bluuebunny/crossref_metadata_2025_split huggingface dataset:
Meta-analysis of integrated ChIP-seq and transcriptome data revealed genomic regions affected by estrogen receptor alpha in breast cancer
Authors: Piryaei Zeynab , Salehi Zahra , Ebrahimie Esmaeil , Ebrahimi Mansour , Kavousi Kaveh 
Published: September 2023

Abstract
Background
The largest group of patients with breast cancer are estrogen receptor-positive (ER+) type. The estrogen receptor acts as a transcription factor and triggers cell proliferation and differentiation. Hence, investigating ER-DNA interaction genomic regions can help identify genes directly regulated by ER and understand the mechanism of ER action in cancer progression.

Methods
In the present study, we employed a workflow to do a meta-analysis of ChIP-seq data of ER+ cell lines stimulated with 10 nM and 100 nM of E2. All publicly available data sets were re-analyzed with the same platform. Then, the known and unknown batch effects were removed. Finally, the meta-analysis was performed to obtain meta-differentially bound sites in estrogen-treated MCF7 cell lines compared to vehicles (as control). Also, the meta-analysis results were compared with the results of T47D cell lines for more precision. Enrichment analyses were also employed to find the functional importance of common meta-differentially bound sites and associated genes among both cell lines.

Results
Remarkably, POU5F1B, ZNF662, ZNF442, KIN, ZNF410, and SGSM2 transcription factors were recognized in the meta-analysis but not in individual studies. Enrichment of the meta-differentially bound sites resulted in the candidacy of pathways not previously reported in breast cancer. PCGF2, HNF1B, and ZBED6 transcription factors were also predicted through the enrichment analysis of associated genes. In addition, comparing the meta-analysis results of both ChIP-seq and RNA-seq data showed that many transcription factors affected by ER were up-regulated.

Conclusion
The meta-analysis of ChIP-seq data of estrogen-treated MCF7 cell line leads to the identification of new binding sites of ER that have not been previously reported. Also, enrichment of the meta-differentially bound sites and their associated genes revealed new terms and pathways involved in the development of breast cancer which should be examined in future in vitro and in vivo studies.
Three-dimensional analysis of the tricuspid annular geometry in healthy subjects and in patients with different grades of functional tricuspid regurgitation
Authors: Bieliauskienė Gintarė , Kažukauskienė Ieva , Kramena Rita , Zorinas Aleksejus , Mainelis Antanas , Zakarkaitė Diana 
Published: September 2023

Abstract
Background
Accurate sizing of the tricuspid valve annulus is essential for determining the optimal timing of tricuspid valve (TV) intervention. Two-dimensional (2D) echocardiography has limitations for comprehensive TV analysis. Three-dimensional (3D) imaging of the valve provides a better understanding of its spatial anatomy and enables more accurate measurements of TV structures.

Objectives
The study aimed to analyze tricuspid annulus (TA) parameters in normal heart and in different grades of functional tricuspid regurgitation (TR); to compare TA measurements obtained by 2D and 3D echocardiography.

Methods
One hundred fifty-five patients (median age 65 years, 57% women) with normal TV and different functional TR grades underwent 2D and 3D transthoracic echocardiography. The severity of TR was estimated using multiparametric assessment according to the guidelines. Mid-systolic 3D TA parameters were calculated using TV dedicated software. The conventional 2D systolic TA measurements in a standard four-chamber view were performed.

Results
In mid-systole, the normal TA area was 9.2 ± 2.0 cm2 for men and 7.4 ± 1.6 cm2 for women. When indexed to body surface area (BSA), there were no significant differences in the 3D parameters between genders. The 2D TA diameters were smaller than those measured in 3D. The ROC curve analysis identified that all 3D TA parameters can accurately differentiate between different functional TR grades. Additionally, the optimal cut-off values were identified for each TA parameter.

Conclusions
Gender, body size, and age have an impact on the TA parameters in healthy subjects. 2D measurements are smaller than 3D parameters. The reference values for 3D metrics according to TR severity can help in identifying TA dilation and distinguishing between different functional TR grades.

Graphical Abstract
Thermosensitive black phosphorus hydrogel loaded with silver sulfadiazine promotes skin wound healing
Authors: Zhou Jie , Li Tianjiao , Zhang Meili , Han Bo , Xia Tao , Ni Shuangshuang , Liu Zhiyong , Chen Zhenyang , Tian Xing 
Published: September 2023

AbstractWounds can lead to skin and soft tissue damage and their improper management may lead to the growth of pathogenic bacteria at the site of injury. Identifying better ways to promote wound healing is a major unmet need and biomedical materials with the ability to promote wound healing are urgently needed. Here, we report a thermosensitive black phosphorus hydrogel composed of black phosphorus nano-loaded drug silver sulfadiazine (SSD) and chitosan thermosensitive hydrogel for wound healing. The hydrogel has temperature-sensitive properties and enables the continuous release of SSD under near-infrared irradiation to achieve synergistic photothermal and antibacterial treatment. Additionally, it exerts antibacterial effects on Staphylococcus aureus. In a rat skin injury model, it promotes collagen deposition, boosts neovascularization, and suppresses inflammatory markers. In summary, the excellent thermosensitivity, biocompatibility, and wound-healing-promoting qualities of the reported thermosensitive hydrogel make it suitable as an ideal wound dressing in the clinic.
Magnetic separation and concentration of Aβ 1–42 molecules dispersed at the threshold concentration for Alzheimer’s disease diagnosis in clinically-relevant volumes of sample
Authors: Surpi Alessandro , Murgia Mauro , López-Amoedo Sonia , González-Gómez Manuel A. , Piñeiro Yolanda , Rivas José , Perugini Valeria , Santin Matteo , Sobrino Tomás , Greco Pierpaolo , Campos Francisco , Dediu Valentin Alek 
Published: September 2023

Abstract
Background
Alzheimer’s disease (AD) is the leading cause of dementia and loss of autonomy in the elderly, implying a progressive cognitive decline and limitation of social activities. The progressive aging of the population is expected to exacerbate this problem in the next decades. Therefore, there is an urgent need to develop quantitative diagnostic methodologies to assess the onset the disease and its progression especially in the initial phases.

Results
Here we describe a novel technology to extract one of the most important molecular biomarkers of AD (Aβ1−42) from a clinically-relevant volume − 100 µl – therein dispersed in a range of concentrations critical for AD early diagnosis. We demonstrate that it is possible to immunocapture Aβ1−42 on 20 nm wide magnetic nanoparticles functionalized with hyperbranced KVLFF aptamers. Then, it is possible to transport them through microfluidic environments to a detection system where virtually all (~ 90%) the Aβ1−42 molecules are concentrated in a dense plug of ca.50 nl. The technology is based on magnetic actuation by permanent magnets, specifically designed to generate high gradient magnetic fields. These fields, applied through submillimeter-wide channels, can concentrate, and confine magnetic nanoparticles (MNPs) into a droplet with an optimized shape that maximizes the probability of capturing highly diluted molecular biomarkers. These advancements are expected to provide efficient protocols for the concentration and manipulation of molecular biomarkers from clinical samples, enhancing the accuracy and the sensitivity of diagnostic technologies.

Conclusions
This easy to automate technology allows an efficient separation of AD molecular biomarkers from volumes of biological solutions complying with the current clinical protocols and, ultimately, leads to accurate measurements of biomarkers. The technology paves a new way for a quantitative AD diagnosis at the earliest stage and it is also adaptable for the biomarker analysis of other pathologies.
SIRT1 activation promotes energy homeostasis and reprograms liver cancer metabolism
Authors: Varghese Benluvankar , Chianese Ugo , Capasso Lucia , Sian Veronica , Bontempo Paola , Conte Mariarosaria , Benedetti Rosaria , Altucci Lucia , Carafa Vincenzo , Nebbioso Angela 
Published: September 2023

Abstract
Background
Cancer cells are characterized by uncontrolled cell proliferation and impaired bioenergetics. Sirtuins are a family of highly conserved enzymes that play a fundamental role in energy metabolism regulation. SIRT1, in particular, drives many physiological stress responses and metabolic pathways following nutrient deprivation. We previously showed that SIRT1 activation using SCIC2.1 was able to attenuate genotoxic response and senescence. Here, we report that in hepatocellular carcinoma (HCC) cells under glucose-deprived conditions, SCIC2.1 treatment induced overexpression of SIRT1, SIRT3, and SIRT6, modulating metabolic response.

Methods
Flow cytometry was used to analyze the cell cycle. The MTT assay and xCELLigence system were used to measure cell viability and proliferation. In vitro enzymatic assays were carried out as directed by the manufacturer, and the absorbance was measured with an automated Infinite M1000 reader. Western blotting and immunoprecipitation were used to evaluate the expression of various proteins described in this study. The relative expression of genes was studied using real-time PCR. We employed a Seahorse XF24 Analyzer to determine the metabolic state of the cells. Oil Red O staining was used to measure lipid accumulation.

Results
SCIC2.1 significantly promoted mitochondrial biogenesis via the AMPK-p53-PGC1α pathway and enhanced mitochondrial ATP production under glucose deprivation. SIRT1 inhibition by Ex-527 further supported our hypothesis that metabolic effects are dependent on SIRT1 activation. Interestingly, SCIC2.1 reprogrammed glucose metabolism and fatty acid oxidation for bioenergetic circuits by repressing de novo lipogenesis. In addition, SCIC2.1-mediated SIRT1 activation strongly modulated antioxidant response through SIRT3 activation, and p53-dependent stress response via indirect recruitment of SIRT6.

Conclusion
Our results show that SCIC2.1 is able to promote energy homeostasis, attenuating metabolic stress under glucose deprivation via activation of SIRT1. These findings shed light on the metabolic action of SIRT1 in the pathogenesis of HCC and may help determine future therapies for this and, possibly, other metabolic diseases.
Negative correlation between central sensitization and forgotten joint score-12 after total hip arthroplasty
Authors: Imagama Takashi , Okazaki Tomoya , Matsuki Yuta , Kaneoka Takehiro , Kawakami Takehiro , Yamazaki Kazuhiro , Sakai Takashi 
Published: September 2023

Abstract
Background
Central sensitization is a condition in which even mild stimuli cause pain due to increased neuronal reactivity in the dorsal horn of the spinal cord. It is one of factors of chronic pain in patients with osteoarthritis. However, it is unknown whether central sensitization relates to clinical outcomes after total hip arthroplasty (THA). This study aimed to clarify whether preoperative central sensitization relates to the forgotten joint score-12 (FJS) after THA. Moreover, the secondary outcome was to identify which items in the FJS were most related by central sensitization.

Methods
This retrospective analysis included 263 hips (263 patients; 51 males and 212 females) that underwent primary THA in our institute and were available for evaluation one year postoperatively. The average patient age was 64.8 ± 11.9 years. The Central Sensitization Inventory (CSI) part A, which is a patient-reported outcome, was used to measure preoperative central sensitization. The correlation between preoperative CSI and postoperative FJS and the association between postoperative FJS and preoperative CSI severity were determined. Moreover, difference in each FJS item was evaluated by CSI severity.

Results
Twenty-six patients (9.9%) had central sensitization preoperatively. Preoperative CSI scores and postoperative FJS were negatively correlated (r =  − 0.331, p < 0.0001). The postoperative FJS was significantly lower in patients with moderate or higher preoperative CSI severity than that in patients with subclinical or mild preoperative CSI severity (p < 0.05). FJS items with movement of daily life were significantly worse in the moderate or higher CSI severity compared with subclinical group (p < 0.05 or p < 0.01).

Conclusion
Central sensitization prior to THA negatively related to postoperative FJS. In particular, the relationship of central sensitization was found to be significant in FJS items with movement, which would lead to lower patient satisfaction after THA. To get better postoperative outcomes in patients with preoperative central sensitization, improving central sensitization would be important.
A mHealth intervention to reduce perceived stress in patients with ischemic heart disease: study protocol of the randomized, controlled confirmatory intervention “mStress-IHD” trial
Authors: Lortz Julia , Rassaf Tienush , Jansen Christoph , Knuschke Ramtin , Schweda Adam , Schnaubert Lenka , Rammos Christos , Köberlein-Neu Juliane , Skoda Eva-Maria , Teufel Martin , Bäuerle Alexander 
Published: September 2023

Abstract
Background
Stress is highly prevalent in patients with ischemic heart disease (IHD) and is associated with lower health-related quality of life and impaired cardiovascular outcome. The importance of stress management is now recognized in recent guidelines for the management of cardiovascular disease. However, effective stress management interventions are not implemented in clinical routine yet. The development of easily disseminated eHealth interventions, particularly mHealth, may offer a cost-effective and scalable solution to this problem. The aim of the proposed trial is to assess the efficiency and cost-effectiveness of the mHealth intervention “mindfulHeart” in terms of reducing stress in patients with IHD.

Methods and analysis
This randomized controlled confirmatory interventional trial with two parallel arms has assessments at six measurement time points: baseline (T0, prior randomization), post-treatment (T1), and four follow-ups at months 1, 3, 6, and 12 after intervention (T2, T3, T4, and T5). We will include patients with confirmed diagnosis of IHD, high-perceived stress, and use of an internet-enabled smartphone. Patients will be randomized into two groups (intervention vs. control). The proposed sample size calculation allocates 128 participants in total. The primary analysis will be performed in the intention-to-treat population, with missing data imputed. An ANCOVA with the outcome at T1, a between-subject factor (intervention vs. control), and the participants’ pre-intervention baseline values as a covariate will be used. Different ANOVAs, regression, and descriptive approaches will be performed for secondary analyses.

Ethics
The Ethics Committee of the Medical Faculty of the University of Duisburg-Essen approved the study (22–11,015-BO).

Trial registration
ClinicalTrials NCT05846334. Release 26.04.2023.
Successful management of temporary veno-venous extracorporeal membrane oxygenation for a pediatric lung transplant recipient with bronchiolitis obliterans syndrome awaiting lung re-transplantation: a case report
Authors: Tomioka Yasuaki , Miyoshi Kentaroh , Tanaka Shin , Sugimoto Seiichiro , Kanai Rie , Nikai Tetsuro , Toyooka Shinichi , Yamane Masaomi 
Published: September 2023

Abstract
Background
The use of extracorporeal membrane oxygenation (ECMO) as a bridge to lung transplantation is an uncommon strategy in Japan owing to the severe donor shortage and absence of urgent allocation policy. Moreover, the use of veno-venous (VV) ECMO for immunosuppressed patients is controversial; thus, applying ECMO to patients who await lung re-transplantation is challenging.

Case presentation
A 16-year-old lung transplant recipient with grade 3 bronchiolitis obliterans syndrome was waitlisted for lung re-transplantation. Eleven months later, he fell into severe respiratory acidosis with hypercapnia, which were not resolved with mechanical ventilation. VV ECMO was introduced to minimize lung stress and strain. Tracheostomy was additionally performed on day 5 after the start of ECMO, and respiratory condition swiftly improved; hence, the weaning process from VV ECMO began on day 9. Rehabilitation became implementable, and bilateral re-lung transplantation was successfully performed 6 months after the ECMO treatment. No critical complication related to the precedent use of ECMO was noted.

Conclusions
VV ECMO can be a feasible treatment option even for lung transplant candidates awaiting re-transplantation for a prolonged period. Introduction of ECMO and tracheostomy in the early deterioration stage may be crucial to successful subsequent patient management.
A comparative study of two-sex life table parameters of Orius laevigatus fieber (Hemiptera: anthocoridae) on two mealybug species, Planococcus citri Risso, and P. solenopsis Tinsley (Hemiptera: Pseudococcidae)
Authors: Kahya Dogancan 
Published: September 2023

Abstract
Background
Augmentative biological control is a crucial component of Integrated Pest Management, and Orius laevigatus Fieber (Hemiptera: Anthocoridae) is an important predator used commercially. However, the two-sex life table parameters of O. laevigatus on Planoccocus citri Risso, and P. solenopsis Tinsley (Hemiptera: Pseudococcidae) have not been fully characterised. This study aimed to assess the potential of P. citri and, P. solenopsis as prey for mass-rearing the predatory bug. To accomplish this, three different prey items (individuals of P. citri, P. soleneopsis, and eggs of Ephestia kuehniella Zeller (Lepidoptera: Pyralidae)) were used to determine the life table parameters of the minute pirate bug.

Results
Daily and total fecundity, adult longevity, APOP, TPOP, and pre-adult periods were calculated in this study. The results showed that daily fecundity was 7.4 ± 0.10, 4.41 ± 0.08, 3.47 ± 0.08, and adult longevity was 20.9 ± 0.47, 15.17 ± 0.31, 14.03 ± 0.39 on E. kuehniella, P. solenopsis and P. citri, respectively. Net reproduction rate (R0) was 57.23 ± 11.35, 17.27 ± 3.57, 11.05 ± 2.30, and the intrinsic rate of increase (r) was 0.172 ± 0.009, 0.084 ± 0.006, 0.069 ± 0.006 on E. kuehniella, P. soleneopsis, and P. citri, respectively. Additionally, finite rate of increase (λ), gross reproductive rate (GRR), and mean generation time (T) were calculated on the three tested prey.

Conclusion
Overall, the results showed that eggs of E. kuehniella were the most suitable prey for the mass-rearing of O. laevigatus. Although P. citri and P. solenopsis had worse results than E. kuehniella, P. solenopsis may still have potential, and O. laevigatus could potentially be used against this pest with further studies in laboratory and field conditions.
Classical Hematology Referrals at an National Cancer Institute–Designated Cancer Center: Lessons Learned
Authors: West Chase V. , Butler Matthew J. , Kaur Supreet , Bowhay-Carnes Elizabeth , Karnad Anand B. 
Published: September 2023

PURPOSE To understand the spectrum and volume of classical hematology (CH) referrals to hematology clinics at a National Cancer Institute (NCI)–designated cancer center (CC) to plan for the delivery of effective and equitable care for this population. METHODS One referral office at the Academic CC located in Bexar County, TX, handles all adult hematology referrals. From October 1, 2021, to September 30, 2022, all nonmalignant hematology (MH) referrals were triaged daily to define the category of CH problem. Declined referrals (confirmed at triage that no CH problem was evident) are included as part of this analysis. Electronic consultation (opinion rendered without patient seen) at our CC is available and is not part of this analysis. RESULTS One thousand nine hundred forty-five CH referrals were received in the 12-month period. Seventy-six referrals (3.9%) were declined. During the study period, there were 2,289 medical oncology referrals and 779 referrals for MH. CH referrals therefore comprise 39% of all hematology-oncology referrals and 71% of all hematology referrals at the CC. Anemia and thrombotic disorders were the most common categories of the accepted CH referrals at 487 (26%) and 393 (21%), respectively. Video visits were used for 447 of all CH referrals (23%), and the rest were in person. CONCLUSION Nearly 40% of all referrals to hematology and medical oncology at our NCI-designated CC are for CH. Effective management of the CH population of patients will allow ideal care for CH problems and also allow cancer-focused care to improve.
Healthcare Professionals’ Insights on the Integration of Kinesiologists into Ontario’s Health System
Authors: Auger Leslie E. , Thomas Scott G. , Fischer Steve , Smith Leanne , Armstrong John , Dar Raheel M. , Srbely John 
Published: September 2023

ABSTRACT

Introduction/Purpose
Kinesiologists are well suited to work collaboratively or independently within the health system to improve patient/client care and well-being. This cross-sectional survey explored perceptions of the integration of registered kinesiologists (RKins) into the health system in Ontario.

Methods
RKins (n = 202) and other health professionals (OHP; n = 337), including physicians, physiotherapists, nurse practitioners, etc., participated in an online survey.

Results
RKins reported working in diverse practice environments, and more than half reported receiving patients/clients through referrals. Of the OHP, 37.7% had ongoing professional interactions with RKins and 86.7% reported high satisfaction with these interactions; 32.6% of OHP reported referring patients/clients to RKins, primarily for exercise prescription (86.0%), treatment of clinical conditions (48.8%), and patient education (46.5%). Perceived barriers to referral included lack of awareness of the RKins’ scope of practice (81.0%), inadequate funding for services (67.1%), and low confidence in the clinical competency of RKins (61.8%).

Conclusions
RKins are experts in exercise-based interventions to prevent, treat, and manage many chronic lifestyle-related diseases. Initiatives to increase awareness of the RKins’ scope of practice, clinical competency, and standards of practice and to increase funding for RKin services are important next steps.