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We describe a statistical measure, Mass Distance Fingerprint, for automatic de novo detection of predominant peptide mass distances, i.e., putative protein modifications. The method's focus is to globally detect mass differences, not to assign peptide sequences or modifications to individual spectra. The Mass Distance Fingerprint is calculated from high accuracy measured peptide masses. For the da

The authors studied the temperature-induced unfolding of ubiquitin by all-atom Monte Carlo simulations. The unfolding behavior is compared with that seen in previous simulations of the mechanical unfolding of this protein, based on the same model. In mechanical unfolding, secondary-structure elements were found to break in a quite well-defined order. In thermal unfolding, the authors saw somewhat

Protein dynamics play a crucial role in function, catalytic activity, and pathogenesis. Consequently, there is great interest in computational methods that probe the conformational fluctuations of a protein. However, molecular dynamics simulations are computationally costly and therefore are often limited to comparatively short timescales. TYPHON is a probabilistic method to explore the conformati

The Hybrid Monte Carlo method offers a rigorous and potentially efficient approach to the simulation of dense systems, by combining numerical integration of Newton's equations of motion with a Metropolis accept-or-reject step. The Metropolis step corrects for sampling errors caused by the discretization of the equations of motion. The integration is usually performed using a uniform step size. Her

In this thesis, we consider basic properties of Wilson lines, with special attention devoted to the renormalization and exponentiation property. We describe the generating function approach to non-abelian exponentiation and perform the calculation of the correlator of two and three semi-infinite Wilson lines meeting at a single point to two-loop order. We consider Wilson lines on lightcone and reg

In this thesis an algorithm for simulating the equilibrium behavior of a large number of protein sequences at fixed temperature in a single run is investigated. The method, which works by allowing Monte Carlo updates of the protein sequence, is implemented and tested for a simple reduced-representation continuous protein model with three different types of amino acids. The effectiveness of the m

Strong plasmonic-molecular resonance coupling occurs between noble metal nanocrystals and organic adsorbates when the plasmonic resonance is degenerate with the molecular one. This interaction forms the basis for many fundamental studies and practical applications. We describe here the first direct measurement of the resonance coupling on single gold nanorods. The dark-field scattering technique i

A diffusion process on complex networks is introduced in order to uncover their large-scale topological structures. This is achieved by focusing on the slowest decaying diffusive modes of the network. The proposed procedure is applied to real-world networks like a friendship network of known modular structure, and an Internet routing network. For the friendship network, its known structure is well

Using simple sequence-based potentials, the folding properties of a designed three-helix-bundle protein, an alpha-helix and a beta-hairpin are studied. The three-helix-bundle protein is modelled using 5-6 atoms per amino acid and is found to undergo a first-order-like folding transition in which chain collapse and helix formation cannot be separated, which is in-accord with experimental data. The

In plants the dorsoventral boundary of leaves defines an axis of symmetry through thecentre of the organ separating the top (dorsal) and bottom (ventral) tissues. Although thepositioning of this boundary is critical for leaf morphogenesis, how the boundary is established andhow it influences development remains unclear. Using live-imaging and perturbation experimentswe show that leaf orientation,

Multicellular development produces patterns of specialized cell types. Yet, it is often unclear how individual cells within a field of identical cells initiate the patterning process. Using live imaging, quantitative image analyses and modeling, we show that during Arabidopsis thaliana sepal development, fluctuations in the concentration of the transcription factor ATML1 pattern a field of identic

Crossover is the process of recombining the genetic features of two parents. For many applications where crossover is applied to permutations, relevant genetic features are pairs of adjacent elements, also called edges in the permutation order. Recombination of edges without errors is thought to be an NP-hard problem, typically approximated by heuristics that either introduce new edges or are only

https://www.ses.lu.se/sites/ses.lu.se/files/tartu_tamara_ht16.pdf - 2026-05-28

https://www.odeum.lu.se/en/ensembles/lund-university-academic-choir - 2026-05-27

Som ett första steg i uppsåtsbedömningen har domstolar att avgöra om den tilltalade varit i tillräcklig grad medveten om sitt handlande. Det så kallade medvetenhetskravet är omdiskuterat i både rättspraxis och doktrin, men handlar i grunden om att söka avgöra om gärningspersonen varit i ett sådant tillstånd att hen haft en basal grundförståelse för sammanhanget och omgivningen vari gärningen

In 2018 the Relativistic Heavy Ion Collider (RHIC) reported sig- nals of a strongly coupled quark gluon plasma. This plasma is thought to be the reason for J/psi suppression when a fraction of the produced J/psi's dissolves due to the high-energy density of quarks and gluons. In this thesis, it will be investigated whether the suppression can be uniquely attributed to such a plasma. A model, b