Publikationer från KTH
Not a member yet
57933 research outputs found
Sort by
Vesyla-II: An Algorithm Library Development Tool for Synchoros VLSI Design Style
No full textHigh-level synthesis (HLS) has been researched for decades and is still limited to fast FPGA prototyping and algorithmic RTL generation. A feasible end-to-end system-level synthesis solution has never been rigorously proven. Modularity and composability are the keys to enabling such a system-level synthesis framework that bridges the huge gap between system-level specification and physical level design. It implies that 1) modules in each abstraction level should be physically composable without any irregular glue logic involved and 2) the cost of each module in each abstraction level is accurately predictable. The ultimate reasons that limit how far the conventional HLS can go are precisely that it cannot generate modular designs that are physically composable and cannot accurately predict the cost of its design. In this paper, we propose Vesyla, not as yet another HLS tool, but as a synthesis tool that positions itself in a promising end-to-end synthesis framework and preserving its ability to generate physically composable modular design and to accurately predict its cost metrics. We present in the paper how Vesyla is constructed focusing on the novel platform it targets and the internal data structures that highlights the uniqueness of Vesyla. We also show how Vesyla will be positioned in the end-to-end synchoros synthesis framework called SiLago. QC 20220914</p
Constant-pH Molecular Dynamics Simulations of Closed and Open States of a Proton-gated Ion Channel
No full textAlthough traditional molecular dynamics simulations successfully capture a variety of di erent molecular interactions, the protonation states of titratable residues are kept static. A recent constant-pH molecular dynamics implementation in the GROMACS package allows pH e ects to be captured dynamically, and promises to provide both the accuracy and computational performance required for studying pH-mediated conformational dynamics in large, complex systems containing hundreds of titratable residues. Here, we demonstrate the applicability of this constant-pH implementation by simulating the proton-gated ion channel GLIC at resting and activating pH, starting from closed and open structures. Our simulations identify residues E26 and E35 as especially pH-sensitive and reveal state-dependent pKa shifts at multiple residues, as well as side chain and domain rearrangements in line with the early stages of gating. Our results are consistent with several previous experimental ndings, demonstrating the applicability of constant-pH simulations to elucidate pH-mediated activation mechanisms in multidomain membrane proteins, likely extensible to other complex systems.QC 20240515</p
Principles and pragmatism in local energy transitions : A Swedish case study of the Transition Network
No full textThe necessary transition away from a fossil fuel-based energy regime has far-reaching implications for socio-material and cultural aspects of energy use in people's everyday lives. We describe a case study of such transitions as enacted by active members of Omställningsnätverket (the Swedish Transition Network) to increase our understanding of local energy transitions. Through an exploratory study of semi-structured interviews, we have identified four strategies used to support local transition efforts: 1) to focus on concrete, practical action, 2) that is situated in a specific place, and 3) is aimed at fixing broken social contracts, increasing trust and aiding local economies 4) without demanding affiliation or allegiance to a specific course of action, movement or worldview. We interpret the results using the middle-out perspective as applied to individual actors and conclude by arguing that identifying individual middle actors and supporting their work may be an effective addition to current municipal or regional sustainability initiatives.QC 20251121</p