scholarly journals Persistent homology analysis of deconfinement transition in effective Polyakov-line model

2020 ◽  
Vol 35 (10) ◽  
pp. 2050049
Author(s):  
Takehiro Hirakida ◽  
Kouji Kashiwa ◽  
Junpei Sugano ◽  
Junichi Takahashi ◽  
Hiroaki Kouno ◽  
...  
Keyword(s):  
Persistent Homology ◽  
Rectangular Lattice ◽  
Spatial Average ◽  
Lattice Data ◽  
Line Model ◽  
Data Space ◽  
Homology Analysis ◽  
Individual Domain ◽  
The Individual ◽  
Polyakov Line

The persistent homology analysis is applied to the effective Polyakov-line model on a rectangular lattice to investigate the confinement–deconfinement nature. The lattice data are mapped onto the complex Polyakov-line plane without taking the spatial average and then the plane is divided into three domains. This study is based on previous studies for the clusters and the percolation properties in lattice QCD, but the mathematical method of the analyses are different. The spatial distribution of the data in the individual domain is analyzed by using the persistent homology to obtain information of the multiscale structure of center clusters. In the confined phase, the data in the three domains show the same topological tendency characterized by the birth and death times of the holes which are estimated via the filtration of the alpha complexes in the data space, but do not in the deconfined phase. By considering the configuration averaged ratio of the birth and death times of holes, we can construct the nonlocal order parameter of the confinement–deconfinement transition from the multiscale topological properties of center clusters.

scholarly journals Persistent homology analysis of phase transitions

2016 ◽  
Vol 93 (5) ◽  
Author(s):  
Irene Donato ◽  
Matteo Gori ◽  
Marco Pettini ◽  
Giovanni Petri ◽  
Sarah De Nigris ◽  
...  
Keyword(s):  
Phase Transitions ◽  
Persistent Homology ◽  
Homology Analysis

scholarly journals The C-terminal rod 2 fragment of filamin A forms a compact structure that can be extended

2012 ◽  
Vol 446 (2) ◽  
pp. 261-269 ◽  
Author(s):  
Salla Ruskamo ◽  
Robert Gilbert ◽  
Gregor Hofmann ◽  
Pengju Jiang ◽  
Iain D. Campbell ◽  
...  
Keyword(s):  
Intracellular Signalling ◽  
Domain Pair ◽  
Filamin A ◽  
Compact Structure ◽  
Transmembrane Receptors ◽  
X Ray ◽  
X Ray Scattering ◽  
Individual Domain ◽  
The Individual ◽  
Cellular Components

Filamins are large proteins that cross-link actin filaments and connect to other cellular components. The C-terminal rod 2 region of FLNa (filamin A) mediates dimerization and interacts with several transmembrane receptors and intracellular signalling adaptors. SAXS (small-angle X-ray scattering) experiments were used to make a model of a six immunoglobulin-like domain fragment of the FLNa rod 2 (domains 16–21). This fragment had a surprising three-branched structural arrangement, where each branch was made of a tightly packed two-domain pair. Peptides derived from transmembrane receptors and intracellular signalling proteins induced a more open structure of the six domain fragment. Mutagenesis studies suggested that these changes are caused by peptides binding to the CD faces on domains 19 and 21 which displace the preceding domain A-strands (18 and 20 respectively), thus opening the individual domain pairs. A single particle cryo-EM map of a nine domain rod 2 fragment (domains 16–24), showed a relatively compact dimeric particle and confirmed the three-branched arrangement as well as the peptide-induced conformation changes. These findings reveal features of filamin structure that are important for its interactions and mechanical properties.

The Individual Domain

2019 ◽  
pp. 51-60
Author(s):  
Rita DeMaria ◽  
Briana Bogue ◽  
Veronica Haggerty
Keyword(s):  
Individual Domain ◽  
The Individual

scholarly journals Terminal short arm domains of basement membrane laminin are critical for its self-assembly.

1990 ◽  
Vol 110 (3) ◽  
pp. 825-832 ◽  
Author(s):  
J C Schittny ◽  
P D Yurchenco
Keyword(s):  
Self Assembly ◽  
Affinity Column ◽  
Dependent Manner ◽  
Concentration Dependent Manner ◽  
Calcium Dependent ◽  
Domain Specific ◽  
Binding Domains ◽  
Individual Domain ◽  
The Individual

Laminin self-assembles into large polymers by a cooperative two-step calcium-dependent mechanism (Yurchenco, P. D., E. C. Tsilibary, A. S. Charonis, and H. Furthmayr. 1985. J. Biol. Chem. 260:7636-7644). The domain specificity of this process was investigated using defined proteolytically generated fragments corresponding to the NH2-terminal globule and adjacent stem of the short arm of the B1 chain (E4), a complex of the two short arms of the A and B2 chains attached to the proximal stem of a third short arm (E1'), a similar complex lacking the globular domains (P1'), and the distal half of the long arm attached to the adjacent portion of the large globule (E8). Polymerization, followed by an increase of turbidity at 360 nm in neutral isotonic TBS containing CaCl2 at 35 degrees C, was quantitatively inhibited in a concentration-dependent manner with laminin fragments E4 and E1' but not with fragments E8 and P1'. Affinity retardation chromatography was used for further characterization of the binding of laminin domains. The migration of fragment E4, but not of fragments E8 and P1', was retarded in a temperature- and calcium-dependent fashion on a laminin affinity column but not on a similar BSA column. These data are evidence that laminin fragments E4 and E1' possess essential terminal binding domains for the self-aggregation of laminin, while fragments E8 and P1' do not. Furthermore, the individual domain-specific interactions that contribute to assembly are calcium dependent and of low affinity.

scholarly journals Musical creativity and the embodied mind

2018 ◽  
Vol 1 ◽  
pp. 205920431879231 ◽  
Author(s):  
Dylan van der Schyff ◽  
Andrea Schiavio ◽  
Ashley Walton ◽  
Valerio Velardo ◽  
Anthony Chemero
Keyword(s):  
Cognitive Process ◽  
Future Research ◽  
Embodied Interaction ◽  
Wide Range ◽  
Recent Developments ◽  
Individual Domain ◽  
Embodied Cognitive Science ◽  
Musical Creativity ◽  
Temporal Dimensions ◽  
The Individual

The phenomenon of creativity has received a growing amount of attention from scholars working across a range of disciplines. While this research has produced many important insights, it has also traditionally tended to explore creativity in terms of the reception of products or outcomes, conceiving of it as a cognitive process that is limited to the individual domain of the creative agent. More recently, however, researchers have begun to develop perspectives on creativity that highlight the patterns of adaptive embodied interaction that occur between multiple agents, as well as the broader socio-material milieu they are situated in. This has promoted new understandings of creativity, which is now often considered as a distributed phenomenon. Because music involves such a wide range of socio-cultural, bodily, technological, and temporal dimensions it is increasingly taken as a paradigmatic example for researchers who wish to explore creativity from this more relational perspective. In this article, we aim to contribute to this project by discussing musical creativity in light of recent developments in embodied cognitive science. More specifically, we will attempt to frame an approach to musical creativity based in an 4E (embodied, embedded, enactive, and extended) understanding of cognition. We suggest that this approach may help us better understand creativity in terms of how interacting individuals and social groups bring forth worlds of meaning through shared, embodied processes of dynamic interactivity. We also explore how dynamical systems theory (DST) may offer useful tools for research and theory that align closely with the 4E perspective. To conclude, we summarize our discussion and suggest possibilities for future research.

scholarly journals Persistent homology analysis of osmolyte molecular aggregation and their hydrogen-bonding networks

2019 ◽  
Vol 21 (37) ◽  
pp. 21038-21048 ◽  
Author(s):  
Kelin Xia ◽  
D. Vijay Anand ◽  
Saxena Shikhar ◽  
Yuguang Mu
Keyword(s):  
Hydrogen Bonding ◽  
Persistent Homology ◽  
Molecular Aggregation ◽  
Homology Analysis ◽  
Hydrogen Bonding Networks

Dramatically different patterns can be observed in the topological fingerprints for hydrogen-bonding networks from two types of osmolyte systems.

scholarly journals Time density curve analysis for C-arm FDCT PBV imaging

2016 ◽  
Vol 22 (2) ◽  
pp. 176-186 ◽  
Author(s):  
Mudassar Kamran ◽  
James V Byrne
Keyword(s):  
Steady State ◽  
Goodness Of Fit ◽  
Contrast Material ◽  
Horizontal Line ◽  
Cerebral Vasculature ◽  
Line Model ◽  
Density Curve ◽  
Injection Protocol ◽  
The Individual ◽  
Time Density

Introduction Parenchymal blood volume (PBV) estimation using C-arm flat detector computed tomography (FDCT) assumes a steady-state contrast concentration in cerebral vasculature for the scan duration. Using time density curve (TDC) analysis, we explored if the steady-state assumption is met for C-arm CT PBV scans, and how consistent the contrast-material dynamics in cerebral vasculature are across patients. Methods Thirty C-arm FDCT datasets of 26 patients with aneurysmal-SAH, acquired as part of a prospective study comparing C-arm CT PBV with MR-PWI, were analysed. TDCs were extracted from the 2D rotational projections. Goodness-of-fit of TDCs to a steady-state horizontal-line-model and the statistical similarity among the individual TDCs were tested. Influence of the differences in TDC characteristics on the agreement of resulting PBV measurements with MR-CBV was calculated. Results Despite identical scan parameters and contrast-injection-protocol, the individual TDCs were statistically non-identical ( p < 0.01). Using Dunn's multiple comparisons test, of the total 435 individual comparisons among the 30 TDCs, 330 comparisons (62%) reached statistical significance for difference. All TDCs deviated significantly ( p < 0.01) from the steady-state horizontal-line-model. PBV values of those datasets for which the TDCs showed largest deviations from the steady-state model demonstrated poor agreement and correlation with MR-CBV, compared with the PBV values of those datasets for which the TDCs were closer to steady-state. Conclusion For clinical C-arm CT PBV examinations, the administered contrast material does not reach the assumed ‘ideal steady-state’ for the duration of scan. Using a prolonged injection protocol, the degree to which the TDCs approximate the ideal steady-state influences the agreement of resulting PBV measurements with MR-CBV.

scholarly journals Persistent homology analysis of multiqubit entanglement

2020 ◽  
Vol 20 (5&6) ◽  
pp. 375-399
Author(s):  
Ricardo Mengoni ◽  
Alessandra Di Pierro ◽  
Leleh Memarzadeh ◽  
Stefano Mancini
Keyword(s):  
Persistent Homology ◽  
Occurrence Frequency ◽  
Entangled States ◽  
Data Sets ◽  
Bipartite Entanglement ◽  
Homology Analysis ◽  
Relative Occurrence ◽  
Associate State

We introduce a homology-based technique for the classification of multiqubit state vectors with genuine entanglement. In our approach, we associate state vectors to data sets by introducing a metric-like measure in terms of bipartite entanglement, and investigate the persistence of homologies at different scales. This leads to a novel classification of multiqubit entanglement. The relative occurrence frequency of various classes of entangled states is also shown.

Sign in / Sign up

Export Citation Format

Share Document