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We study analytically the tracer particle mobility in single-file systems with distributed friction constants. Our system serves as a prototype for nonequilibrium, heterogeneous, strongly interacting Brownian systems. The long time dynamics for such a single-file setup belongs to the same universality class as the Rouse model with dissimilar beads. The friction constants are drawn from a density r
Herein we provide a closed form perturbative solution to a general M-node network susceptible-infected-susceptible (SIS) model using the transport rates between nodes as a perturbation parameter. We separate the dynamics into a short-time regime and a medium-to-long-time regime. We solve the short-time dynamics of the system and provide a limit before which our explicit, analytical result of the f
Coarse-grained, self-contained polymer models are powerful tools in the study of protein folding. They are also essential to assess predictions from less rigorous theoretical approaches that lack an explicit-chain representation. Here we review advances in coarse-grained modeling of cooperative protein folding, noting in particular that the Levinthal paradox was raised in response to the experimen
Random Boolean networks, the Kauffman model, are revisited by means of a novel decimation algorithm, which removes variables that cannot be relevant to the asymptotic dynamics of the system. The major part of the removed variables have the same fixed state in all limit cycles. These variables are denoted as the stable core of the network and their number grows approximately linearly with N, the nu
The majority of microarray studies evaluate gene ex- pression differences between various specimens or con- ditions. However, the causes of this variability often re- main unknown. Our aim is to identify underlying causes of these patterns, a process that would eventually enable a mechanistic understanding of the deregulation of gene expression in cancer. The procedure consists of three phases: pr
We study a simple heteropolymer model containing sequence-independent local interactions on both square and triangular lattices. Sticking to a two-letter code, we investigate the model for varying strength κ of the local interactions; κ=0 corresponds to the well-known HP model [K. F. Lau and K. A. Dill, Macromolecules 22, 3986 (1989)]. By exhaustive enumerations for short chains, we obtain all str
The thermodynamic behavior of a three-dimensional off-lattice model for protein folding is probed. The model has only two types of residues, hydrophobia and hydrophilic. In absence of local interactions, native structure formation does not occur for the temperatures considered. By including sequence independent local interactions, which qualitatively reproduce local properties of functional protei
Ku rsa nalys/cou rse eva luation G EON05 G lacial sed imentol ogy HTL, 2O22 Summary As borne out bythe students'evaluation (LOO% return of the questionna¡Í€, n=3), this Maste/s course is by now well-oiled, and the structure continues to be improved through minor adjustments. As per last year's planned changes, I increased the time for individual study (catching up on lectures, reading, data analys
https://www.geology.lu.se/sites/geology.lu.se/files/2022-12/GEON05%20kursanalys%20HT2022.pdf - 2026-05-28
The purpose of this paper is to investigate the possibilities of optimizing the production of paper pulp in a Conical Disc (CD) refiner for different production rates, taking into account the variables that are thought to be the most important for the production. These include three separate dilution waters, conical disc gap and flat gap. Another task is to compare the values of these variables af
Although it is a central question in biology, how cell shape controls intracellular dynamics largely remains an open question. Here, we show that the shape of Arabidopsis pavement cells creates a stress pattern that controls microtubule orientation, which then guides cell wall reinforcement. Live- imaging, combined with modeling of cell mechanics, shows that microtubules align along the maximal te
While pattern formation is studied in various areas of biology, little is known about the noise leading to variations between individual realizations of the pattern. One prominent example for de novo pattern formation in plants is the patterning of trichomes on Arabidopsis leaves, which involves genetic regulation and cell-to-cell communication. These processes are potentially variable due to, e.g
We study a small Anderson-impurity cluster using lattice density functional methods, and try todetermine the exact exchange-correlation (XC) potential via reverse engineering. In doing so we nd singlet{triplet degenerate interacting ground states which cannot be v0-represented in an ensemble-DFT sense. Wealso nd that it is possible to represent a triplet ground state as a pure state, but not the s
This thesis is composed of six papers, which all concern different methods and tools used for the analysis of barcodes in nanochannel-based Optical DNA Mapping (ODM). The first four papers consider densely-labeled barcodes while the last two consider sparsely-labeled barcodes.Paper I presents a combinatorial auction algorithm for contig assembly ussing ODM barcodes as scaffolds.Paper II concerns m
A novel approach for structure alignment is presented, where the key ingredients are: (1) An error function formulation of the problem simultaneously in terms of binary (Potts) assignment variables and real-valued atomic coordinates. (2) Minimization of the error function by an iterative method, where in each iteration a mean field method is employed for the assignment variables and exact rotation
Experimental and computational efforts are constantly made to elucidate mechanisms controlling cell fate decisions during development and reprogramming. One powerful computational method is to consider cell commitment and reprogramming as movements in an energy landscape. Here, we develop Computation of Energy Landscapes of Logical Gene Networks (CELLoGeNe), which maps Boolean implementation of ge
Popular Abstract in Swedish Nästa år är det 400 år sedan Galileo Galilei för första gången riktade ett teleskop mot objekt på himlen. Allt sedan dess har teleskopet varit det viktigaste instrumentet för astronomins utveckling och med dess hjälp har vår kunskap om universum revolutionerats. Tack vare utvecklingen av teleskopet under dessa århundraden har allt ljussvagare objekt kunnat studeras, och
As a student, you choose courses each semester from our range of courses. The courses are in the areas of artistic creation, theory, and technology. A semester should consist of both courses and your own artistic work. Your programme should consist of approximately 50% courses and 50% independent artistic work, although the exact split may vary slightly depending on the individual needs of the stu
https://www.khm.lu.se/en/current-student-2/your-education - 2026-05-27
Hur snabbt sjunker din skit? "Hur snabbt sjunker din skit?"- är faktiskt rätt bokstavligen vad som har undersökts i detta exjobbet där inkommande partiklar på ett avloppsreningsverk har karakteriserats efter deras sedimenteringshastighet. Resultaten visar att fördelningen av hastigheter skiljde sig från ett reningsverk till ett annat. En modell av försedimenteringen baserad på en fördel
