article in journal (Refereed) Published
    Abstract [en]

    Ever since the first experimental investigations of organic field effect transistors (OFETs) the dimensionality of charge transport has alternately been described as two dimensional (2D) and three dimensional (3D). More recently, researchers have turned to an analytical analysis of the temperature-dependent transfer characteristics to classify the dimensionality as either 2D or 3D as well as to determine the disorder of the system, thereby greatly simplifying dimensionality investigations. We applied said analytical analysis to the experimental results of our OFETs comprising molecularly well-defined polymeric layers as the active material as well as to results obtained from kinetic Monte Carlo simulations and found that it was not able to correctly distinguish between 2D and 3D transports or give meaningful values for the disorder and should only be used for quasiquantitative and comparative analysis. We conclude to show that the dimensionality of charge transport in OFETs is a function of the interplay between transistor physics and morphology of the organic material.

    Place, publisher, year, edition, pages
    AMER PHYSICAL SOC, 2017
    National Category
    Condensed Matter Physics
    Identifiers
    urn:nbn:se:liu:diva-138929 (URN)10.1103/PhysRevB.95.085301 (DOI)000402194500006 ()
    Note

    Funding Agencies|Knut och Alice Wallenbergs stiftelse; Advanced Functional Materials Center at Linkoping University [2009-00971]; VINNOVA [2015-04859]

    Available from: 2017-06-27 Created: 2017-06-27 Last updated: 2018-03-14
  • 24.
    Abdalla, Hassan
    et al.
    Linköping University, Department of Physics, Chemistry and Biology, Complex Materials and Devices. Linköping University, Faculty of Science & Engineering.
    Fabiano, Simone
    Linköping University, Department of Science and Technology, Physics and Electronics. Linköping University, Faculty of Science & Engineering.
    Kemerink, Martijn
    Linköping University, Department of Physics, Chemistry and Biology, Complex Materials and Devices. Linköping University, Faculty of Science & Engineering.
    Investigation of the dimensionality of charge transport in organic field effect transistors2017In: Physical Review B, ISSN 2469-9950, E-ISSN 2469-9969, Vol. 95, no 8, article id 85301Article in journal (Refereed)
    Abstract [en]

    Ever since the first experimental investigations of organic field effect transistors (OFETs) the dimensionality of charge transport has alternately been described as two dimensional (2D) and three dimensional (3D). More recently, researchers have turned to an analytical analysis of the temperature-dependent transfer characteristics to classify the dimensionality as either 2D or 3D as well as to determine the disorder of the system, thereby greatly simplifying dimensionality investigations. We applied said analytical analysis to the experimental results of our OFETs comprising molecularly well-defined polymeric layers as the active material as well as to results obtained from kinetic Monte Carlo simulations and found that it was not able to correctly distinguish between 2D and 3D transports or give meaningful values for the disorder and should only be used for quasiquantitative and comparative analysis. We conclude to show that the dimensionality of charge transport in OFETs is a function of the interplay between transistor physics and morphology of the organic material.

  • 25.
    Abdalla, Hassan
    et al.
    Linköping University, Department of Physics, Chemistry and Biology, Complex Materials and Devices. Linköping University, Faculty of Science & Engineering.
    van de Ruit, Kevin
    Eindhoven University of Technology, Netherlands.
    Kemerink, Martijn
    Linköping University, Department of Physics, Chemistry and Biology, Complex Materials and Devices. Linköping University, Faculty of Science & Engineering. Eindhoven University of Technology, Netherlands.
    Effective Temperature and Universal Conductivity Scaling in Organic Semiconductors2015In: Scientific Reports, ISSN 2045-2322, E-ISSN 2045-2322, Vol. 5, article id 16870Article in journal (Refereed)
    Abstract [en]

    We investigate the scalability of the temperature-and electric field-dependence of the conductivity of disordered organic semiconductors to universal curves by two different but commonly employed methods; by so-called universal scaling and by using the effective temperature concept. Experimentally both scaling methods were found to be equally applicable to the out-of-plane charge transport in PEDOT: PSS thin films of various compositions. Both methods are shown to be equivalent in terms of functional dependence and to have identical limiting behavior. The experimentally observed scaling behavior can be reproduced by a numerical nearest-neighbor hopping model, accounting for the Coulomb interaction, the high charge carrier concentration and the energetic disorder. The underlying physics can be captured in a simple empirical model, describing the effective temperature of the charge carrier distribution as the outcome of a heat balance between Joule heating and (effective) temperature-dependent energy loss to the lattice.

  • 26.
    Abdalla, Hassan
    et al.
    Linköping University, Department of Physics, Chemistry and Biology, Complex Materials and Devices. Linköping University, Faculty of Science & Engineering.
    Zuo, Guangzheng
    Linköping University, Department of Physics, Chemistry and Biology, Complex Materials and Devices. Linköping University, Faculty of Science & Engineering.
    Kemerink, Martijn
    Linköping University, Department of Physics, Chemistry and Biology, Complex Materials and Devices. Linköping University, Faculty of Science & Engineering.
    Range and energetics of charge hopping in organic semiconductors2017In: Physical Review B, ISSN 2469-9950, E-ISSN 2469-9969, Vol. 96, no 24, article id 241202Article in journal (Refereed)
    Abstract [en]

    The recent upswing in attention for the thermoelectric properties of organic semiconductors (OSCs) adds urgency to the need for a quantitative description of the range and energetics of hopping transport in organic semiconductors under relevant circumstances, i.e., around room temperature (RT). In particular, the degree to which hops beyond the nearest neighbor must be accounted for at RT is still largely unknown. Here, measurements of charge and energy transport in doped OSCs are combined with analytical modeling to reach the univocal conclusion that variable-range hopping is the proper description in a large class of disordered OSC at RT. To obtain quantitative agreement with experiment, one needs to account for the modification of the density of states by ionized dopants. These Coulomb interactions give rise to a deep tail of trap states that is independent of the materials initial energetic disorder. Insertion of this effect into a classical Mott-type variable-range hopping model allows one to give a quantitative description of temperature-dependent conductivity and thermopower measurements on a wide range of disordered OSCs. In particular, the model explains the commonly observed quasiuniversal power-law relation between the Seebeck coefficient and the conductivity.

  • 27.
    Abdallah, Nancy
    et al.
    Linköping University, Department of Mathematics, Mathematics and Applied Mathematics. Linköping University, Faculty of Science & Engineering.
    Hultman, Axel
    Linköping University, Department of Mathematics, Mathematics and Applied Mathematics. Linköping University, Faculty of Science & Engineering.
    Combinatorial invariance of Kazhdan-Lusztig-Vogan polynomials for fixed point free involutions2018In: Journal of Algebraic Combinatorics, ISSN 0925-9899, E-ISSN 1572-9192, Vol. 47, no 4, p. 543-560Article in journal (Refereed)
    Abstract [en]

    When acts on the flag variety of , the orbits are in bijection with fixed point free involutions in the symmetric group . In this case, the associated Kazhdan-Lusztig-Vogan polynomials can be indexed by pairs of fixed point free involutions , where denotes the Bruhat order on . We prove that these polynomials are combinatorial invariants in the sense that if is a poset isomorphism of upper intervals in the Bruhat order on fixed point free involutions, then for all v amp;gt;= u.

  • 28.
    Abdelfattah, Ahmed
    et al.
    Univ Mediterranea Reggio Calabria, Italy.
    Malacrinò, Antonino
    Linköping University, Department of Physics, Chemistry and Biology, Biology. Linköping University, Faculty of Science & Engineering.
    Wisniewski, Michael
    USDA ARS, WV 25430 USA.
    Cacciola, Santa O.
    Univ Catania, Italy.
    Schena, Leonardo
    Univ Mediterranea Reggio Calabria, Italy.
    Metabarcoding: A powerful tool to investigate microbial communities and shape future plant protection strategies2018In: Biological control (Print), ISSN 1049-9644, E-ISSN 1090-2112, Vol. 120Article in journal (Refereed)
    Abstract [en]

    Microorganisms are the main drivers shaping the functioning and equilibrium of all ecosystems, contributing to nutrient cycling, primary production, litter decomposition, and multi-trophic interactions. Knowledge about the microbial assemblies in specific ecological niches is integral to understanding the assemblages interact and function the function, and becomes essential when the microbiota intersects with human activities, such as protecting crops against pests and diseases. Metabarcoding has proven to be a valuable tool and has been widely used for characterizing the microbial diversity of different environments and has been utilized in many research endeavors. Here we summarize the current status of metabarcoding technologies, the advantages and challenges in utilizing this technique, and how this pioneer approach is being applied to studying plant diseases and pests, with a focus on plant protection and biological control. Current and future developments in this technology will foster a more comprehensive understanding of microbial ecology, and the development of new, innovative pest control strategies.

  • 29.
    Abdollahi Sani, Negar
    et al.
    Linköping University, Department of Science and Technology, Physics and Electronics. Linköping University, The Institute of Technology.
    Robertsson, Mats
    Linköping University, Department of Science and Technology. Linköping University, The Institute of Technology.
    Cooper, Philip
    De La Rue Plc, Overton, Hampshire, UK .
    Wang, Xin
    Acreo AB, Norrköping, Sweden.
    Svensson, Magnus
    Acreo AB, Norrköping, Sweden.
    Andersson Ersman, Peter
    Acreo AB, Norrköping, Sweden.
    Norberg, Petronella
    Acreo AB, Norrköping, Sweden.
    Nilsson, Marie
    Acreo AB, Norrköping, Sweden.
    Nilsson, David
    Acreo AB, Norrköping, Sweden.
    Liu, Xianjie
    Linköping University, Department of Physics, Chemistry and Biology, Surface Physics and Chemistry. Linköping University, The Institute of Technology.
    Hesselbom, Hjalmar
    Hesselbom Innovation and Development HB, Huddinge, Sweden .
    Akesso, Laurent
    De La Rue Plc, Overton, Hampshire, UK .
    Fahlman, Mats
    Linköping University, Department of Physics, Chemistry and Biology, Surface Physics and Chemistry. Linköping University, The Institute of Technology.
    Crispin, Xavier
    Linköping University, Department of Science and Technology, Physics and Electronics. Linköping University, The Institute of Technology.
    Engquist, Isak
    Linköping University, Department of Science and Technology, Physics and Electronics. Linköping University, The Institute of Technology.
    Berggren, Magnus
    Linköping University, Department of Science and Technology, Physics and Electronics. Linköping University, The Institute of Technology. Acreo AB, Norrköping, Sweden.
    Gustafsson, Goran
    Acreo AB, Norrköping, Sweden.
    All-printed diode operating at 1.6 GHz2014In: Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, E-ISSN 1091-6490, Vol. 111, no 33, p. 11943-11948Article in journal (Refereed)
    Abstract [en]

    Printed electronics are considered for wireless electronic tags and sensors within the future Internet-of-things (IoT) concept. As a consequence of the low charge carrier mobility of present printable organic and inorganic semiconductors, the operational frequency of printed rectifiers is not high enough to enable direct communication and powering between mobile phones and printed e-tags. Here, we report an all-printed diode operating up to 1.6 GHz. The device, based on two stacked layers of Si and NbSi2 particles, is manufactured on a flexible substrate at low temperature and in ambient atmosphere. The high charge carrier mobility of the Si microparticles allows device operation to occur in the charge injection-limited regime. The asymmetry of the oxide layers in the resulting device stack leads to rectification of tunneling current. Printed diodes were combined with antennas and electrochromic displays to form an all-printed e-tag. The harvested signal from a Global System for Mobile Communications mobile phone was used to update the display. Our findings demonstrate a new communication pathway for printed electronics within IoT applications.

  • 30.
    Abdolmajid Ahmad, Bookan
    Linköping University, Department of Computer and Information Science. Linköping University, The Institute of Technology.
    Programmering av generativ konst i C# .Net2014Independent thesis Basic level (degree of Bachelor), 180 HE creditsStudent thesis
    Abstract [sv]

    Detta examensarbete utfördes på IDA (Institutionen för datavetenskap) vid Linköpings universitet. 

    Syftet med det här examensarbetet var att utveckla ett program som skulle skapa förutsättningar för generativ konst med hjälp av MyPaint som är ett digitalt rit/målarverktyg. Metoden gick ut på att registrera vad användaren skapat för komponenter, dvs. musinteraktioner och kortkommandon, och därefter använda dem algoritmiskt.

    Examensarbetet resulterades i ett program (SharpArt), som fångar musinteraktioner samt simulerar tangentbordstryckningar (kortkommandon) från och till Mypaint, vilket i sin tur skapar komponenter som används algoritmiskt. Programmet kan även positionera objektet på canvasen enligt det önskade koordinatvärdet.

  • 31.
    Abdulahad, Bassam
    et al.
    Linköping University, Department of Computer and Information Science.
    Lounis, Georgios
    Linköping University, Department of Computer and Information Science.
    A user interface for the ontology merging tool SAMBO2004Independent thesis Basic level (professional degree)Student thesis
    Abstract [en]

    Ontologies have become an important tool for representing data in a structured manner. Merging ontologies allows for the creation of ontologies that later can be composed into larger ontologies as well as for recognizing patterns and similarities between ontologies. Ontologies are being used nowadays in many areas, including bioinformatics. In this thesis, we present a desktop version of SAMBO, a system for merging ontologies that are represented in the languages OWL and DAML+OIL. The system has been developed in the programming language JAVA with JDK (Java Development Kit) 1.4.2. The user can open a file locally or from the network and can merge ontologies using suggestions generated by the SAMBO algorithm. SAMBO provides a user-friendly graphical interface, which guides the user through the merging process.

  • 32.
    Abdulla, Ariyan
    et al.
    Linköping University, Department of Mathematics, Optimization . Linköping University, Faculty of Science & Engineering.
    Andersson, Erik
    Linköping University, Department of Mathematics, Optimization . Linköping University, Faculty of Science & Engineering.
    Heuristiska algoritmer för schemaläggning i real-tidssystem med hänsyn till data beroenden2018Independent thesis Basic level (degree of Bachelor), 10,5 credits / 16 HE creditsStudent thesis
    Abstract [en]

    The schedule for the jobs in a real-time system can have a huge impact on how the system behave. Since real-time systems are common in safety applications it is important that the scheduling is done in a valid way. Furthermore, one can enhance the performance of the applications by minimizing data latency and jitter. A challenge is that jobs in real-time systems usually have complex constraints making it too time consuming to minimize data latency and jitter to optimality. The purpose of this report is to investigate the possibility of creating high quality schedules using heuristics, with the goal to keep the computational time under one minute. This will be done by comparing three different algorithms that will be used on real scheduling instances provided by the company Arcticus. The first algorithm is a greedy heuristic, the second one a local search and the third one is a metaheuristic, simulated annealing. The results indicate that the data latency can be reduced whilst keeping the computational time below one minute.

  • 33.
    Abdulla, Parosh Aziz
    et al.
    Department of Information Technology, Uppsala University, Sweden.
    Atig, Mohamed Faouzi
    Department of Information Technology, Uppsala University, Sweden.
    Chen, Yu-Fang
    Institute of Information Science, Academia Sinica, Taiwan.
    Holik, Lukas
    Faculty of Information Technology, Brno University of Technology, Czech Republic.
    Rezine, Ahmed
    Linköping University, Department of Computer and Information Science, Software and Systems. Linköping University, The Institute of Technology.
    Rümmer, Philipp
    Department of Information Technology, Uppsala University, Sweden.
    Stenman, Jari
    Department of Information Technology, Uppsala University, Sweden.
    String Constraints for Verification2014In: 26th International Conference on Computer Aided Verification (CAV 2014), Vienna, Austria, Jul. 9-12, 2014., Berlin: Springer, 2014, p. 150-166Conference paper (Refereed)
    Abstract [en]

    We present a decision procedure for a logic that combines (i) word equations over string variables denoting words of arbitrary lengths, together with (ii) constraints on the length of words, and on (iii) the regular languages to which words belong. Decidability of this general logic is still open. Our procedure is sound for the general logic, and a decision procedure for a particularly rich fragment that restricts the form in which word equations are written. In contrast to many existing procedures, our method does not make assumptions about the maximum length of words. We have developed a prototypical implementation of our decision procedure, and integrated it into a CEGAR-based model checker for the analysis of programs encoded as Horn clauses. Our tool is able to automatically establish the correctness of several programs that are beyond the reach of existing methods.

  • 34.
    Abdulla, Parosh Aziz
    et al.
    Uppsala University, Sweden.
    Atig, Mohamed Faouzi
    Uppsala University, Sweden.
    Chen, Yu-Fang
    Academia Sinica, Taiwan.
    Leonardsson, Carl
    Uppsala University, Sweden.
    Rezine, Ahmed
    Linköping University, Department of Computer and Information Science, Software and Systems. Linköping University, The Institute of Technology.
    Automatic fence insertion in integer programs via predicate abstraction2012In: Static Analysis: 19th International Symposium, SAS 2012, Deauville, France, September 11-13, 2012. Proceedings / [ed] Antoine Miné, David Schmidt, Springer Berlin/Heidelberg, 2012, p. 164-180Conference paper (Refereed)
    Abstract [en]

    We propose an automatic fence insertion and verification framework for concurrent programs running under relaxed memory. Unlike previous approaches to this problem, which allow only variables of finite domain, we target programs with (unbounded) integer variables. The problem is difficult because it has two different sources of infiniteness: unbounded store buffers and unbounded integer variables. Our framework consists of three main components: (1) a finite abstraction technique for the store buffers, (2) a finite abstraction technique for the integer variables, and (3) a counterexample guided abstraction refinement loop of the model obtained from the combination of the two abstraction techniques. We have implemented a prototype based on the framework and run it successfully on all standard benchmarks together with several challenging examples that are beyond the applicability of existing methods.

  • 35.
    Abdulla, Parosh Aziz
    et al.
    Uppsala University, Sweden.
    Atig, Mohamed Faouzi
    Uppsala University, Sweden.
    Chen, Yu-Fang
    Academia Sinica, Taiwan.
    Leonardsson, Carl
    Uppsala University, Sweden.
    Rezine, Ahmed
    Linköping University, Department of Computer and Information Science, ESLAB - Embedded Systems Laboratory. Linköping University, The Institute of Technology.
    Counter-Example Guided Fence Insertion under TSO2012In: TACAS 2012, Berlin, Heidelberg: Springer , 2012Conference paper (Refereed)
    Abstract [en]

    We give a sound and complete fence insertion procedure for concurrentfinite-state programs running under the classical TSO memory model. Thismodel allows “write to read” relaxation corresponding to the addition of an unboundedstore buffer between each processor and the main memory. We introducea novel machine model, called the Single-Buffer (SB) semantics, and show thatthe reachability problem for a program under TSO can be reduced to the reachabilityproblem under SB. We present a simple and effective backward reachabilityanalysis algorithm for the latter, and propose a counter-example guided fence insertionprocedure. The procedure is augmented by a placement constraint thatallows the user to choose places inside the program where fences may be inserted.For a given placement constraint, we automatically infer all minimal setsof fences that ensure correctness. We have implemented a prototype and run itsuccessfully on all standard benchmarks together with several challenging examplesthat are beyond the applicability of existing methods.

  • 36.
    Abdulla, Parosh Aziz
    et al.
    Uppsala University, Sweden.
    Atig, Mohamed Faouzi
    Uppsala University, Sweden.
    Chen, Yu-Fang
    Academia Sinica, Taiwan.
    Leonardsson, Carl
    Uppsala University, Sweden.
    Rezine, Ahmed
    Linköping University, Department of Computer and Information Science, Software and Systems. Linköping University, The Institute of Technology.
    Memorax, a Precise and Sound Tool for Automatic Fence Insertion under TSO2013In: Tools and Algorithms for the Construction and Analysis of Systems: 19th International Conference, TACAS 2013, Held as Part of the European Joint Conferences on Theory and Practice of Software, ETAPS 2013, Rome, Italy, March 16-24, 2013. Proceedings, Springer Berlin/Heidelberg, 2013, p. 530-536Conference paper (Refereed)
    Abstract [en]

    We introduce MEMORAX, a tool for the verification of control state reachability (i.e., safety properties) of concurrent programs manipulating finite range and integer variables and running on top of weak memory models. The verification task is non-trivial as it involves exploring state spaces of arbitrary or even infinite sizes. Even for programs that only manipulate finite range variables, the sizes of the store buffers could grow unboundedly, and hence the state spaces that need to be explored could be of infinite size. In addition, MEMORAX in- corporates an interpolation based CEGAR loop to make possible the verification of control state reachability for concurrent programs involving integer variables. The reachability procedure is used to automatically compute possible memory fence placements that guarantee the unreachability of bad control states under TSO. In fact, for programs only involving finite range variables and running on TSO, the fence insertion functionality is complete, i.e., it will find all minimal sets of memory fence placements (minimal in the sense that removing any fence would result in the reachability of the bad control states). This makes MEMORAX the first freely available, open source, push-button verification and fence insertion tool for programs running under TSO with integer variables.

  • 37.
    Abdulla, Parosh Aziz
    et al.
    Uppsala University.
    Atig, Mohammed Faouzi
    Uppsala University.
    Ganjei, Zeinab
    Linköping University, Department of Computer and Information Science, Software and Systems. Linköping University, Faculty of Science & Engineering.
    Rezine, Ahmed
    Linköping University, Department of Computer and Information Science, Software and Systems. Linköping University, The Institute of Technology.
    Zhu, Yunyun
    Uppsala University.
    Verification of Cache Coherence Protocols wrt. Trace Filters2015Conference paper (Refereed)
    Abstract [en]

    We address the problem of parameterized verification of cache coherence protocols for hardware accelerated transactional memories. In this setting, transactional memories leverage on the versioning capabilities of the underlying cache coherence protocol. The length of the transactions, their number, and the number of manipulated variables (i.e., cache lines) are parameters of the verification problem. Caches in such systems are finite-state automata communicating via broadcasts and shared variables. We augment our system with filters that restrict the set of possible executable traces according to existing conflict resolution policies. We show that the verification of coherence for parameterized cache protocols with filters can be reduced to systems with only a finite number of cache lines. For verification, we show how to account for the effect of the adopted filters in a symbolic backward reachability algorithm based on the framework of constrained monotonic abstraction. We have implemented our method and used it to verify transactional memory coherence protocols with respect to different conflict resolution policies.

  • 38.
    Abdulla, Parosh Aziz
    et al.
    Uppsala University, Sweden.
    Dwarkadas, Sandhya
    University of Rochester, U.S.A..
    Rezine, Ahmed
    Linköping University, Department of Computer and Information Science, Software and Systems. Linköping University, The Institute of Technology.
    Shriraman, Arrvindh
    Simon Fraser University, Canada.
    Zhu, Yunyun
    Uppsala University, Sweden.
    Verifying Safety and Liveness for the FlexTM Hybrid Transactional Memory2013In: Design, Automation & Test in Europe (DATE 2013), Grenoble, France, March 18-22, 2013., IEEE , 2013, p. 785-790Conference paper (Refereed)
    Abstract [en]

    We consider the verification of safety (strict se- rializability and abort consistency) and liveness (obstruction and livelock freedom) for the hybrid transactional memory framework FLEXTM. This framework allows for flexible imple- mentations of transactional memories based on an adaptation of the MESI coherence protocol. FLEXTM allows for both eager and lazy conflict resolution strategies. Like in the case of Software Transactional Memories, the verification problem is not trivial as the number of concurrent transactions, their size, and the number of accessed shared variables cannot be a priori bounded. This complexity is exacerbated by aspects that are specific to hardware and hybrid transactional memories. Our work takes into account intricate behaviours such as cache line based conflict detection, false sharing, invisible reads or non-transactional instructions. We carry out the first automatic verification of a hybrid transactional memory and establish, by adopting a small model approach, challenging properties such as strict serializability, abort consistency, and obstruction freedom for both an eager and a lazy conflict resolution strategies. We also detect an example that refutes livelock freedom. To achieve this, our prototype tool makes use the latest antichain based techniques to handle systems with tens of thousands of states.

  • 39.
    Abdulla, Parosh Aziz
    et al.
    Uppsala University.
    Haziza, Frédéric
    Uppsala University.
    Holik, Lukas
    Brno University of Technology, Czech Republic.
    Jonsson, Bengt
    Uppsala University.
    Rezine, Ahmed
    Linköping University, Department of Computer and Information Science, Software and Systems. Linköping University, The Institute of Technology.
    An Integrated Specification and Verification Technique for Highly Concurrent Data Structures2013In: The 19th International Conference on Tools and Algorithms for the Construction and Analysis of Systems (TACAS 2013), Rome, Italy, March 16-24, 2013. / [ed] Piterman, Nir, Smolka, Scott, 2013Conference paper (Refereed)
    Abstract [en]

    We present a technique for automatically verifying safety properties of concurrent programs, in particular programs which rely on subtle dependencies of local states of different threads, such as lock-free implementations of stacks and queues in an environment without garbage collection. Our technique addresses the joint challenges of infinite-state specifications, an unbounded number of threads, and an unbounded heap managed by explicit memory allocation. Our technique builds on the automata-theoretic approach to model checking, in which a specification is given by an automaton that observes the execution of a program and accepts executions that violate the intended specification.We extend this approach by allowing specifications to be given by a class of infinite-state automata. We show how such automata can be used to specify queues, stacks, and other data structures, by extending a data-independence argument. For verification, we develop a shape analysis, which tracks correlations between pairs of threads, and a novel abstraction to make the analysis practical. We have implemented our method and used it to verify programs, some of which have not been verified by any other automatic method before.

  • 40.
    Abdullah Jan, Mirza
    et al.
    Linköping University, Department of Electrical Engineering.
    Ahsan, Mahmododfateh
    Linköping University, Department of Electrical Engineering.
    Multi-View Video Transmission over the Internet2010Independent thesis Advanced level (degree of Master (Two Years)), 30 credits / 45 HE creditsStudent thesis
    Abstract [en]

    3D television using multiple views rendering is receiving increasing interest. In this technology a number of video sequences are transmitted simultaneously and provides a larger view of the scene or stereoscopic viewing experience. With two views stereoscopic rendition is possible. Nowadays 3D displays are available that are capable of displaying several views simultaneously and the user is able to see different views by moving his head.

    The thesis work aims at implementing a demonstration system with a number of simultaneous views. The system will include two cameras, computers at both the transmitting and receiving end and a multi-view display. Besides setting up the hardware, the main task is to implement software so that the transmission can be done over an IP-network.

    This thesis report includes an overview and experiences of similar published systems, the implementation of real time video, its compression, encoding, and transmission over the internet with the help of socket programming and finally the multi-view display in 3D format.  This report also describes the design considerations more precisely regarding the video coding and network protocols.

  • 41.
    Abellán, C.
    et al.
    ICFO - Institut de Ciencies Fotoniques, The Barcelona Institute of Science and Technology, Barcelona, Spain.
    Acín, A.
    ICFO - Institut de Ciencies Fotoniques, The Barcelona Institute of Science and Technology, Barcelona, Spain / ICREA - Institució Catalana de Recerca i Estudis Avançats, Barcelona, Spain.
    Alarcón, A.
    Millennium Institute for Research in Optics, Universidad de Concepción, Universidad de Concepción, Concepción, Chile / Departamento de Ingeniería Eléctrica, Universidad de Concepción, Concepción, Chile.
    Alibart, O.
    Université Côte d’Azur, CNRS UMR 7010, Institut de Physique de Nice (INPHYNI), Nice, France.
    Andersen, C. K.
    Department of Physics, ETH Zurich,, Zurich, Switzerland.
    Andreoli, F.
    Dipartimento di Fisica, Sapienza Università di Roma, Rome, Italy.
    Beckert, A.
    Department of Physics, ETH Zurich,, Zurich, Switzerland.
    Beduini, F. A.
    ICFO - Institut de Ciencies Fotoniques, The Barcelona Institute of Science and Technology, Barcelona, Spain.
    Bendersky, A.
    Departamento de Computación, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires and Instituto de Investigación en Ciencias de la Comunicación (ICC), CONICET, Buenos Aires, Argentina.
    Bentivegna, M.
    Dipartimento di Fisica, Sapienza Università di Roma, Rome, Italy.
    Bierhorst, P.
    National Institute of Standards and Technology, Boulder, CO, USA.
    Burchardt, D.
    Ludwig-Maximilians-Universität, Munich, Germany.
    Cabello, A.
    Departamento de Física Aplicada II, Universidad de Sevilla, Seville, Spain.
    Cariñe, J.
    Millennium Institute for Research in Optics, Universidad de Concepción, Universidad de Concepción, Concepción, Chile.
    Carrasco, S.
    ICFO - Institut de Ciencies Fotoniques, The Barcelona Institute of Science and Technology, Barcelona, Spain.
    Carvacho, G.
    Dipartimento di Fisica, Sapienza Università di Roma, Rome, Italy.
    Cavalcanti, D.
    Chaves, R.
    Cortés-Vega, J.
    Cuevas, A.
    Delgado, A.
    de Riedmatten, H.
    Eichler, C.
    Farrera, P.
    Fuenzalida, J.
    García-Matos, M.
    Garthoff, R.
    Gasparinetti, S.
    Gerrits, T.
    Ghafari Jouneghani, F.
    Glancy, S.
    Gómez, E. S.
    González, P.
    Guan, J. -Y.
    Handsteiner, J.
    Heinsoo, J.
    Heintze, G.
    Hirschmann, A.
    Jiménez, O.
    Kaiser, F.
    Knill, E.
    Knoll, L. T.
    Krinner, S.
    Kurpiers, P.
    Larotonda, M. A.
    Larsson, Jan-Åke
    Linköping University, Department of Electrical Engineering, Information Coding. Linköping University, Faculty of Science & Engineering.
    Lenhard, A.
    Li, H.
    Li, M. -H.
    Lima, G.
    Liu, B.
    Liu, Y.
    López Grande, I. H.
    Lunghi, T.
    Ma, X.
    Magaña-Loaiza, O. S.
    Magnard, P.
    Magnoni, A.
    Martí­-Prieto, M.
    Martínez, D.
    Mataloni, P.
    Mattar, A.
    Mazzera, M.
    Mirin, R. P.
    Mitchell, M. W.
    Nam, S.
    Oppliger, M.
    Pan, J. -W.
    Patel, R. B.
    Pryde, G. J.
    Rauch, D.
    Redeker, K.
    Rieländer, D.
    Ringbauer, M.
    Roberson, T.
    Rosenfeld, W.
    Salathé, Y.
    Santodonato, L.
    Sauder, G.
    Scheidl, T.
    Schmiegelow, C. T.
    Sciarrino, F.
    Seri, A.
    Shalm, L. K.
    Shi, S. -C
    Slussarenko, S.
    Stevens, M. J.
    Tanzilli, S.
    Toledo, F.
    Tura, J.
    Ursin, R.
    Vergyris, P.
    Verma, V. B.
    Walter, T.
    Wallraff, A.
    Wang, Z.
    Weinfurter, H.
    Weston, M. M.
    White, A. G.
    Wu, C.
    Xavier, Guilherme B.
    Linköping University, Department of Electrical Engineering, Information Coding. Linköping University, Faculty of Science & Engineering.
    You, L.
    Yuan, X.
    Zeilinger, A.
    Zhang, Q.
    Zhang, W.
    Zhong, J.
    Challenging Local Realism with Human Choices2018In: Nature, ISSN 0028-0836, E-ISSN 1476-4687, Vol. 557, p. 212-216Article in journal (Refereed)
    Abstract [en]

    A Bell test is a randomized trial that compares experimental observations against the philosophical worldview of local realism , in which the properties of the physical world are independent of our observation of them and no signal travels faster than light. A Bell test requires spatially distributed entanglement, fast and high-efficiency detection and unpredictable measurement settings. Although technology can satisfy the first two of these requirements, the use of physical devices to choose settings in a Bell test involves making assumptions about the physics that one aims to test. Bell himself noted this weakness in using physical setting choices and argued that human ‘free will’ could be used rigorously to ensure unpredictability in Bell tests. Here we report a set of local-realism tests using human choices, which avoids assumptions about predictability in physics. We recruited about 100,000 human participants to play an online video game that incentivizes fast, sustained input of unpredictable selections and illustrates Bell-test methodology. The participants generated 97,347,490 binary choices, which were directed via a scalable web platform to 12 laboratories on five continents, where 13 experiments tested local realism using photons, single atoms, atomic ensembles and superconducting devices. Over a 12-hour period on 30 November 2016, participants worldwide provided a sustained data flow of over 1,000 bits per second to the experiments, which used different human-generated data to choose each measurement setting. The observed correlations strongly contradict local realism and other realistic positions in bi-partite and tri-partite 12 scenarios. Project outcomes include closing the ‘freedom-of-choice loophole’ (the possibility that the setting choices are influenced by ‘hidden variables’ to correlate with the particle properties), the utilization of video-game methods for rapid collection of human-generated randomness, and the use of networking techniques for global participation in experimental science.

  • 42.
    Abidin, Aysajan
    Linköping University, Department of Mathematics, Applied Mathematics. Linköping University, The Institute of Technology.
    Weaknesses of Authentication in Quantum Cryptography and Strongly Universal Hash Functions2010Licentiate thesis, comprehensive summary (Other academic)
    Abstract [en]

    Authentication is an indispensable part of Quantum Cryptography, which is an unconditionally secure key distribution technique based on the laws of nature. Without proper authentication, Quantum Cryptography is vulnerable to “man-in-the-middle” attacks. Therefore, to guarantee unconditional security of any Quantum Cryptographic protocols, the authentication used must also be unconditionally secure. The standard in Quantum Cryptography is to use theWegman-Carter authentication, which is unconditionally secure and is based on the idea of universal hashing.

    In this thesis, we first investigate properties of a Strongly Universal hash function family to facilitate understanding the properties of (classical) authentication used in Quantum Cryptography. Then, we study vulnerabilities of a recently proposed authentication protocol intended to rule out a "man-in-the-middle" attack on Quantum Cryptography. Here, we point out that the proposed authentication primitive is not secure when used in a generic Quantum Cryptographic protocol. Lastly, we estimate the lifetime of authentication using encrypted tags when the encryption key is partially known. Under simplifying assumptions, we derive that the lifetime is linearly dependent on the length of the authentication key. Experimental results that support the theoretical results are also presented.

    List of papers
    1. Special Properties of Strongly Universal2 Hash Functions Important in Quantum Cryptography
    Open this publication in new window or tab >>Special Properties of Strongly Universal2 Hash Functions Important in Quantum Cryptography
    2009 (English)In: AIP Conference Proceedings, ISSN 0094-243X, Foundations of Probability and Physics—5, Växjö, augusti 2008, New York: American Institute of Physics , 2009, Vol. 1101, p. 289-293Conference paper, Published paper (Refereed)
    Abstract [en]

    Secure message authentication is an important part of Quantum Key Distribution. In this paper we analyze special properties of a Strongly Universal2 hash function family, an understanding of which is important in the security analysis of the authentication used in Quantum Cryptography. We answer the following question: How much of Alices message does Eve need to influence so that the message along with its tag will give her enough information to create the correct tag for her message?

    Place, publisher, year, edition, pages
    New York: American Institute of Physics, 2009
    Keywords
    Quantum cryptography, Quantum theory, Probability
    National Category
    Mathematics
    Identifiers
    urn:nbn:se:liu:diva-18738 (URN)10.1063/1.3109951 (DOI)
    Conference
    Foundations of Probability and Physics—5, Växjö, augusti 2008
    Projects
    ICG QC
    Available from: 2009-06-03 Created: 2009-06-03 Last updated: 2016-08-31
    2. Vulnerability of "A Novel Protocol-Authentication Algorithm Ruling out a Man-in-the-Middle Attack in Quantum Cryptography"
    Open this publication in new window or tab >>Vulnerability of "A Novel Protocol-Authentication Algorithm Ruling out a Man-in-the-Middle Attack in Quantum Cryptography"
    2009 (English)In: International Journal of Quantum Information, ISSN 0219-7499, Vol. 7, no 5, p. 1047-1052Article in journal (Refereed) Published
    Abstract [en]

    In this paper, we review and comment on "A novel protocol-authentication algorithm ruling out a man-in-the-middle attack in quantum cryptography" [M. Peev et al., Int. J. Quant. Inf. 3 (2005) 225]. In particular, we point out that the proposed primitive is not secure when used in a generic protocol, and needs additional authenticating properties of the surrounding quantum-cryptographic protocol.

    Keywords
    Quantum cryptography, quantum key distribution, authentication
    National Category
    Natural Sciences
    Identifiers
    urn:nbn:se:liu:diva-20405 (URN)10.1142/S0219749909005754 (DOI)
    Projects
    ICG QC
    Available from: 2009-09-08 Created: 2009-09-07 Last updated: 2016-08-31Bibliographically approved
    3. Lifetime of Authentication Using Encrypted Tags When the Encryption Key is Partially Known
    Open this publication in new window or tab >>Lifetime of Authentication Using Encrypted Tags When the Encryption Key is Partially Known
    (English)Manuscript (preprint) (Other academic)
    Abstract [en]

    Quantum cryptography is an unconditionally secure key growing technique provided that an unconditionally secure authentication protocol is combined with it. This paper is about the study of the lifetime of a message authentication scheme, where a message to be authenticated is first hashed by a secret–but fixed–Strongly Universal hash function then the output is encrypted with a one-time-pad key to generate a tag for the message. If the onetime-pad is completely secret, then the lifetime is exponential in the tag length. If, however, the one-time-pad key is partially known in each authentication round, as is the case in practical quantum key distribution protocols, then the picture is different; because the adversary’s partial knowledge of the one-time-pad key in each authentication round contributes to his/her ability to identify the secret hash function. We estimate the lifetime of this type of authentication. Here the parameters are the length of the key identifying the secret hash function and the amount of knowledge that Eve has on the one-time-pad. A theoretical estimate is presented, along with experimental results that support it.

    Keywords
    Quantum cryptography, quantum key distribution, authentication, strongly universal hash functions, lifetime
    National Category
    Mathematics
    Identifiers
    urn:nbn:se:liu:diva-57289 (URN)
    Projects
    ICG QC
    Available from: 2010-06-16 Created: 2010-06-16 Last updated: 2016-08-31
  • 43.
    Abidin, Aysajan
    et al.
    Linköping University, Department of Mathematics. Linköping University, The Institute of Technology.
    Larsson, Jan-Åke
    Linköping University, Department of Mathematics, Applied Mathematics. Linköping University, The Institute of Technology.
    Lifetime of Authentication Using Encrypted Tags When the Encryption Key is Partially KnownManuscript (preprint) (Other academic)
    Abstract [en]

    Quantum cryptography is an unconditionally secure key growing technique provided that an unconditionally secure authentication protocol is combined with it. This paper is about the study of the lifetime of a message authentication scheme, where a message to be authenticated is first hashed by a secret–but fixed–Strongly Universal hash function then the output is encrypted with a one-time-pad key to generate a tag for the message. If the onetime-pad is completely secret, then the lifetime is exponential in the tag length. If, however, the one-time-pad key is partially known in each authentication round, as is the case in practical quantum key distribution protocols, then the picture is different; because the adversary’s partial knowledge of the one-time-pad key in each authentication round contributes to his/her ability to identify the secret hash function. We estimate the lifetime of this type of authentication. Here the parameters are the length of the key identifying the secret hash function and the amount of knowledge that Eve has on the one-time-pad. A theoretical estimate is presented, along with experimental results that support it.

  • 44.
    Abidin, Aysajan
    et al.
    Linköping University, Department of Mathematics, Applied Mathematics. Linköping University, The Institute of Technology.
    Larsson, Jan-Åke
    Linköping University, Department of Mathematics, Applied Mathematics. Linköping University, The Institute of Technology.
    Special Properties of Strongly Universal2 Hash Functions Important in Quantum Cryptography2009In: AIP Conference Proceedings, ISSN 0094-243X, Foundations of Probability and Physics—5, Växjö, augusti 2008, New York: American Institute of Physics , 2009, Vol. 1101, p. 289-293Conference paper (Refereed)
    Abstract [en]

    Secure message authentication is an important part of Quantum Key Distribution. In this paper we analyze special properties of a Strongly Universal2 hash function family, an understanding of which is important in the security analysis of the authentication used in Quantum Cryptography. We answer the following question: How much of Alices message does Eve need to influence so that the message along with its tag will give her enough information to create the correct tag for her message?

  • 45.
    Abidin, Aysajan
    et al.
    Linköping University, Department of Mathematics, Applied Mathematics. Linköping University, The Institute of Technology.
    Larsson, Jan-Åke
    Linköping University, Department of Mathematics, Applied Mathematics. Linköping University, The Institute of Technology.
    Vulnerability of "A Novel Protocol-Authentication Algorithm Ruling out a Man-in-the-Middle Attack in Quantum Cryptography"2009In: International Journal of Quantum Information, ISSN 0219-7499, Vol. 7, no 5, p. 1047-1052Article in journal (Refereed)
    Abstract [en]

    In this paper, we review and comment on "A novel protocol-authentication algorithm ruling out a man-in-the-middle attack in quantum cryptography" [M. Peev et al., Int. J. Quant. Inf. 3 (2005) 225]. In particular, we point out that the proposed primitive is not secure when used in a generic protocol, and needs additional authenticating properties of the surrounding quantum-cryptographic protocol.

  • 46.
    Abidin, Aysajan
    et al.
    Linköping University, Department of Electrical Engineering, Information Coding. Linköping University, The Institute of Technology.
    Pacher, Christoph
    Austrian Institute of Technology, Austria.
    Lorünser, Thomas
    Austrian Institute of Technology, Austria.
    Larsson, Jan-Åke
    Linköping University, Department of Electrical Engineering, Information Coding. Linköping University, The Institute of Technology.
    Peev, Momtchil
    Austrian Institute of Technology, Austria.
    Quantum cryptography and authentication with low key-consumption2011In: Proceedings of SPIE - The International Society for Optical Engineering, 2011, p. 818916-Conference paper (Refereed)
    Abstract [en]

    Quantum Key Distribution (QKD - also referred to as Quantum Cryptography) is a technique for secret key agreement. It has been shown that QKD rigged with Information-Theoretic Secure (ITS) authentication (using secret key) of the classical messages transmitted during the key distribution protocol is also ITS. Note, QKD without any authentication can trivially be broken by man-in-the-middle attacks. Here, we study an authentication method that was originally proposed because of its low key consumption; a two-step authentication that uses a publicly known hash function, followed by a secret strongly universal2 hash function, which is exchanged each round. This two-step authentication is not information-theoretically secure but it was argued that nevertheless it does not compromise the security of QKD. In the current contribution we study intrinsic weaknesses of this approach under the common assumption that the QKD adversary has access to unlimited resources including quantum memories. We consider one implementation of Quantum Cryptographic protocols that use such authentication and demonstrate an attack that fully extract the secret key. Even including the final key from the protocol in the authentication does not rule out the possibility of these attacks. To rectify the situation, we propose a countermeasure that, while not informationtheoretically secure, restores the need for very large computing power for the attack to work. Finally, we specify conditions that must be satisfied by the two-step authentication in order to restore informationtheoretic security.

  • 47.
    Abongo, D. A.
    et al.
    University of Nairobi, Kenya.
    Wandiga, S. O.
    University of Nairobi, Kenya.
    Jumba, I. O.
    University of Nairobi, Kenya.
    Van den Brink, P. J.
    University of Wageningen and Research Centre, Netherlands.
    Naziriwo, B. B.
    Makerere University, Uganda.
    Madadi, V. O.
    University of Nairobi, Kenya.
    Wafula, G. A.
    University of Nairobi, Kenya.
    Nkedi-Kizza, P.
    University of Florida, FL USA.
    Kylin, Henrik
    Linköping University, The Tema Institute, Tema Environmental Change. Linköping University, Faculty of Arts and Sciences. North West University, South Africa.
    Occurrence, abundance and distribution of benthic macroinvertebrates in the Nyando River catchment, Kenya2015In: African Journal of Aquatic Science, ISSN 1608-5914, E-ISSN 1727-9364, Vol. 40, no 4, p. 373-392Article in journal (Refereed)
    Abstract [en]

    A baseline study was conducted of the occurrence of macroinvertebrates at 26 sites in the Nyando River catchment in 2005-2006. A total of 13 orders and 16 families of Arthropoda, Mollusca, Platyhelminthes and Annelida were collected, with the order Ephemeroptera being most abundant in the up- and mid-stream reaches, followed by Hemiptera and Plecoptera respectively. The downstream sections of the river were dominated by Hirudinea and tubificids, as the water quality deteriorated mainly due to local land use, raw sewage effluent discharge and annual floods. Insects and annelids were the main invertebrates found and the extent of pollution increased from mid-section (Site 15) downwards as the river flowed into the Winam Gulf. Stringent management measures are required to safeguard the environment and ecosystems of Lake Victoria.

  • 48.
    Abong'o, Deborah
    et al.
    University of Nairobi, Kenya.
    Wandiga, Shem
    University of Nairobi, Kenya.
    Jumba, Isaac
    University of Nairobi, Kenya.
    Madadi, Vincent
    University of Nairobi, Kenya.
    Kylin, Henrik
    Linköping University, The Tema Institute, Department of Water and Environmental Studies. Linköping University, Faculty of Arts and Sciences.
    Impacts of pesticides on human health and environment in the River Nyando catchment, Kenya2014In: International Journal of Humanities, Arts, Medicine and Sciences, ISSN 2348-0521, Vol. 2, no 3, p. 1-14Article in journal (Other academic)
    Abstract [en]

    The population of the River Nyando catchment largely relies on rain fed agriculture for their subsistence.

    Important crops grown include cereals, cash crops fruits and vegetables. Farming is one of the contributors of pollution to Lake Victoria. Organophosphates and other banned organochlorine pesticides such as lindane, aldrin and dieldrin were used by farmers. The pesticides transport was by storm water run-off and air drift into the lake. Environmental risk assessment background information was collected through questionnaire and interviews of farmers to determine knowledge and safe use of pesticides. Fourteen pesticides were identified as commonly used of which four are toxic to bees and five to birds. The farmers identified declines in the number of pollinating insects, the disappearance of Red-billed Oxpecker (Buphagus erythrorthynchus) and wild bird’s fatalities. The general knowledge among farmers about chemicals risks, safety, and chronic illnesses was low. Activities that increases environmental awareness and safety of pesticides should be initiated by the agrochemical firms and government.

  • 49.
    Abong'o, Deborah
    et al.
    University of Nairobi, Kenya.
    Wandiga, Shem
    University of Nairobi. Kenya.
    Jumba, Isac
    University of Nairobi, Kenya.
    van den Brink, Paul
    Wageningen University, the Netherlands.
    Nazariwo, Betty
    Makerere University, Uganda.
    Madadi, Vincent
    University of Nairobi, Kenya.
    Wafula, Godfrey
    University of Nairobi, Kenya.
    Kylin, Henrik
    Linköping University, The Tema Institute, Tema Environmental Change. Linköping University, Faculty of Arts and Sciences.
    Nkedi-Kizza, Peter
    University of Florida, USA.
    Organochlorine pesticide residue levels in soil from the Nyando River catchment, Kenya2015In: Africa Journal of Physical Sciences, ISSN 2313-3317, Vol. 2, no 1, p. 18-32Article in journal (Refereed)
    Abstract [en]

    Soil samples were collected from six locations representative of the Nyando River catchment area of the Lake Victoria over a period of two years. Sampling was done four times in the year in February, May, September and December 2005 and 2006 in farms where maize, tea, sugar cane, coffee, rice and vegetables have been grown over the years. This coincided with the effects of different seasons and farming activities on residue levels of the pesticides in use. The objective was to investigate levels and distribution of organochlorine pesticides that have either been banned or are restricted for use in Kenya. Organochlorine pesticides investigated were DDT, lindane, aldrin, dieldrin, heptachlor, endrin, endosulfan (both α- and β- isomers and endosulfan sulphate), the sum is called “total” or Σendosulfan and methoxychlor. Prior to the ban or restriction in use, these pesticides had found wide applications in public health for control of disease vectors and in agriculture for control of crop pests. The analysis revealed presence of all the targeted pesticides with the highest mean concentrations for methoxychlor 140 ± 1.5 μg/kg, Σendosulfan (30 ± 2.1 μg/kg), aldrin (18 ± 0.28 μg/kg), respectively. The results show the presence of these pesticides in soils in the basin and this could be impacting negatively on the ecosystem health of the area.

  • 50.
    Abraham-Nordling, Mirna
    et al.
    Karolinska institutet.
    Persson, Bengt
    Linköping University, Department of Physics, Chemistry and Biology, Bioinformatics. Linköping University, The Institute of Technology.
    Nordling, Erik
    Linköping University, Department of Physics, Chemistry and Biology, Bioinformatics. Linköping University, The Institute of Technology.
    Model of the complex of Parathyroid hormone-2receptor and Tuberoinfundibular peptide of39 residues2010In: BMC Reseach Notes, ISSN 1756-0500, Vol. 3, no 270Article in journal (Refereed)
    Abstract [en]

    Background

    We aim to propose interactions between the parathyroid hormone-2 receptor (PTH2R) and its ligand the tuberoinfundibular peptide of 39 residues (TIP39) by constructing a homology model of their complex. The two related peptides parathyroid hormone (PTH) and parathyroid hormone related protein (PTHrP) are compared with the complex to examine their interactions.

    Findings

    In the model, the hydrophobic N-terminus of TIP39 is buried in a hydrophobic part of the central cavity between helices 3 and 7. Comparison of the peptide sequences indicates that the main discriminator between the agonistic peptides TIP39 and PTH and the inactive PTHrP is a tryptophan-phenylalanine replacement. The model indicates that the smaller phenylalanine in PTHrP does not completely occupy the binding site of the larger tryptophan residue in the other peptides. As only TIP39 causes internalisation of the receptor and the primary difference being an aspartic acid in position 7 of TIP39 that interacts with histidine 396 in the receptor, versus isoleucine/histidine residues in the related hormones, this might be a trigger interaction for the events that cause internalisation.

    Conclusions

    A model is constructed for the complex and a trigger interaction for full agonistic activation between aspartic acid 7 of TIP39 and histidine 396 in the receptor is proposed.

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