bluuebunny/crossref_metadata_2025_split huggingface dataset:
Proteomic Analysis Reveals Novel Plasma Biomarkers for Neurological Complications in Patients With Congenital Cytomegalovirus Infection
Authors: Yamaguchi Makoto , Suzuki Takako , Kidokoro Hiroyuki , Iwata Ken-ichi , Fukuda Yuto , Haruta Kazunori , Torii Yuka , Ito Yoshinori , Kawada Jun-ichi 
Published: September 2023

Abstract

Background
Congenital cytomegalovirus (cCMV) infection is a leading cause of nonhereditary neurological complications. When considering antiviral treatment, it is important to differentiate between symptomatic and asymptomatic patients. This study aimed to identify candidate plasma biomarkers for neurological complications of cCMV infection using proteomic analysis.

Methods
This study retrospectively enrolled five patients with symptomatic cCMV infection, four with asymptomatic cCMV infection with isolated sensorineural hearing loss (SNHL), and five with asymptomatic cCMV infection. The plasma samples were collected during neonatal period. The peptides were analyzed using liquid chromatography–mass spectrometry. The concentrations of differentially expressed proteins were validated using an enzyme-linked immunosorbent assay.

Results
A total of 456 proteins were identified and quantified. The levels of 80 proteins were significantly different between patients with and without cCMV-related symptoms including isolated SNHL. The levels of 31 proteins were significantly different between patients with and without neuroimaging abnormalities. The plasma concentrations of Fms-related receptor tyrosine kinase 4 in patients with cCMV-related symptoms were significantly higher than those in patients with asymptomatic cCMV infection. Moreover, plasma peptidylprolyl isomerase A levels were significantly higher in patients with neuroimaging abnormalities than in those without.

Conclusions
Proteomic analysis of patients with cCMV infection showed that Fms-related receptor tyrosine kinase 4 and peptidylprolyl isomerase A could be novel diagnostic biomarkers for neurological complications of cCMV infection.
Rare case of pediatric trauma with hepatic injury managed using gel-foam embolization: a case report
Authors: Rana Asama , O’Toole James , Hooda Zamaan , Veltri John , Kiselak Elizabeth , Rebein Benjamin 
Published: September 2023

Abstract
Nonoperative management for hepatic injuries requires observation and supportive care in the case of hemodynamically stable patients. If there is active bleeding on presentation, hepatic artery embolization is an option to achieve hemostasis in the acute setting. Although interventional radiology procedures are well documented in adults, there is limited literature regarding these procedures in the pediatric population. In this report, we present a case of a pediatric patient who sustained blunt abdominal trauma, resulting in a grade IV liver injury. Treatment involved fluoroscopically guided right hepatic segmental arterial gel-foam embolization.
Operative challenges in a gigantic ganglioneuroma of the posterior mediastinum with mediastinal compression
Authors: Amir Muhammad Abid , Isahak Mohamed Izzad , Adnan Isqandar , Dimon Mohd Zamrin 
Published: September 2023

Abstract
Symptomatic giant ganglioneuromas with mediastinal compression are rare, complicating its management with significant morbidity and mortality risks. A meticulous multidisciplinary preoperative planning is pivotal in ensuring success. We describe a case of a 30-year-old man with a giant posterior mediastinal mass with compression and displacement of the mediastinal structures. Biopsy confirmed a ganglioneuroma and patient underwent excision. Surgery was challenging in view of the size and adherence to the local structures. Haemodynamic instabilities were encountered necessitating a pre-emptive femoral-femoral cannulation for CPB. A piece-meal debulking of the tumour was performed, complicated with massive haemorrhage requiring autologous blood transfusion using an intraoperative blood salvage device. The patient recovered and was discharged home well at Day 8. A thorough pre-operative planning involving a multidisciplinary approach, an understanding of the surgical anatomy as well as anticipating impending complications is of paramount importance in the management of this particular case.
Diversity and epidemiological profile ofPseudomonas aeruginosafrom drinking water in Brazil genotyped using multi-locus sequence typing
Authors: Costa Paula Vasconcelos , Nascimento Janaína dos Santos , Forsythe Stephen James , Brandão Marcelo Luiz Lima 
Published: September 2023

AbstractPseudomonas aeruginosa is a Gram-negative bacillus associated with waterborne diseases. The objective of this study was to determine whether particular P. aeruginosa sequence types (STs) were associated with drinking water contamination in Brazil. This was achieved by searching the Pseudomonas PubMLST database, which contains the records for 8358 strains collected between 1938 and 2023. The majority (97.2%) had the complete 7-loci multilocus sequence typing profile and were assigned to 3486 STs. After eBURST (an algorithm used to infer patterns of evolutionary descent among clusters), 1219 groups with single-locus variant and 575 groups with double-locus variant were formed. Brazil was the South American country with the most isolates (n = 219, 58.24%), and the Simpson’s index was 0.9392. Of the 219 Brazilian isolates, eight were isolated in water and identified as STs 252, 1417, 1605, 2502, 2620, 3078, and 3312. ST252, 1417, and 3078 have already been isolated from clinical cases worldwide. Furthermore, ST1605 and 2620, after the eBURST, they were grouped in the same clonal complex as STs involved in human infections. In conclusion, P. aeruginosa STs involved in human infections were found in bottled drinking water commercialized in Brazil, revealing that these types of drinking waters can be a vehicle of contamination.
Pope and the Blounts: Books Formerly at Mapledurham House
Authors: Hone Joseph 
Published: September 2023

Abstract
This essay reconstructs a collection of books given by Alexander Pope to the Blount family of Mapledurham in Oxfordshire. The collection includes both books that were presented by the author to the Blounts and also books from his personal library that were bequeathed to Martha Blount in his will. In 1951 more than thirty of the most important books in the collection were sold to the firm of William H. Robinson Ltd. and subsequently dispersed. This essay traces those books and provides their present locations in a finding list. Paying close attention to these books reveals the degree to which Pope was interested not only in the printed form of his writings, but also in their broader bibliographical presentation.
On the relative importance of shocks and self-gravity in modifying tidal disruption event debris streams
Authors: Fancher Julia , Coughlin Eric R , Nixon C J 
Published: September 2023

ABSTRACT
In a tidal disruption event (TDE), a star is destroyed by the gravitational field of a supermassive black hole (SMBH) to produce a stream of debris, some of which accretes onto the SMBH and creates a luminous flare. The distribution of mass along the stream has a direct impact on the accretion rate, and thus modelling the time-dependent evolution of this distribution provides insight into the relevant physical processes that drive the observable properties of TDEs. Analytic models that only account for the ballistic evolution of the debris do not capture salient and time-dependent features of the mass distribution, suggesting that fluid dynamical effects significantly modify the debris dynamics. Previous investigations have claimed that shocks are primarily responsible for these modifications, but here we show – with high-resolution hydrodynamical simulations – that self-gravity is the dominant physical mechanism responsible for the anomalous (i.e. not predicted by ballistic models) debris stream features and its time dependence. These high-resolution simulations also show that there is a specific length-scale on which self-gravity modifies the debris mass distribution, and as such there is enhanced power in specific Fourier modes. Our results have implications for the stability of the debris stream under the influence of self-gravity, particularly at late times and the corresponding observational signatures of TDEs.
An accretion disc with magnetic outflows triggered by a sudden mass accretion event in changing-look active galactic nucleus 1ES 1927+654
Authors: Cao Xinwu , You Bei , Wei Xing 
Published: September 2023

ABSTRACT
1ES 1927+654 was known as a type 2 Seyfert galaxy, which exhibited drastic variability recently in ultraviolet (UV)/optical and X-ray bands. An UV/optical outburst was observed in the end of 2017, and it reached the peak luminosity ∼50 d later. The high-cadence observations showed a rapid X-ray flux decline with complete disappearance of the power-law hard X-ray component when the soft X-ray thermal emission reached its lowest level about 150 d after the UV/optical peak. The power-law X-ray component reappeared with thermal X-ray emission brightening from its lowest flux within next ∼100 d. We assume an episodic accretion event taking place in the outer region of the disc surrounding a central black hole (BH), which is probably due to a red giant star tidally disrupted by the BH. The inner thin disc with corona is completely swept by the accretion event when the gas reaches the innermost circular stable orbit. The field threading the disrupted star is dragged inwards by the disc formed after the tidal disruption event, which accelerates outflows from the disc. The disc dimmed since a large fraction of the energy released in the disc is tapped into the outflows. The accretion rate of the episodic accretion event declines, and ultimately, it turns out to be a thin disc, which is inefficient for field advection, and the outflows are switched off. A thin disc with corona reappears later after the outburst.
Evolutionary Analyses of Gene Expression Divergence in Panicum hallii: Exploring Constitutive and Plastic Responses Using Reciprocal Transplants
Authors: Bhaskara Govinal Badiger , Haque Taslima , Bonnette Jason E , Napier Joseph D , Bauer Diane , Schmutz Jeremy , Juenger Thomas E 
Published: September 2023

Abstract
The evolution of gene expression is thought to be an important mechanism of local adaptation and ecological speciation. Gene expression divergence occurs through the evolution of cis- polymorphisms and through more widespread effects driven by trans-regulatory factors. Here, we explore expression and sequence divergence in a large sample of Panicum hallii accessions encompassing the species range using a reciprocal transplantation experiment. We observed widespread genotype and transplant site drivers of expression divergence, with a limited number of genes exhibiting genotype-by-site interactions. We used a modified FST–QST outlier approach (QPC analysis) to detect local adaptation. We identified 514 genes with constitutive expression divergence above and beyond the levels expected under neutral processes. However, no plastic expression responses met our multiple testing correction as QPC outliers. Constitutive QPC outlier genes were involved in a number of developmental processes and responses to abiotic environments. Leveraging earlier expression quantitative trait loci results, we found a strong enrichment of expression divergence, including for QPC outliers, in genes previously identified with cis and cis–environment interactions but found no patterns related to trans-factors. Population genetic analyses detected elevated sequence divergence of promoters and coding sequence of constitutive expression outliers but little evidence for positive selection on these proteins. Our results are consistent with a hypothesis of cis-regulatory divergence as a primary driver of expression divergence in P. hallii.
Bi-directional nucleosome sliding by the Chd1 chromatin remodeler integrates intrinsic sequence-dependent and ATP-dependent nucleosome positioning
Authors: Park Sangwoo , Brandani Giovanni B , Ha Taekjip , Bowman Gregory D 
Published: September 2023

Abstract
Chromatin remodelers use a helicase-type ATPase motor to shift DNA around the histone core. Although not directly reading out the DNA sequence, some chromatin remodelers exhibit a sequence-dependent bias in nucleosome positioning, which presumably reflects properties of the DNA duplex. Here, we show how nucleosome positioning by the Chd1 remodeler is influenced by local DNA perturbations throughout the nucleosome footprint. Using site-specific DNA cleavage coupled with next-generation sequencing, we show that nucleosomes shifted by Chd1 can preferentially localize DNA perturbations – poly(dA:dT) tracts, DNA mismatches, and single-nucleotide insertions – about a helical turn outside the Chd1 motor domain binding site, super helix location 2 (SHL2). This phenomenon occurs with both the Widom 601 positioning sequence and the natural +1 nucleosome sequence from the Saccharomyces cerevisiae SWH1 gene. Our modeling indicates that localization of DNA perturbations about a helical turn outward from SHL2 results from back-and-forth sliding due to remodeler action on both sides of the nucleosome. Our results also show that barrier effects from DNA perturbations can be extended by the strong phasing of nucleosome positioning sequences.
INHAT subunit SET/TAF-Iβ regulates PRC1-independent H2AK119 mono-ubiquitination via E3 ligase MIB1 in colon cancer
Authors: Park Junyoung , Kim Ji-Young , Park Jin Woo , Kang Joo Young , Oh Hyein , Hahm Ja Young , Chae Yun-Cheol , Chakravarti Debabrata , Seo Sang Beom 
Published: September 2023

Abstract
SET/TAF-Iβ, a subunit of the inhibitor of acetyltransferases (INHAT) complex, exhibits transcriptional repression activity by inhibiting histone acetylation. We find that SET/TAF-Iβ regulates mono-ubiquitination of histone H2A at lysine 119 (H2AK119ub), which is involved in polycomb-mediated transcriptional repression, in HCT116 cells. In this report, we demonstrate that SET/TAF-Iβ acts as an E2 ubiquitin-conjugating enzyme for PRC1-independent H2AK119ub. Furthermore, we identify that MIB1 is the E3 ligase partner for SET/TAF-Iβ using LC-MS/MS and in vitro ubiquitination assays. Transcriptome analysis reveals that SET/TAF-Iβ and MIB1 regulate the expression of genes related to DNA replication and cell cycle progression in HCT116 cells, and knockdown of either protein reduces proliferation of HCT116 cells by impeding cell cycle progression. Together, our study reveals a novel PRC1-independent epigenetic regulatory mechanism for H2AK119ub by SET/TAF-Iβ and MIB1 in colon cancer.
Genetic and environmental factors driving congenital solitary functioning kidney
Authors: Groen in ‘t Woud Sander , van Gelder Marleen M H J , van Rooij Iris A L M , Feitz Wout F J , Roeleveld Nel , Schreuder Michiel F , van der Zanden Loes F M ,   for the SOFIA study group, van Wijk J A E , Westland R , Renkema K Y , Lilien M R , Keijzer-Veen M G , Kloosterman F J , Steffens M G , Gracchi V , Zegers B , Jira P E , van der Deure H , van Rooij R W G , Wijnands-van den Berg E , Breukels M , de Pont S M H B , Harnisch E , van Dael C M L , Creemers D , de Moor R , Konijnenberg A Y , Knots E , van der Kuur E C , Jacobs M J , Koppejan-Stapel M , Pijning A , Dorresteijn E , Leunissen R W J , Rijlaarsdam R , del Canho R , Semmekrot B , Dings-Lammertink A , Nijhuis I J M , van Ledden-Klok M J , van den Broek L M , Jansen C Meine , Beeren M C G , Blokland-Loggers H E , Dorrepaal C , Pierik L J W M , Tanja A L 
Published: September 2023

ABSTRACT

Background
Congenital solitary functioning kidney (CSFK) is an anomaly predisposing to hypertension, albuminuria and chronic kidney disease. Its aetiology is complex and includes genetic and environmental factors. The role of gene–environment interactions (G×E), although relevant for other congenital anomalies, has not yet been investigated. Therefore, we performed a genome-wide G×E analysis with six preselected environmental factors to explore the role of these interactions in the aetiology of CSFK.

Methods
In the AGORA (Aetiologic research into Genetic and Occupational/environmental Risk factors for Anomalies in children) data- and biobank, genome-wide single-nucleotide variant (SNV) data and questionnaire data on prenatal exposure to environmental risk factors were available for 381 CSFK patients and 598 healthy controls. Using a two-step strategy, we first selected independent significant SNVs associated with one of the six environmental risk factors. These SNVs were subsequently tested in G×E analyses using logistic regression models, with Bonferroni-corrected P-value thresholds based on the number of SNVs selected in step one.

Results
In step one, 7–40 SNVs were selected per environmental factor, of which only rs3098698 reached statistical significance (P = .0016, Bonferroni-corrected threshold 0.0045) for interaction in step two. The interaction between maternal overweight and this SNV, which results in lower expression of the Arylsulfatase B (ARSB) gene, could be explained by lower insulin receptor activity in children heterozygous for rs3098698. Eight other G×E interactions had a P-value &lt;.05, of which two were biologically plausible and warrant further study.

Conclusions
Interactions between genetic and environmental factors may contribute to the aetiology of CSFK. To better determine their role, large studies combining data on genetic and environmental risk factors are warranted.
Effectiveness of combined dorsal root ganglion and spinal cord stimulation: a retrospective, single-centre case series for chronic focal neuropathic pain
Authors: Mullins Cormac F , Palumbo Gaetano Joseph , Harris Stephany , Al-Kaisy Omar , Wesley Sam , Yearwood Thomas , Al-Kaisy Adnan 
Published: September 2023

Abstract

Objective
This case series retrospectively reviewed the outcomes in patients implanted with combined, synchronous dorsal root ganglion stimulation (DRGS) and spinal cord stimulation (SCS) connected to a single implantable pulse generator (IPG) in a tertiary referral neuromodulation centre in the United Kingdom.

Methods
Twenty-six patients underwent a trial of DRGS+SCS for treating focal neuropathic pain between January 2016 and December 2019, with a follow-up in February 2022. A Transgrade approach was employed for DRGS. Patients were provided with 3 possible stimulation programs: DRGS-only, SCS-only, or DRGS+SCS. Patients were assessed for pain intensity, patients’ global impression of change (PGIC), preferred lead(s) and complications.

Results
Twenty patients were successful and went on for full implantation. The most common diagnosis was Complex Regional Pain Syndrome. After an average of 3.1 years follow-up, 1 patient was lost to follow-up, and 2 were non-responders. Of the remaining 17 patients, 16 (94%) continued to report a PGIC of 7. The average pain intensity at Baseline was 8.5 on an NRS scale of 0–10. At the last follow-up, the average NRS reduction overall was 78.9% with no statistical difference between those preferring DRGS+SCS (n = 9), SCS-only (n = 3) and DRGS-only (n = 5). The combination of DRGS+SCS was preferred by 53% at the last follow-up. There were no serious neurological complications.

Conclusions
This retrospective case series demonstrates the potential effectiveness of combined DRGS+SCS with sustained analgesia observed at an average follow-up of over 3 years. Implanting combined DRGS+SCS may provide programming flexibility and therapeutic alternatives.
Virtual group psychotherapy for chronic pain: exploring the impact of the virtual medium on participants’ experiences
Authors: Moore Emily , Paré Catherine , Carde Estelle , Pagé M Gabrielle 
Published: September 2023

Abstract

Background
Virtual psychotherapy for chronic pain (CP) has been shown to be feasible, efficacious, and acceptable; however, little is known about how virtual delivery of group psychotherapy affects participants’ experiences. This study aimed to explore the impact of a virtual medium during the coronavirus disease 2019 (COVID-19) pandemic on social interactions and therapeutic processes in the context of group psychotherapy for CP management.

Methods
This qualitative, interview-based study collected data on 18 individuals who participated in virtual group psychotherapy in a tertiary care pain management unit.

Results
Results of the thematic analysis showed 4 themes. First, the ability to participate and connect was modified by not meeting in person. Connections also occurred differently as the usual patterns of interactions changed. Participants described important shifts in how emotions are communicated and subsequent experience of empathy. Finally, the commonality of chronic pain experience was identified as a central driver of connection between participants.

Conclusions
Mixed impacts of the virtual medium on group psychotherapy dynamics and processes were found. Future research could explore ways to mitigate the negative impacts.
Margaret Macdonald on the Argument from Dreaming
Authors: Spinney Oliver Thomas 
Published: September 2023

Abstract
In this article, I offer a detailed examination of Margaret Macdonald's response to the Cartesian sceptical argument from dreaming. I show that Macdonald's views were not well understood by her contemporaries, and I suggest that this misunderstanding has led to her omission from subsequent discussions of this subject. I end with a brief demonstration of the fact that Macdonald's central claims have re-emerged in contemporary epistemology.
Second and third TNF inhibitors in European patients with axial spondyloarthritis: effectiveness and impact of the reason for switching
Authors: Linde Louise , Ørnbjerg Lykke Midtbøll , Heegaard Brahe Cecilie , Wallman Johan Karlsson , Di Giuseppe Daniela , Závada Jakub , Castrejon Isabel , Díaz-Gonzalez Federico , Rotar Ziga , Tomšič Matija , Glintborg Bente , Gudbjornsson Bjorn , Geirsson Arni Jon , Michelsen Brigitte , Kristianslund Eirik Klami , Santos Maria José , Barcelos Anabela , Nordström Dan , Eklund Kari K , Ciurea Adrian , Nissen Michael , Akar Servet , Hejl Hyldstrup Lise , Krogh Niels Steen , Hetland Merete Lund , Østergaard Mikkel 
Published: September 2023

Abstract

Objective
To investigate real-world effectiveness of tumor necrosis factor inhibitors (TNFi) in patients with axial spondyloarthritis (axSpA) and the association with (i) treatment line (second and third TNFi-series) and (ii) reason for withdrawal from the preceding TNFi [lack of efficacy (LOE) vs adverse events (AE)].

Methods
Prospectively collected routine care data from 12 European registries were pooled. Rates for 12-month drug retention and 6-month remission [Ankylosing Spondylitis Disease Activity Score C-reactive protein inactive disease (ASDAS-ID)] were assessed in second and third TNFi-series and stratified by withdrawal reason.

Results
We included 8254 s and 2939 third TNFi-series; 12-month drug retention rates were similar (71%). Six-month ASDAS-ID rates were higher for the second (23%) than third TNFi (16%). Twelve-month drug retention rates for patients withdrawing from the preceding TNFi due to AE vs LOE were similar for the second (68% and 67%) and third TNFi (both 68%), while for the second TNFi, rates were lower in primary than secondary non-responders (LOE &lt;26 vs ≥26 weeks) (58% vs 71%, P &lt; 0.001). Six-month ASDAS-ID rates for the second TNFi were higher if the withdrawal reason was AE (27%) vs LOE (17%), P &lt; 0.001, while similar for the third TNFi (19% vs 13%, P = 0.20).

Conclusion
A similar proportion of axSpA patients remained on a second and third TNFi after one year, but with low remission rates for the third TNFi. Remission rates on the second TNFi (but not the third) were higher if the withdrawal reason from the preceding TNFi was AE vs LOE.