julilili42/papers huggingface dataset:
Thermal Area Law for Lattice Bosons
2023-08-16

A physical system is said to satisfy a thermal area law if the mutual information between two adjacent regions in the Gibbs state is controlled by the area of their boundary. Lattice bosons have recently gained significant interest because they can be precisely tuned in experiments and bosonic codes can be employed in quantum error correction to circumvent classical no-go theorems. However, the proofs of many basic information-theoretic inequalities such as the thermal area law break down for bosons because their interactions are unbounded. Here, we rigorously derive a thermal area law for a class of bosonic Hamiltonians in any dimension which includes the paradigmatic Bose-Hubbard model. The main idea to go beyond bounded interactions is to introduce a quasi-free reference state with artificially decreased chemical potential by means of a double Peierls-Bogoliubov estimate.
Orientation, electronic decoupling and band dispersion of heptacene on modified and nanopatterned copper surfaces
2023-08-16

Abstract The adsorption of heptacene (7 A) on Cu(110) and Cu(110)-(2 × 1)-O was studied with scanning tunneling microscopy, photoemission orbital tomography and density functional calculations to reveal the influence of surface passivation on the molecular geometry and electronic states. We found that the charge transfer into the 7 A molecules on Cu(110) is completely suppressed for the oxygen-modified Cu surface. The molecules are aligned along the Cu-O rows and uncharged. They are tilted due to the geometry enforced by the substrate and the ability to maximize intermolecular π-π overlap, which leads to strong π-band dispersion. The HOMO-LUMO gap of these decoupled molecules is significantly larger than that reported on weakly interacting metal surfaces. Finally, the Cu-O stripe phase was used as a template for nanostructured molecular growth and to assess possible confinement effects.
Multiomic ALS signatures highlight sex differences and molecular subclusters and identify the MAPK pathway as therapeutic target
2023-08-16

Abstract Amyotrophic lateral sclerosis (ALS) is the most common motor neuron disease and lacks effective disease-modifying treatments. Here, we performed a multiomic analysis of the prefrontal cortex of 51 patients with sporadic ALS and 50 control subjects, as well as four transgenic mouse models of C9orf72-, SOD1-, TDP-43-, and FUS-ALS to characterize early and sex-specific disease mechanisms in ALS. Integrated analyses of transcriptomes, (phospho)proteomes, and miRNAomes revealed more pronounced changes in males. We identified transcriptome-based human ALS subclusters driven by the immune response, ECM, mitochondrial respiration, and RNA metabolism. The molecular signatures of human subclusters were reflected in specific mouse models. Individual and integrative multiomics analysis highlighted the mitogen-activated protein kinase pathway as an early disease-relevant mechanism. Its modulation by trametinib in vitro and in vivo validated that mitogen-activated protein kinase kinase 2 is a promising therapeutic target with beneficial effects in females.
Nitrite excretion by cyanobacteria is controlled by the small protein NirP1
2023-08-16

Abstract When the supply of inorganic carbon is limiting, photosynthetic cyanobacteria excrete nitrite, a toxic intermediate in the ammonia assimilation pathway from nitrate. While it has been hypothesized that the excreted nitrite represents excess nitrogen that could not be further assimilated due to the missing carbon, the underlying molecular mechanism has remained enigmatic. Here, we characterized a hitherto unannotated gene with homologs in the genomes of 485 different cyanobacteria that is upregulated under low carbon conditions and controlled by the transcription factor NtcA, a central regulator of nitrogen homeostasis. To understand its function, we ectopically overexpressed it in Synechocystis sp. PCC 6803, which resulted in a chlorotic phenotype, delayed growth, severe changes in amino acid pools, and nitrite excretion. Coimmunoprecipitation experiments revealed that this protein targets nitrite reductase, a central enzyme in the assimilation of ammonia from nitrate/nitrite, and was re-named to nitrite reductase regulator protein 1 (NirP1). Our results reveal that NirP1 is widely conserved in cyanobacteria and plays a crucial role in the coordination of C/N primary metabolism by targeting one of the central enzymes. In natural environments, the excreted nitrite will be utilized by other microorganisms; therefore, NirP1 ultimately impacts the activities and composition of the surrounding microbiome.
Erratum: Simultaneous Detection of Different Antibody Classes in a Multiplexed Serological Test
2023-08-16

An erratum was issued for: Simultaneous Detection of Different Antibody Classes in a Multiplexed Serological Test. The Authors section was updated to correct an Affiliation. It was updated from: Julia Häring<sup>1</sup> Tanja Michel<sup>1</sup> Matthias Becker<sup>1</sup> Daniel Junker<sup>1</sup> Tatia Tchitchagua<sup>2</sup> Olaf Leschnik<sup>2</sup> Berit Lange<sup>3,4</sup> Stefanie Castell<sup>3,4</sup> Gérard Krause<sup>3,4</sup> Monika Strengert<sup>3</sup> Alex Dulovic<sup>1</sup> Nicole Schneiderhan-Marra<sup>1</sup> <sup>1</sup>NMI Natural and Medical Sciences Institute, University of Tübingen <sup>2</sup>Department of Neurology, Sächsisches Krankenhaus Rodewisch <sup>3</sup>Department of Epidemiology, Helmholtz Centre for Infection Research <sup>4</sup>German Centre for Infection Research (DZIF) to: Julia Häring<sup>1</sup> Tanja Michel<sup>1</sup> Matthias Becker<sup>1</sup> Daniel Junker<sup>1</sup> Tatia Tchitchagua<sup>2</sup> Olaf Leschnik<sup>2</sup> Berit Lange<sup>3,4</sup> Stefanie Castell<sup>3,4</sup> Gérard Krause<sup>3,4</sup> Monika Strengert<sup>3</sup> Alex Dulovic<sup>1</sup> Nicole Schneiderhan-Marra<sup>1</sup> <sup>1</sup>NMI Natural and Medical Sciences Institute at the University of Tübingen <sup>2</sup>Department of Neurology, Sächsisches Krankenhaus Rodewisch <sup>3</sup>Department of Epidemiology, Helmholtz Centre for Infection Research <sup>4</sup>German Centre for Infection Research (DZIF).
Developmental changes in exploration resemble stochastic optimization
2023-08-17

Abstract Human development is often described as a ‘cooling off’ process, analogous to stochastic optimization algorithms that implement a gradual reduction in randomness over time. Yet there is ambiguity in how to interpret this analogy, due to a lack of concrete empirical comparisons. Using data from n = 281 participants ages 5 to 55, we show that cooling off does not only apply to the single dimension of randomness. Rather, human development resembles an optimization process of multiple learning parameters, for example, reward generalization, uncertainty-directed exploration and random temperature. Rapid changes in parameters occur during childhood, but these changes plateau and converge to efficient values in adulthood. We show that while the developmental trajectory of human parameters is strikingly similar to several stochastic optimization algorithms, there are important differences in convergence. None of the optimization algorithms tested were able to discover reliably better regions of the strategy space than adult participants on this task.
Anthropogenic activities significantly increase annual greenhouse gas (GHG) fluxes from temperate headwater streams in Germany
2023-08-17

Abstract. Anthropogenic activities increase the contributions of inland waters to global greenhouse gas (GHG; CO2, CH4, and N2O) budgets, yet the mechanisms driving these increases are still not well constrained. In this study, we quantified year-long GHG concentrations, fluxes, and water physico-chemical variables from 28 sites contrasted by land use across five headwater catchments in Germany. Based on linear mixed-effects models, we showed that land use was more significant than seasonality in controlling the intra-annual variability of the GHGs. Streams in agriculture-dominated catchments or with wastewater inflows had up to 10 times higher daily CO2, CH4, and N2O emissions and were also more temporally variable (CV &gt; 55 %) than forested streams. Our findings also suggested that nutrient, labile carbon, and dissolved GHG inputs from the agricultural and settlement areas may have supported these hotspots and hot-moments of fluvial GHG emissions. Overall, the annual emission from anthropogenic-influenced streams in CO2 equivalents was up to 20 times higher (∼ 71 kg CO2 m−2 yr−1) than from natural streams (∼ 3 kg CO2 m−2 yr−1), with CO2 accounting for up to 81 % of these annual emissions, while N2O and CH4 accounted for up to 18 % and 7 %, respectively. The positive influence of anthropogenic activities on fluvial GHG emissions also resulted in a breakdown of the expected declining trends of fluvial GHG emissions with stream size. Therefore, future studies should focus on anthropogenically perturbed streams, as their GHG emissions are much more variable in space and time and can potentially introduce the largest uncertainties to fluvial GHG estimates.
Phase I study evaluating the Fc-optimized FLT3 antibody FLYSYN in AML patients with measurable residual disease
2023-08-17

Abstract Background About half of AML patients achieving complete remission (CR) display measurable residual disease (MRD) and eventually relapse. FLYSYN is an Fc-optimized antibody for eradication of MRD directed to FLT3/CD135, which is abundantly expressed on AML cells. Methods This first-in-human, open-label, single-arm, multicenter trial included AML patients in CR with persisting or increasing MRD and evaluated safety/tolerability, pharmacokinetics and preliminary efficacy of FLYSYN at different dose levels administered intravenously (cohort 1–5: single dose of 0.5 mg/m 2 , 1.5 mg/m 2 , 5 mg/m 2 , 15 mg/m 2 , 45 mg/m 2 ; cohort 6: 15 mg/m 2 on day 1, 15 and 29). Three patients were treated per cohort except for cohorts 4 and 6, which were expanded to nine and ten patients, respectively. Primary objective was safety, and secondary efficacy objective was ≥ 1 log MRD reduction or negativity in bone marrow. Results Overall, 31 patients were treated, of whom seven patients (22.6%) experienced a transient decrease in neutrophil count (two grade 3, others ≤ grade 2). No infusion-related reaction or dose-limiting toxicity was observed. Adverse events (AEs) were mostly mild to moderate, with the most frequent AEs being hematologic events and laboratory abnormalities. Response per predefined criteria was documented in 35% of patients, and two patients maintained MRD negativity until end of study. Application of 45 mg/m 2 FLYSYN as single or cumulative dose achieved objective responses in 46% of patients, whereas 28% responded at lower doses. Conclusions FLYSYN monotherapy is safe and well-tolerated in AML patients with MRD. Early efficacy data are promising and warrant further evaluation in an up-coming phase II trial. Trial registration This clinical is registered on clinicaltrials.gov (NCT02789254).
MRI‐based torsion measurement of the lower limb is a reliable and valid alternative for CT measurement: a prospective study
2023-08-17

Abstract Purpose The aim of this study was to compare MRI‐based torsion measurements of the lower limb to a well‐established CT‐based assessment in a prospective inter‐ and intraindividual approach. Methods A total of 26 patients (age 28.8 years ± 11.0) were enrolled beginning in January 2021 until August 2022. Inclusion criteria were the clinical indication for torsion measurement of the lower limb. CT and MRI imaging were performed with a standard operating procedure, to ensure that all patients were examined in a standardized position. The examinations were planned on a coronal scout view based on prominent anatomical landmarks. Femoral and tibial torsion were measured individually. Torsion measurements were analysed twice: immediately after examination and after 3 weeks. Subsequently, intra‐rater and parallel test reliability was calculated accordingly. Results High significant results for CT and MRI measurements for both tibia (MRI: r = 0.961; p ≤ 0.001; CT: r = 0.963; p ≤ 0.001) and femur (MRI: r = 0.980; p ≤ 0.001; CT: r = 0.979; p ≤ 0.001) were obtained by calculated intra‐rater reliability, showing that measurements were highly consistent for MRI and CT, respectively. Parallel test reliability for time point 1 as well as time point 2 was also highly significant and ranged from r = 0.947 to r = 0.972 (all with p ≤ 0.001, respectively) for both tibia and femur, showing a high concordance between the two measurements. Conclusion Measurement of tibial as well as femoral torsion was comparable for CT and MRI measurement. Therefore, this study supports MRI measurement as an equivalent alternative for CT measurement concerning torsional malalignment to reduce exposure to radiation. Level of evidence Level II.
Oases in the Sahara Desert–Linking biological and cultural diversity
2023-08-17

The diversity of life sensu lato comprises both biological and cultural diversity, described as “biocultural diversity.” Similar to plant and animal species, cultures and languages are threatened by extinction. Since drylands are pivotal systems for nature and people alike, we use oases in the Sahara Desert as model systems for examining spatial patterns and trends of biocultural diversity. We identify both the underlying drivers of biodiversity and the potential proxies that are fundamental for understanding reciprocal linkages between biological and cultural diversity in oases. Using oases in Algeria as an example we test current indices describing and quantifying biocultural diversity and identify their limitations. Finally, we discuss follow-up research questions to better understand the underlying mechanisms that control the coupling and decoupling of biological and cultural diversity in oases.
Plasma Soluble Glycoprotein VI, Platelet Function, Bleeding, and Ischemic Events in Patients Undergoing Elective Percutaneous Coronary Intervention
2023-08-17

Background and Aims Glycoprotein VI (GPVI) is the major platelet-specific collagen receptor. GPVI shedding with generation of soluble GPVI (sGPVI) is an endogenous feedback mechanism preventing platelet overstimulation. sGPVI has not been investigated in patients with chronic coronary syndrome (CCS) undergoing percutaneous coronary intervention (PCI), especially regarding its potential value as a predictor of ischemic and bleeding risk. Methods Baseline plasma sGPVI levels were available in 318 patients with CCS undergoing PCI. Platelet function was assessed by measuring both adenosine diphosphate (ADP) and collagen-induced platelet aggregation. Co-primary endpoints were a composite of death or myocardial injury at 48 hours after PCI, and Bleeding Academic Research Consortium (BARC) type 1 to 5 bleeding at 30 days. Results There was no significant correlation between sGPVI and platelet function at baseline or at 48 hours after PCI and loading with antiplatelet drugs. Baseline plasma sGPVI levels were not associated with the ischemic risk: the incidence of the ischemic endpoint was 25.0% in the lower, 22.9% in the middle, and 26.7% in the upper sGPVI tertile (p = 0.82). There was a significant nonlinear relationship between sGPVI and the risk of bleeding: the incidence of the bleeding endpoint was 11.8% in the lower, 12.6% in the middle, and 26.4% in the upper sGPVI tertile (p = 0.006). Conclusion In patients with CCS undergoing PCI, plasma levels of sGPVI did not correlate with ADP- or collagen-induced platelet aggregation. Patients with higher baseline levels of sGPVI may carry an increased risk of bleeding at 30 days after PCI but no excess risk of ischemic events.
Altered brain network organization in adults with Asperger's syndrome: decreased connectome transitivity and assortativity with increased global efficiency
2023-08-17

Introduction Autism spectrum disorder (ASD) is a neurodevelopmental disorder that persists into adulthood with both social and cognitive disturbances. Asperger's syndrome (AS) was a distinguished subcategory of autism in the DSM-IV-TR defined by specific symptoms including difficulties in social interactions, inflexible thinking patterns, and repetitive behaviour without any delay in language or cognitive development. Studying the functional brain organization of individuals with these specific symptoms may help to better understand Autism spectrum symptoms. Methods The aim of this study is therefore to investigate functional connectivity as well as functional network organization characteristics using graph-theory measures of the whole brain in male adults with AS compared to healthy controls (HC) (AS: n = 15, age range 21–55 (mean ± sd: 39.5 ± 11.6), HC: n = 15, age range 22–57 [mean ± sd: 33.5 ± 8.5]). Results No significant differences were found when comparing the region-by-region connectivity at the whole-brain level between the AS group and HC. However, measures of “transitivity,” which reflect local information processing and functional segregation, and “assortativity,” indicating network resilience, were reduced in the AS group compared to HC. On the other hand, global efficiency, which represents the overall effectiveness and speed of information transfer across the entire brain network, was increased in the AS group. Discussion Our findings suggest that individuals with AS may have alterations in the organization and functioning of brain networks, which could contribute to the distinctive cognitive and behavioural features associated with this condition. We suggest further research to explore the association between these altered functional patterns in brain networks and specific behavioral traits observed in individuals with AS, which could provide valuable insights into the underlying mechanisms of its symptomatology.
S3-CIMA: Supervised spatial single-cell image analysis for identifying disease-associated cell-type compositions in tissue
2023-08-17

The spatial organization of various cell types within the tissue microenvironment is a key element for the formation of physiological and pathological processes, including cancer and autoimmune diseases. Here, we present S<sup>3</sup>-CIMA, a weakly supervised convolutional neural network model that enables the detection of disease-specific microenvironment compositions from high-dimensional proteomic imaging data. We demonstrate the utility of this approach by determining cancer outcome- and cellular-signaling-specific spatial cell-state compositions in highly multiplexed fluorescence microscopy data of the tumor microenvironment in colorectal cancer. Moreover, we use S<sup>3</sup>-CIMA to identify disease-onset-specific changes of the pancreatic tissue microenvironment in type 1 diabetes using imaging mass-cytometry data. We evaluated S<sup>3</sup>-CIMA as a powerful tool to discover novel disease-associated spatial cellular interactions from currently available and future spatial biology datasets.
Conditions and mechanisms of trust within boards of voluntary sport governing bodies
2023-08-17

Trust is considered beneficial for team work, as, for example, in boards of sport governing bodies (SGBs). However, strong trust within teams can also limit creativity and encourage corruption. Dealing adequately with trust, hence, seems to be a challenge for organisations and decision-makers involved. To better understand the complex phenomenon of trust in the SGB board context, the study examines the conditions and underlying mechanisms of trust within SGB boards. Referring to systems theory and the social function of trust, the empirical design of the study follows a constructivist approach. To ensure indepth insights into the multifaceted issues of trust, the study comprises data from organisational documents and semi-structured interviews with 16 volunteer board members of German state-level SGBs. The data was analysed by content analysis according to Mayring (2015). Findings indicate low reliability of decision-making structures, with personal trust serving as a functional equivalent to the weak formal regulations set out by the organisations. In this respect, system trust seems to be based on a common sense of mutual personal trust on the board. The findings also highlight trust-relevant conditions and mechanisms of trust and reveal how these affect the functioning of the board. By demonstrating the functionality of trust for establishing reliable expectations within boards of voluntary SGBs, the paper complements the literature on good governance, leadership, and voluntary engagement in sport organisations.
First implementation of a new cross-disciplinary observation strategy for heavy precipitation events from formation to flooding
2023-08-17

Abstract Heavy Precipitation Events (HPE) are the result of enormous quantities of water vapor being transported to a limited area. HPE rainfall rates and volumes cannot be fully stored on and below the land surface, often leading to floods with short forecast lead times that may cause damage to humans, properties, and infrastructure. Toward an improved scientific understanding of the entire process chain from HPE formation to flooding at the catchment scale, we propose an elaborated event-triggered observation concept. It combines flexible mobile observing systems out of the fields of meteorology, hydrology and geophysics with stationary networks to capture atmospheric transport processes, heterogeneous precipitation patterns, land surface and subsurface storage processes, and runoff dynamics. As part of the Helmholtz Research Infrastructure MOSES (Modular Observation Solutions for Earth Systems), the effectiveness of our observation strategy is illustrated by its initial implementation in the Mueglitz river basin (210 km 2 ), a headwater catchment of the Elbe in the Eastern Ore Mountains with historical and recent extreme flood events. Punctual radiosonde observations combined with continuous microwave radiometer measurements and back trajectory calculations deliver information about the moisture sources, and initiation and development of HPE. X-band radar observations calibrated by ground-based disdrometers and rain gauges deliver precipitation information with high spatial resolution. Runoff measurements in small sub-catchments complement the discharge time series of the operational network of gauging stations. Closing the catchment water balance at the HPE scale, however, is still challenging. While evapotranspiration is of less importance when studying short-term convective HPE, information on the spatial distribution and on temporal variations of soil moisture and total water storage by stationary and roving cosmic ray measurements and by hybrid terrestrial gravimetry offer prospects for improved quantification of the storage term of the water balance equation. Overall, the cross-disciplinary observation strategy presented here opens up new ways toward an integrative and scale-bridging understanding of event dynamics.