| 1. |
- Campbell, PJ, et al.
(författare)
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Pan-cancer analysis of whole genomes
- 2020
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 1476-4687 .- 0028-0836. ; 578:7793, s. 82-
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Tidskriftsartikel (refereegranskat)abstract
- Cancer is driven by genetic change, and the advent of massively parallel sequencing has enabled systematic documentation of this variation at the whole-genome scale1–3. Here we report the integrative analysis of 2,658 whole-cancer genomes and their matching normal tissues across 38 tumour types from the Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium of the International Cancer Genome Consortium (ICGC) and The Cancer Genome Atlas (TCGA). We describe the generation of the PCAWG resource, facilitated by international data sharing using compute clouds. On average, cancer genomes contained 4–5 driver mutations when combining coding and non-coding genomic elements; however, in around 5% of cases no drivers were identified, suggesting that cancer driver discovery is not yet complete. Chromothripsis, in which many clustered structural variants arise in a single catastrophic event, is frequently an early event in tumour evolution; in acral melanoma, for example, these events precede most somatic point mutations and affect several cancer-associated genes simultaneously. Cancers with abnormal telomere maintenance often originate from tissues with low replicative activity and show several mechanisms of preventing telomere attrition to critical levels. Common and rare germline variants affect patterns of somatic mutation, including point mutations, structural variants and somatic retrotransposition. A collection of papers from the PCAWG Consortium describes non-coding mutations that drive cancer beyond those in the TERT promoter4; identifies new signatures of mutational processes that cause base substitutions, small insertions and deletions and structural variation5,6; analyses timings and patterns of tumour evolution7; describes the diverse transcriptional consequences of somatic mutation on splicing, expression levels, fusion genes and promoter activity8,9; and evaluates a range of more-specialized features of cancer genomes8,10–18.
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| 2. |
- Andersson, L. Robin, et al.
(författare)
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Localized roughness effects in non-uniform hydraulic waterways
- 2021
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Ingår i: Journal of Hydraulic Research. - : Taylor & Francis. - 0022-1686 .- 1814-2079. ; 59:1, s. 100-108
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Tidskriftsartikel (refereegranskat)abstract
- Hydropower tunnels are generally subject to a degree of rock falls. Studies explaining this are scarce and the current industrial standards offer little insight. To simulate tunnel conditions, high Reynolds number flow inside a channel with a rectangular cross-section is investigated using Particle Image Velocimetry and pressure measurements. For validation, the flow is modelled using LES and a RANS approach with k - ε turbulence model. One wall of the channel has been replaced with a rough surface captured using laser scanning. The results indicate flow-roughness effects deviating from the standard non-asymmetric channel flow and hence, can not be properly predicted using spatially averaged relations. These effects manifest as localized bursts of velocity connected to individual roughness elements. The bursts are large enough to affect both temporally and spatially averaged quantities. Both turbulence models show satisfactory agreement for the overall flow behaviour, where LES also provided information for in-depth analysis.
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| 3. |
- Forslund, Tobias O. M., 1992-, et al.
(författare)
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A dual-lattice hydrodynamic-thermal MRT-LBM model implemented on GPU for DNS calculations of turbulent thermal flows
- 2022
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Ingår i: International journal of numerical methods for heat & fluid flow. - : Emerald Group Publishing Limited. - 0961-5539 .- 1758-6585. ; 35:5, s. 1703-1725
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Tidskriftsartikel (refereegranskat)abstract
- PurposeThe purpose of this paper is to present a fast and bare bones implementation of a numerical method for quickly simulating turbulent thermal flows on GPUs. The work also validates earlier research showing that the lattice Boltzmann method (LBM) method is suitable for complex thermal flows.Design/methodology/approachA dual lattice hydrodynamic (D3Q27) thermal (D3Q7) multiple-relaxation time LBM model capable of thermal DNS calculations is implemented in CUDA.FindingsThe model has the same computational performance compared to earlier publications of similar LBM solvers. The solver is validated against three benchmark cases for turbulent thermal flow with available data and is shown to be in excellent agreement.Originality/valueThe combination of a D3Q27 and D3Q7 stencil for a multiple relaxation time -LBM has, to the authors’ knowledge, not been used for simulations of thermal flows. The code is made available in a public repository under a free license.
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| 4. |
- Forslund, Tobias O. M., 1992-, et al.
(författare)
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Non-Stokesian flow through ordered thin porous media imaged by tomographic-PIV
- 2021
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Ingår i: Experiments in Fluids. - : Springer. - 0723-4864 .- 1432-1114. ; 62:3
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Tidskriftsartikel (refereegranskat)abstract
- The 3D flow-fields in a staggered and cubic arrangement of mono-radii cylinders are investigated using tomographic-PIV. The cylinder Reynolds-number is in the range of ≈10 to ≈800 giving an almost complete overview of the transition region. Two pore-scale effects are discovered. The first, visible in the cubic packing, is a spatially alternating lateral velocity field, which has a significant impact on the pressure drop and transversal dispersion. The second effect, present in the staggered array, is an example of a disturbance propagation effect that takes place in the laminar steady region; this manifests as a peculiar and complex flow-pattern. In accordance with other studies, it is shown that Darcy’s law can, from an engineering point of view be valid far beyond the limit for Stokesian flow.
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| 5. |
- Forslund, Tobias O.M. 1992-, et al.
(författare)
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Steady-State Transitions in Ordered Porous Media
- 2023
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Ingår i: Transport in Porous Media. - : Springer Nature. - 0169-3913 .- 1573-1634. ; 149:2, s. 551-577
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Tidskriftsartikel (refereegranskat)abstract
- Previously performed experiments on flow through an ordered porous media cell with tomographic particle image velocimetry reveal a complex three-dimensional steady-state flow pattern. This flow pattern emerge in the region where inertial structures have been previously reported for a wide range of packings. The onset of these steady-state inertial flow structures is here scrutinized for three different types of packing using a finite difference method. It is concluded that the onset of the flow structure coincides with a symmetry break in the flow field and discontinuities in the pressure drop, volume averaged body forces and heat transfer. A quantity for identifying the transition is proposed, namely the pressure integral across the solid surfaces. It is also shown that the transition can both increase and decrease the heat transfer dependent on the actual geometry of the porous medium.
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| 6. |
- Forslund, Tobias O. M., 1992-, et al.
(författare)
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The Effects of Periodicity Assumptions in Porous Media Modelling
- 2021
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Ingår i: Transport in Porous Media. - : Springer. - 0169-3913 .- 1573-1634. ; 137:3, s. 769-797
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Tidskriftsartikel (refereegranskat)abstract
- The effects of periodicity assumptions on the macroscopic properties of packed porous beds are evaluated using a cascaded Lattice-Boltzmann method model. The porous bed is modelled as cubic and staggered packings of mono-radii circular obstructions where the bed porosity is varied by altering the circle radii. The results for the macroscopic properties are validated using previously published results. For unsteady flows, it is found that one unit cell is not enough to represent all structures of the fluid flow which substantially impacts the permeability and dispersive properties of the porous bed. In the steady region, a single unit cell is shown to accurately represent the fluid flow across all cases studied
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| 7. |
- Barcot, Ana, et al.
(författare)
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Stormwater Uptake in Sponge-Like Porous Bodies Surrounded by a Pond: A Fluid Mechanics Analysis
- 2023
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Ingår i: Water. - : MDPI. - 2073-4441. ; 15:18
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Tidskriftsartikel (refereegranskat)abstract
- In this work, a previously published model for the water up take of stormwater in sponge-like porous bodies by the group is further developed. This is done by investigating the highest-performing model and considering the water uptake from the surroundings of a pond and rain-infiltrated soil. This implies that water uptake from impermeable to partially permeable surfaces is examined. Hence, the following cases are considered: (1) impervious bottom surface and no precipitation, (2) impervious bottom surface with precipitation, (3) permeable soil with no precipitation, and (4) permeable soil with precipitation. A mathematical model covering all these cases is presented, where the governing equations are the mass conservation and Darcy’s law together with an assumption of a sharp wetting front being a first-order approximation of the complete Richard’s equation. Results for the water uptake height, pond depth, and wetting front are computed numerically and plotted against time. Analytical solutions are also presented in certain cases, and critical values are obtained. The parametric study includes variations in the ratio of the model- to the surrounding ground surface area, initial pond depth, precipitation, and soil characteristics. To exemplify, the time it takes to absorb the water from the pond after a precipitation period is presented. The results are related to the Swedish rainfall data of 1 h duration with a return period of 10 years. When evaluating efficiency, the focus is on the absorption time. Results vary considerably, demonstrating a general trend that with soil infiltration, the water absorption rate is higher. For most cases, the considered water amount is absorbed completely, although depending on the parameters and conditions. These results serve to optimize the model for each of the cases. The main focus of the research lies in the theoretical aspect.
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| 8. |
- Kadia, Subhojit, et al.
(författare)
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Experimental and numerical investigations of the water surface profile and wave extrema of supercritical flows in a narrow channel bend
- 2024
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Ingår i: Scientific Reports. - : Springer Nature. - 2045-2322. ; 14:1
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Tidskriftsartikel (refereegranskat)abstract
- Supercritical flows in channel bends, e.g., in steep streams, chute spillways, and flood and sediment bypass tunnels (SBTs), experience cross-waves, which undulate the free surface. The designs of these hydraulic structures and flood protection retaining structures in streams necessitate computing the locations and water depths of the wave extrema. This study numerically and experimentally investigates the water surface profiles along the sidewalls, the wave extrema flow depths, and their angular locations in a narrow channel bend model of the Solis SBT in Switzerland. The 0.2 m wide and 16.75 m long channel has a bend of 6.59 m radius and 46.5° angle of deviation. The tested flow conditions produced Froude numbers ≈ 2 and aspect ratios ranging from 1.14 to 1.83. Two-phase flow simulations were performed in OpenFOAM using the RNG k–ε turbulence closure model and the volume-of-fluid method. The simulated angular locations of the first wave extrema and the corresponding flow depths deviate marginally, within ± 6.3% and ± 2.1%, respectively, from the experimental observations, which signifies good predictions using the numerical model. Larger deviations, especially for the angular locations of the wave extrema, are observed for the existing analytical and empirical approaches. Therefore, the presented numerical approach is a suitable tool in designing the height of the hydraulic structures with bends and conveying supercritical flows. In the future, the model’s application shall be extended to the design of the height and location of retaining walls, embankments, and levees in steep natural streams with bends.
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| 9. |
- Kadia, Subhojit, et al.
(författare)
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Supercritical Flow Characteristics in a Narrow Channel Bend
- 2023
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Ingår i: Proceedings of the 40th IAHR World Congress - 2023: Rivers - Connecting Mountains and Coasts. - : International Association for Hydro-Environment Engineering and Research. ; , s. 87-93
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Konferensbidrag (refereegranskat)
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| 10. |
- Larsson, I. A. Sofia, et al.
(författare)
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Experimental study of confined coaxial jets in a non‑axisymmetric co‑flow
- 2020
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Ingår i: Experiments in Fluids. - : Springer Nature. - 0723-4864 .- 1432-1114. ; 61:12
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Tidskriftsartikel (refereegranskat)abstract
- Confined, turbulent, coaxial jets in a non-axisymmetric co-flow are studied using particle image velocimetry (PIV) and planar laser-induced fluorescence (PLIF) simultaneously. Eight different cases are measured. Two momentum flow ratios ofthe co-flow are used in the experiment to investigate the effect on the coaxial burner jet behavior and mixing characteristics of the coaxial jet flow and the co-flowing, secondary fluid. In addition, four different momentum flow ratios of the coaxial outer to inner jet are investigated. The objective of the study is to get a deeper understanding of how the flow dynamics affects the entrainment and mixing process in a coaxial jet with a non-axisymmetric, surrounding co-flow. The results show that the introduction of a coaxial stream affects the inner jet and decreases the mixing with the surrounding co-flow; the effect is enhanced as the momentum flow ratio of the coaxial jet increases. The distribution of the secondary, co-flowing fluid controls the shape and direction of the coaxial jet, but does not have a significant impact on the mixing process near the centerline. Practical implications of this investigation are related to the possibility to better control a diffusion flame by introducing acoaxial stream. In this context it is concluded that it is possible to affect the jet development and hence the flame length. The conclusion is based on the assumption that the outer, coaxial stream has a low mass flow, not enough to provide complete combustion, and hence the co-flowing, secondary fluid provides the air needed for the combustion process.
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| 11. |
- Larsson, I. A. Sofia, et al.
(författare)
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Simulation of Thermal Effects on the Flow Field in a Pilot-Scale Kiln
- 2021
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Ingår i: Mining, Metallurgy & Exploration. - : Springer. - 2524-3462 .- 2524-3470. ; 38:3, s. 1487-1495
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Tidskriftsartikel (refereegranskat)abstract
- The flow field and coal combustion process in a pilot-scale iron ore pelletizing kiln is simulated using a computational fluid dynamics (CFD) model. The objective of the work is to investigate how the thermal effects from the flame affect the flow field. As expected, the combustion process with the resulting temperature rise and volume expansion leads to an increase of the velocity in the kiln. Apart from that, the overall flow field looks similar regardless of whether combustion is present or not. The flow field though affects the combustion process by controlling the mixing rates of fuel and air, governing the flame propagation. This shows the importance of correctly predicting the flow field in this type of kiln, with a large amount of process gas circulating, in order to optimize the combustion process. The results also justify the use of down-scaled, geometrically similar, water models to investigate kiln aerodynamics in general and mixing properties in particular. Even if the heat release from the flame is neglected, valuable conclusions regarding the flow field can still be drawn.
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| 12. |
- Larsson, I.A Sofia
(författare)
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The Aerodynamics of an Iron Ore Pelletizing Rotary Kiln
- 2022
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Ingår i: Fluids. - : MDPI. - 2311-5521. ; 7:5
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Tidskriftsartikel (refereegranskat)abstract
- This paper summarizes more than a decade of systematic studies of the flow field in an iron ore pelletizing rotary kiln using computational fluid dynamics (CFD) on simplified models of a real kiln. Physical, laser-based experiments have been performed to validate part of the numerical results. The objective is a better understanding of the kiln aerodynamics and, by extension, its effect on the combustion process. Despite all of the simplifications regarding the models studied in this project, the results show the importance of correctly predicting the flow field in order to optimize the combustion process. Combustion simulations revealed that the heat release from the flame does not affect or change the flow field in any significant way; the flow field, however, governs the flame propagation and affects the combustion process by controlling the mixing rates of fuel and air. Using down-scaled isothermal water models for investigating kiln aerodynamics in general and mixing properties in particular is therefore justified. Although the heat release from the flame cannot be accounted for in isothermal models, valuable implications regarding the real process can still be gained. To better model the actual process numerically, more advanced submodels for both the combustion and especially the flow field are needed. The complex flow field in this type of rotary kiln requires a careful choice of turbulence model to obtain accurate simulation results.
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| 13. |
- Larsson, Sofia I.A., et al.
(författare)
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Towards flow field measurements around dynamic cross-country skiers
- 2024
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Ingår i: Current Issues in Sport Science (CISS). - : Bern Open Publishing. - 2414-6641. ; 9:3
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Tidskriftsartikel (refereegranskat)abstract
- Flow field measurements around cross-country skiers (xc skiers) are lacking in the literature to date. The aim was therefore to investigate the possibility of using particle tracking velocimetry for visualization and measurement of the flow field around xc skiers roller skiing on a treadmill in a wind tunnel. The airflow was seeded with neutrally buoyant helium-filled soap bubbles as tracer particles, following the flow without affecting it. As illumination, two different approaches were tested: first, a laser in the cameras’ line of sight (sagittal plane), then an LED unit directed vertically in a narrow slice, clearly limiting the depth of the measurement volume in the cameras’ line of sight. The flow field was studied at various speeds (3-7 m/s) around a single skier as well as around two skiers in line with the streaming airflow. It was found that the experimental approach has the potential to provide detailed insights, both qualitatively and quantitatively, into the flow field dynamics. The main challenges regarding setup, illumination, seeding, and cameras were identified, and possible improvements to streamline the experimental methodology were discussed.
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| 14. |
- Raj, Aashna, et al.
(författare)
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Evaluating hydrogen gas transport in pipelines: Current state of numerical and experimental methodologies
- 2024
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Ingår i: International journal of hydrogen energy. - : Elsevier. - 0360-3199 .- 1879-3487. ; 67, s. 136-149
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Forskningsöversikt (refereegranskat)abstract
- This review article provides a comprehensive overview of the fundamentals, modelling approaches, experimental studies, and challenges associated with hydrogen gas flow in pipelines. It elucidates key aspects of hydrogen gas flow, including density, compressibility factor, and other relevant properties crucial for understanding its behavior in pipelines. Equations of state are discussed in detail, highlighting their importance in accurately modeling hydrogen gas flow. In the subsequent sections, one-dimensional and three-dimensional modelling techniques for gas distribution networks and localized flow involving critical components are explored. Emphasis is placed on transient flow, friction losses, and leakage characteristics, shedding light on the complexities of hydrogen pipeline transportation. Experimental studies investigating hydrogen pipeline transportation dynamics are outlined, focusing on the impact of leakage on surrounding environments and safety parameters. The challenges and solutions associated with repurposing natural gas pipelines for hydrogen transport are discussed, along with the influence of pipeline material on hydrogen transportation. Identified research gaps underscore the need for further investigation into areas such as transient flow behavior, leakage mitigation strategies, and the development of advanced modelling techniques. Future perspectives address the growing demand for hydrogen as a clean energy carrier and the evolving landscape of hydrogen-based energy systems.
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| 15. |
- Åkerstedt, Hans O., et al.
(författare)
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Modeling the Swelling of Hydrogels with Application to Storage of Stormwater
- 2021
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Ingår i: Water. - : MDPI. - 2073-4441. ; 13:1
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Tidskriftsartikel (refereegranskat)abstract
- The swelling effect in hydrogel bodies or sponge-like porous bodies (SPB) used in a specific stormwater storage concept of the down-flow type is considered. A macroscopic swelling model is proposed, in which water is assumed to penetrate into the hydrogel by diffusion described by diffusion equations together with a free-moving boundary separating the interface between the water and hydrogel. Such a type of problem belongs to the certain class of problems called Stefan-problems. The main objective of this contribution is to compare how the theoretical total amount of absorbed water is modified by the inclusion of swelling, when compared to the previously studied SPB devices analyzed only for the effect of diffusion. The results can be summarized in terms of the geometrical dimensions of the storage device and the magnitude of the diffusion coefficient D. The geometrical variables influence both the maximum possible absorbed volume and the time to reach that volume. The diffusion coefficient D only influences the rate of volume growth and the time to reach the maximum volume of stored water. The initial swelling of the hydrogel SPB grows with time (√Dt) until the steady state is reached and the swelling rate approaches zero. In all the cases considered, the swelling in general increases the maximum possible absorbed water volume by an amount of 14%.
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| 16. |
- Östman, N. Martin, et al.
(författare)
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Effect of momentum flow ratio on entrainment of a confined coaxial jet in a co-flow
- 2024
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Ingår i: Engineering Applications of Computational Fluid Mechanics. - : Taylor & Francis. - 1994-2060 .- 1997-003X. ; 18:1
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Tidskriftsartikel (refereegranskat)abstract
- Iron ore pellet production processes produce large amounts of CO2 emissions when burning fossil fuels. One example is the grate-kiln process, where normally a coal flame is used to indurate pellets. To mitigate the emissions, coal used in rotary kilns can be replaced with for example hydrogen. However, the fuel is mixed with secondary process air, and replacing a solid fuel with a gaseous one changes the mixing characteristics. This demands different means of injecting the fuel. A coaxial jet can be used to control the mixing of fuel and secondary air, as well as the flow field. The aim is to control the mixing of hydrogen and secondary air to achieve a hydrogen flame that is similar to the reference coal flame. This study numerically investigates different coaxial jet configurations. Steady-state simulations of a simplified model of the real kiln are performed using a Reynolds Stress turbulence model. Results show that decreasing the momentum flow ratio between the outer and inner jet, ?jet, to a certain value delays the spread of the hydrogen jet and thus gives a longer jet. Further decreasing this ratio gives an even longer jet, but has the side effect of producing recirculation of hydrogen.
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