bluuebunny/crossref_metadata_2025_split huggingface dataset:
Systemic host inflammation induces stage-specific transcriptomic modification and slower maturation in malaria parasites
Authors: Lansink Lianne I. M. , Skinner Oliver P. , Engel Jessica A. , Lee Hyun Jae , Soon Megan S. F. , Williams Cameron G. , SheelaNair Arya , Pernold Clara P. S. , Laohamonthonkul Pawat , Akter Jasmin , Stoll Thomas , Hill Michelle M. , Talman Arthur M. , Russell Andrew , Lawniczak Mara , Jia Xiaoxiao , Chua Brendon , Anderson Dovile , Creek Darren J. , Davenport Miles P. , Khoury David S. , Haque Ashraful 
Published: July 2023

ABSTRACT

Maturation rates of malaria parasites within red blood cells (RBCs) can be influenced by host nutrient status and circadian rhythm; whether host inflammatory responses can also influence maturation remains less clear. Here, we observed that systemic host inflammation induced in mice by an innate immune stimulus, lipopolysaccharide (LPS), or by ongoing acute
Plasmodium
infection, slowed the progression of a single cohort of parasites from one generation of RBC to the next. Importantly, plasma from LPS-conditioned or acutely infected mice directly inhibited parasite maturation during in vitro culture, which was not rescued by supplementation, suggesting the emergence of inhibitory factors in plasma. Metabolomic assessments confirmed substantial alterations to the plasma of LPS-conditioned and acutely infected mice, and identified a small number of candidate inhibitory metabolites. Finally, we confirmed rapid parasite responses to systemic host inflammation
in vivo
using parasite scRNA-seq, noting broad impairment in transcriptional activity and translational capacity specifically in trophozoites but not rings or schizonts. Thus, we provide evidence that systemic host inflammation rapidly triggered transcriptional alterations in circulating blood-stage Plasmodium trophozoites and predict candidate inhibitory metabolites in the plasma that may impair parasite maturation
in vivo
.

IMPORTANCE
Malaria parasites cyclically invade, multiply, and burst out of red blood cells. We found that a strong inflammatory response can cause changes to the composition of host plasma, which directly slows down parasite maturation. Thus, our work highlights a new mechanism that limits malaria parasite growth in the bloodstream.
Effectiveness of combined surgical and exercise-based interventions following primary traumatic anterior shoulder dislocation: a systematic review and meta-analysis
Authors: Chiddarwar Vaishnavi , de Zoete Rutger M J , Dickson Cameron , Lathlean Timothy 
Published: July 2023

ObjectiveTo investigate the effectiveness, risk of recurrence and return to activity (RTA) of surgery combined with exercise-based interventions (EBI) versus EBI alone after traumatic anterior shoulder dislocation (ASD).DesignSystematic review and meta-analysis.Data sourcesSystematic literature search (MEDLINE, Web of Science, Scopus, Google Scholar).EligibilityStudies focused on EBI or EBI as a part of postoperative care for adults with an ASD, written in English, and published after 1990. We excluded diagnostic, assessment-based studies on individuals experiencing recurrent shoulder dislocations, concomitant shoulder injury, animal or cadaveric studies. Primary outcomes were dislocation RTA. Secondary outcomes were self-reported outcome measures, strength and range of motion. Random-effects meta-analysis was used to estimate the effect of EBI (SMD; Hedges’ g, RR). The Grading of Recommendations Assessment, Development and Evaluation approach was used to assess the certainty of evidence.ResultsSixty studies were included (n=3598); seven were meta-analysed (n=345). The mean age of participants in the included studies was 26.71±9.19 and 56% of those included were male. Of the 60 studies included in the systematic review, 29 were fair quality (48.3%), 15 studies were good quality (25%) and 16 studies were poor quality (26.7%), (k=0.66). Individuals who underwent EBI alone were 2.03 times more likely to experience recurrent instability than individuals who underwent EBI in conjunction with surgery (RR 2.03, 95% CI 1.03 to 3.97). Individuals who underwent EBI with surgery appeared 1.81 times more likely to RTA than those who underwent EBI alone, although results were not statistically significant (RR 1.81, 95% CI 0.96 to 3.43).ConclusionsSurgery combined with EBI is more effective in reducing the risk of recurrence and possibly increasing RTA than EBI alone after traumatic ASD.
Views of voluntary, temporary out-of-home firearm storage among individuals living in a firearm-owning home: results from a qualitative study in two states
Authors: Barnard Leslie M , Knoepke Christopher E , McCarthy Megan , Rowhani-Rahbar Ali , Siry-Bove Bonnie J , Betz Marian E 
Published: July 2023

IntroductionFirearms account for the majority of suicide deaths in the USA. A recommended approach for suicide prevention is reducing access to firearms by temporarily removing them from the home. We sought to understand how firearm owners and those who reside with them view and might use voluntary, temporary out-of-home firearm storage.MethodsFrom July to November 2021, we interviewed English-speaking adults in Colorado and Washington who own firearms or reside with them, using semistructured interviews. We used a team-based mixed deductive and inductive approach to code transcripts and identify themes.ResultsHalf of the 38 interviewees were men (53%) aged 35–54 years (40%); 92% identified as white. The average age that participants reported first having a firearm was 20.4 years; 16% reported never owning a firearm themselves, only living in homes with firearms. Qualitative findings fell into broad themes: (1) storage with family members/friends, (2) concerns/challenges with storing a firearm with a business/organization, (3) importance of trust (4) outreach methods for out-of-home storage programmes.ConclusionProgrammes for voluntary, temporary out-of-home firearm storage will not be impactful unless such storage is desired and used. Understanding views of potential storage users can help support development of acceptable and feasible programmes.
Concentrated disadvantage and functional disability: a longitudinal neighbourhood analysis in 100 US cities
Authors: Semenza Daniel , Silver Ian , Stansfield Richard , Boen Courtney 
Published: July 2023

BackgroundSocioeconomic disadvantage related to poverty, unemployment and social disinvestment contributes to significant disparities in community health in the USA. Yet, there remains limited ecological research on the relationship between neighbourhood disadvantage and functional disability. Much of the work in this area has focused on elderly populations without attention to variation across age and sex groups.MethodsUsing a longitudinal dataset of almost 16 000 neighbourhoods, we examine the relationship between neighbourhood disadvantage and functional disability. Leveraging a series of cross-lagged panel models, we account for reciprocal dynamics and a range of pertinent covariates while assessing differences across age- and sex-specific groups.ResultsAccounting for reciprocal effects, we found that the association between concentrated disadvantage and functional disability varies across age and sex groups. Concentrated disadvantage is most consistently associated with increased functional disability among boys (5–17 years), young men (18–34 years) and middle-aged men (35–64 years). Similar associations are found among girls (5–17 years) and middle-aged women (35–64 years).ConclusionLocal neighbourhood economic conditions are significantly associated with functional disability among relatively young populations of males and females. Exposure to neighbourhood disadvantage and deprivation may accelerate disablement processes and shift the age curve of disability risk.
The structure of the $$\mathcal{N}=4$$ supersymmetric linear $$W_{\infty }[\lambda ]$$ algebra
Authors: Ahn Changhyun 
Published: July 2023

AbstractFor the vanishing deformation parameter $$\lambda $$
λ
, the full structure of the (anti)commutator relations in the $$\mathcal{N}=4$$

N
=
4

supersymmetric linear $$W_{\infty }[\lambda =0]$$

W
∞

[
λ
=
0
]

algebra is obtained for arbitrary weights $$h_1$$

h
1

and $$h_2$$

h
2

of the currents appearing on the left hand sides in these (anti)commutators. The $$w_{1+\infty }$$

w

1
+
∞

algebra can be seen from this by taking the vanishing limit of other deformation parameter q with the proper contractions of the currents. For the nonzero $$\lambda $$
λ
, the complete structure of the $$\mathcal{N}=4$$

N
=
4

supersymmetric linear $$W_{\infty }[\lambda ]$$

W
∞

[
λ
]

algebra is determined for the arbitrary weight $$h_1$$

h
1

together with the constraint $$h_1-3 \le h_2 \le h_1+1$$

h
1

-
3
≤

h
2

≤

h
1

+
1

. The additional structures on the right hand sides in the (anti)commutators, compared to the above $$\lambda =0$$

λ
=
0

case, arise for the arbitrary weights $$h_1$$

h
1

and $$h_2$$

h
2

where the weight $$h_2$$

h
2

is outside of above region.
Molecular data needs for advanced collisional-radiative modelling for hydrogen plasmas
Authors: Bergmayr R. C. , Wünderlich D. , Fantz U. 
Published: July 2023

AbstractPopulation models for molecular hydrogen (H2) are applicable in various fields of plasma physics and particularly in fusion research: they are necessary for the evaluation of plasma diagnostics (e.g. optical emission spectroscopy) or can be used to evaluate effective reaction rates for molecular processes (e.g. molecular-assisted recombination in divertor plasmas). The accuracy and completeness of population models for molecular hydrogen is strongly linked to the accuracy and availability of molecular reaction data. While there are recently huge improvements in the field of electron impact cross sections, the shortfalls regarding input data availability persist in the area of collisions between heavy particles and H2. An overview of the status of population models for H and H2 based on the Yacora solver is given. The data needs for collisional-radiative modelling are demonstrated by means of three examples comprising different detail levels, namely a purely electronic collisional-radiative model for the singlet system of H2, a corona model for the Fulcher-α band and a vibrationally resolved collisional-radiative model for the electronic ground state X1 of H2.

Graphical abstract
Fast Loosely-Timed Deep Neural Network Models with Accurate Memory Contention
Authors: Arasteh Emad M. , Dömer Rainer 
Published: July 2023

The emergence of data-intensive applications, such as Deep Neural Networks (DNN), exacerbates the well-known memory bottleneck in computer systems and demands early attention in the design flow. Electronic System-Level (ESL) design using SystemC Transaction Level Modeling (TLM) enables effective performance estimation, design space exploration (DSE), and gradual refinement. However, memory contention is often only detectable after detailed TLM-2.0 approximately-timed or cycle-accurate RTL models are developed. A memory bottleneck detected at such a late stage can severely limit the available design choices or even require costly redesign.
In this work, we propose a novel TLM-2.0 loosely-timed contention-aware (LT-CA) modeling style that offers high-speed simulation close to traditional loosely-timed (LT) models, yet shows the same accuracy for memory contention as low-level approximately-timed (AT) models. Thus, our proposed LT-CA modeling breaks the speed/accuracy tradeoff between regular LT and AT models and offers fast and accurate observation and visualization of memory contention.
Our extensible SystemC model generator automatically produces desired TLM-1 and TLM-2.0 models from a DNN architecture description for design space exploration focusing on memory contention. We demonstrate our approach with a real-world industry-strength DNN application, GoogLeNet. The experimental results show that the proposed LT-CA modeling is 46× faster in simulation than equivalent AT models with an average error of less than 1% in simulated time. Early detection of memory contentions also suggests that local memories close to computing cores can eliminate memory contention in such applications.
Poor Outcome in Postpartum Breast Cancer Patients Is Associated with Distinct Molecular and Immunologic Features
Authors: Lefrère Hanne , Moore Kat , Floris Giuseppe , Sanders Joyce , Seignette Iris M. , Bismeijer Tycho , Peters Dennis , Broeks Annegien , Hooijberg Erik , Van Calsteren Kristel , Neven Patrick , Warner Ellen , Peccatori Fedro Alessandro , Loibl Sibylle , Maggen Charlotte , Han Sileny N. , Jerzak Katarzyna J. , Annibali Daniela , Lambrechts Diether , de Visser Karin E. , Wessels Lodewyk , Lenaerts Liesbeth , Amant Frédéric 
Published: July 2023

AbstractPurpose:Patients with postpartum breast cancer diagnosed after cessation of breastfeeding (postweaning, PP-BCPW) have a particularly poor prognosis compared with patients diagnosed during lactation (PP-BCDL), or to pregnant (Pr-BC) and nulliparous (NP-BC) patients, regardless of standard prognostic characteristics. Animal studies point to a role of the involution process in stimulation of tumor growth in the mammary gland. However, in women, the molecular mechanisms that underlie this poor prognosis of patients with PP-BCPW remain vastly underexplored, due to of lack of adequate patient numbers and outcome data.Experimental Design:We explored whether distinct prognostic features, common to all breast cancer molecular subtypes, exist in postpartum tumor tissue. Using detailed breastfeeding data, we delineated the postweaning period in PP-BC as a surrogate for mammary gland involution and performed whole transcriptome sequencing, immunohistochemical, and (multiplex) immunofluorescent analyses on tumor tissue of patients with PP-BCPW, PP-BCDL, Pr-BC, and NP-BC.Results:We found that patients with PP-BCPW having a low expression level of an immunoglobulin gene signature, but high infiltration of plasma B cells, have an increased risk for metastasis and death. Although PP-BCPW tumor tissue was also characterized by an increase in CD8+ cytotoxic T cells and reduced distance among these cell types, these parameters were not associated with differential clinical outcomes among groups.Conclusions:These data point to the importance of plasma B cells in the postweaning mammary tumor microenvironment regarding the poor prognosis of PP-BCPW patients. Future prospective and in-depth research needs to further explore the role of B-cell immunobiology in this specific group of young patients with breast cancer.
Data from MHC Class II is Induced by IFNγ and Follows Three Distinct Patterns of Expression in Colorectal Cancer Organoids
Authors: Pickles Oliver J. , Wanigasooriya Kasun , Ptasinska Anetta , Patel Akshay J. , Robbins Helen L. , Bryer Claire , Whalley Celina M. , Tee Louise , Lal Neeraj , Pinna Claudia M.A. , Elzefzafy Nahla , Taniere Philippe , Beggs Andrew D. , Middleton Gary M. 
Published: July 2023

<div><p>Tumor-specific MHC class II (tsMHC-II) expression impacts tumor microenvironmental immunity. tsMHC-II positive cancer cells may act as surrogate antigen-presenting cells and targets for CD4<sup>+</sup> T cell–mediated lysis. In colorectal cancer, tsMHC-II negativity is common, in cell lines due to <i>CIITA</i> promoter methylation. To clarify mechanisms of tsMHC-II repression in colorectal cancer, we analyzed colorectal cancer organoids which are epigenetically faithful to tissue of origin. 15 primary colorectal cancer organoids were treated with IFNγ ± epigenetic modifiers: flow cytometry was used for tsMHC-II expression. qRT-PCR, total RNA sequencing, nanopore sequencing, bisulfite conversion/pyrosequencing, and Western blotting was used to quantitate CIITA, STAT1, IRF1, and JAK1 expression, mutations and promoter methylation and chromatin immunoprecipitation to quantitate H3K9ac, H3K9Me2, and EZH2 occupancy at <i>CIITA</i>.</p><p>We define three types of response to IFNγ in colorectal cancer: strong, weak, and noninducibility. Delayed and restricted expression even with prolonged IFNγ exposure was due to IFNγ-mediated EZH2 occupancy at <i>CIITA.</i> tsMHC-II expression was enhanced by EZH2 and histone deacetylase inhibition in the weakly inducible organoids. Noninducibility is seen in three consensus molecular subtype 1 (CMS1) organoids due to JAK1 mutation. No organoid demonstrates CIITA promoter methylation.</p><p>Providing IFNγ signaling is intact, most colorectal cancer organoids are class II inducible. Upregulation of tsMHC-II through targeted epigenetic therapy is seen in one of fifteen organoids. Our approach can serve as a blueprint for investigating the heterogeneity of specific epigenetic mechanisms of immune suppression across individual patients in other cancers and how these might be targeted to inform the conduct of future trials of epigenetic therapies as immune adjuvants more strategically in cancer.</p>Significance:<p>Cancer cell expression of MHC class II significantly impacts tumor microenvironmental immunity. Previous studies investigating mechanisms of repression of IFNγ-inducible class II expression using cell lines demonstrate epigenetic silencing of IFN pathway genes as a frequent immune evasion strategy. Unlike cell lines, patient-derived organoids maintain epigenetic fidelity to tissue of origin. In the first such study, we analyze patterns, dynamics, and epigenetic control of IFNγ-induced class II expression in a series of colorectal cancer organoids.</p></div>
101 anos de Darcy Ribeiro
Authors: Varjão João Victtor Gomes 
Published: July 2023

Em seu centenário, como uma forma de reconhecer e rememorar seu engajamento político, social e intelectual, a Revista Cadernos de Campo propôs o dossiê especial “O centenário de Darcy Ribeiro” organizado pelo editor João Victtor Gomes Varjão. Este dossiê tematiza sua obra, sua luta e seu engajamento político, bem como, sua influência decisiva ao pensamento social brasileiro contemporâneo. O objetivo central do dossiê foi o de apresentar e analisar a obra desse importante intelectual brasileiro, sem deixar de lado sua atuação política. Nesse sentido, junto com a Comissão e o Comitê Editorial da Revista Cadernos de Campo, propomos convites a antropólogos que possuem relações com Darcy Riberio – desde pesquisadores que trabalharam diretamente com o antropólogo a pesquisadores que debruçaram-se sobre sua obra. Foram convidados os antropólogos e as antropólogas André Borges de Mattos, Delcides Marques, Gisele Jacon de Araujo Moreira e Lux Vidal, que, em diferentes abordagens, apresentaram facetas de Darcy Riberio.
Prehospital Activation of the Cardiac Catheterization Laboratory in ST‐Segment–Elevation Myocardial Infarction for Primary Percutaneous Coronary Intervention
Authors: Savage Michael L. , Hay Karen , Vollbon William , Doan Tan , Murdoch Dale J. , Hammett Christopher , Poulter Rohan , Walters Darren L. , Denman Russell , Ranasinghe Isuru , Raffel Owen Christopher 
Published: July 2023

Background
Prehospital activation of the cardiac catheter laboratory is associated with significant improvements in ST‐segment–elevation myocardial infarction (STEMI) performance measures. However, there are equivocal data, particularly within Australia, regarding its influence on mortality. We assessed the association of prehospital activation on performance measures and mortality in patients with STEMI treated with primary percutaneous coronary intervention from the Queensland Cardiac Outcomes Registry (QCOR).

Methods and Results

Consecutive ambulance‐transported patients with STEMI treated with primary percutaneous coronary intervention were analyzed from January 1, 2017 to December 31, 2020 from the QCOR. The total and direct effects of prehospital activation on the primary outcomes (30‐day and 1‐year cardiovascular mortality) were estimated using logistic regression analyses. Secondary outcomes were STEMI performance measures. Among 2498 patients (mean age: 62.2±12.4 years; 79.2% male), 73% underwent prehospital activation. Median door‐to‐balloon time (34 minutes [26–46] versus 86 minutes [68–113];
P
<0.001), first‐electrocardiograph‐to‐balloon time (83.5 minutes [72–98] versus 109 minutes [81–139];
P
<0.001), and proportion of patients meeting STEMI targets (door‐to‐balloon <60 minutes 90% versus 16%;
P
<0.001), electrocardiograph‐to‐balloon time <90 minutes (62% versus 33%;
P
<0.001) were significantly improved with prehospital activation. Prehospital activation was associated with significantly lower 30‐day (1.6% versus 6.6%;
P
<0.001) and 1‐year cardiovascular mortality (2.9% versus 9.5%;
P
<0.001). After adjustment, no prehospital activation was strongly associated with increased 30‐day (odds ratio [OR], 3.6 [95% CI, 2.2–6.0],
P
<0.001) and 1‐year cardiovascular mortality (OR, 3.0 [95% CI, 2.0–4.6];
P
<0.001).

Conclusions
Prehospital activation of cardiac catheterization laboratory for primary percutaneous coronary intervention was associated with significantly shorter time to reperfusion, achievement of STEMI performance measures, and lower 30‐day and 1‐year cardiovascular mortality.
Role of ST‐Segment Resolution Alone and in Combination With TIMI Flow After Primary Percutaneous Coronary Intervention for ST‐Segment–Elevation Myocardial Infarction
Authors: Wu Chao , Gao Xiaojin , Li Ling , Jing Quanmin , Li Weimin , Xu Haiyan , Zhang Wenbo , Li Sidong , Zhao Yanyan , Wang Yang , Li Wei , Wu Yongjian , Hu Fenghuan , Jin Chen , Qiao Shubin , Yang Jingang , Yang Yuejin ,   the CAMI (China Acute Myocardial Infarction) Registry Study Group
Published: July 2023

Background
To evaluate the role of ST‐segment resolution (STR) alone and in combination with Thrombolysis in Myocardial Infarction (TIMI) flow in reperfusion evaluation after primary percutaneous coronary intervention (PPCI) for ST‐segment–elevation myocardial infarction by investigating the long‐term prognostic impact.

Methods and Results
From January 2013 through September 2014, we studied 5966 patients with ST‐segment–elevation myocardial infarction enrolled in the CAMI (China Acute Myocardial Infarction) registry with available data of STR evaluated at 120 minutes after PPCI. Successful STR included STR ≥50% and complete STR (ST‐segment back to the equipotential line). After PPCI, the TIMI flow was assessed. The primary outcome was 2‐year all‐cause mortality. STR < 50%, STR ≥50%, and complete STR occurred in 20.6%, 64.3%, and 15.1% of patients, respectively. By multivariable analysis, STR ≥50% (5.6%; adjusted hazard ratio [HR], 0.45 [95% CI, 0.36–0.56]) and complete STR (5.1%; adjusted HR, 0.48 [95% CI, 0.34–0.67]) were significantly associated with lower 2‐year mortality than STR <50% (11.7%). Successful STR was an independent predictor of 2‐year mortality across the spectrum of clinical variables. After combining TIMI flow with STR, different 2‐year mortality was observed in subgroups, with the lowest in successful STR and TIMI 3 flow, intermediate when either of these measures was reduced, and highest when both were abnormal.

Conclusions
Post‐PPCI STR is a robust long‐term prognosticator for ST‐segment–elevation myocardial infarction, whereas the integrated analysis of STR plus TIMI flow yields incremental prognostic information beyond either measure alone, supporting it as a convenient and reliable surrogate end point for defining successful PPCI.

Registration

URL:
https://www.clinicaltrials.gov
; Unique identifier: NCT01874691.