bluuebunny/crossref_metadata_2025_split huggingface dataset:
Prospective Analyses of Sedentary Behavior in Relation to Risk of Ovarian Cancer
Authors: Buras Andrea L , Wang Tianyi , Whiting Junmin , Townsend Mary K , Fridley Brooke L , Tworoger Shelley S 
Published: January 2022

Abstract
We examined the association of sedentary behavior with risk of ovarian cancer overall, by tumor subtype, and by participant characteristics in the Nurses’ Health Study (NHS) and Nurses’ Health Study II (NHS II). A total of 69,558 NHS participants (1992–2016) and 104,130 NHS II participants (1991–2015) who reported on time spent sitting at home, at work, and while watching television were included in the analysis, which included 884 histologically confirmed ovarian cancer cases. Multivariable-adjusted Cox proportional hazards models were used to estimate hazard ratios (HRs) and 95% confidence intervals (CIs) for ovarian cancer by sitting time (no mutual adjustment for individual sitting types in primary analyses). We examined potential heterogeneity by tumor histological type (type I or II), body mass index (weight (kg)/height (m)2; &lt; 25 or ≥25), and total physical activity (&lt;15 or ≥15 metabolic equivalent of task–hours/week). We observed an increased risk of ovarian cancer for women who sat at work for 10–19 hours/week (HR = 1.25, 95% CI: 1.04, 1.51) and ≥20 hours/week (HR = 1.40, 95% CI: 1.14, 1.71) versus &lt;5 hours/week. This association did not vary by body mass index, physical activity, or histotype (P for heterogeneity ≥ 0.43). No associations were observed for overall sitting, sitting while watching television, or other sitting at home. Longer sitting time at work was associated with elevated risk of ovarian cancer. Further investigations are required to confirm these findings and elucidate underlying mechanisms.
Incorporating Social Networks and Event-Specific Information in a Personalized Feedback Intervention to Reduce Drinking Among Young Adults
Authors: Angosta Joanne , Tomkins Mary M , Neighbors Clayton 
Published: January 2022

Abstract

Aims
To correct risky alcohol use among young adults, current personalized feedback interventions (PFIs) use social influence information related to distal referent groups. Although current PFIs have been effective, little consideration has been given to strategies applying more concrete sources of social influence, namely the influence of specific people within one’s social network during actual drinking contexts. The current study evaluated a novel PFI, providing feedback regarding the presence or absence of particular individuals within a participant’s close network along with the number of drinks consumed and consequences experienced during several specific drinking occasions.

Methods
TurkPrime users (N = 338) identified five close others with whom they sometimes drank. They also provided details about their five most recent drinking occasions and noted which of their network members were present. Participants were then randomized to receive or not receive feedback consisting of a list of drinking events, negative consequences and who was present.

Results
Feedback participants intended to consume fewer drinks over the next month relative to control (b = −0.25, P = 0.001). Analyses were inconclusive as to whether this effect was stronger for those who received more feedback (b = −0.01, P = 0.857).

Conclusions
Results provide preliminary support for the efficacy of a novel social influence-based intervention, which provides personalized feedback indicating social contexts that are more and less likely to lead to negative alcohol-related experiences.
Tradeoffs associated with autotomy and regeneration and their potential role in the evolution of regenerative abilities
Authors: Prestholdt Tara , White-Toney Tai , Bates Katie , Termulo Kara , Reid Sawyer , Kennedy Katy , Turley Zach , Steed Clayton , Kain Ryan , Ortman Matt , Luethke Tim , Degerstedt Spencer , Isikbay Masis 
Published: January 2022

Abstract
The capacity of certain animals to regrow a lost appendage has been exploited as a powerful tool to study development. As a result, we now understand many of the proximate details of the regeneration process. Ironically, despite being one of the oldest studied developmental phenomena, regeneration is not often considered in the context of natural selection and evolution. Why do select species retain the capacity to shed and regrow body parts, whereas more derived lineages do not? We conducted a comprehensive study on the costs and benefits of autotomy and regeneration on Hemigrapsus nudus, the purple shore crab. In the realms of feeding and locomotion, regeneration restored fitness to what it otherwise would have been; autotomized animals showed decreases in feeding and locomotion, but regenerated animals performed no differently than intact crabs. However, for fecundity and male–male competition, regenerated animals had the lowest fitness compared with control and autotomized crabs. Our results raise the intriguing possibility that tradeoffs associated with reproduction may have led to the loss of regenerative abilities in derived lineages such as mammals and birds. Future work on the hundreds of species that regenerate lost body parts will reveal if and how this hypothesis can address the pervasive speculation plaguing the ultimate causes of regenerative losses.
Adapt-Kcr: a novel deep learning framework for accurate prediction of lysine crotonylation sites based on learning embedding features and attention architecture
Authors: Li Zutan , Fang Jingya , Wang Shining , Zhang Liangyun , Chen Yuanyuan , Pian Cong 
Published: January 2022

AbstractProtein lysine crotonylation (Kcr) is an important type of posttranslational modification that is associated with a wide range of biological processes. The identification of Kcr sites is critical to better understanding their functional mechanisms. However, the existing experimental techniques for detecting Kcr sites are cost-ineffective, to a great need for new computational methods to address this problem. We here describe Adapt-Kcr, an advanced deep learning model that utilizes adaptive embedding and is based on a convolutional neural network together with a bidirectional long short-term memory network and attention architecture. On the independent testing set, Adapt-Kcr outperformed the current state-of-the-art Kcr prediction model, with an improvement of 3.2% in accuracy and 1.9% in the area under the receiver operating characteristic curve. Compared to other Kcr models, Adapt-Kcr additionally had a more robust ability to distinguish between crotonylation and other lysine modifications. Another model (Adapt-ST) was trained to predict phosphorylation sites in SARS-CoV-2, and outperformed the equivalent state-of-the-art phosphorylation site prediction model. These results indicate that self-adaptive embedding features perform better than handcrafted features in capturing discriminative information; when used in attention architecture, this could be an effective way of identifying protein Kcr sites. Together, our Adapt framework (including learning embedding features and attention architecture) has a strong potential for prediction of other protein posttranslational modification sites.
TMQuery: a database of precomputed template modeling scores for assessment of protein structural similarity
Authors: Price Stephen , Tombeur Stéphane , Hudson Alexander , Sathiyamoorthy Nanda Kumar , Smyth Paul , Singh Anjana , Peccianti Mara , Baroncelli Elisa , Essaghir Ahmed , Ferlenghi Ilaria , Phogat Sanjay Kumar , Singh Gurpreet 
Published: January 2022

Abstract

Summary
Comparisons of protein structures are critical for developing novel protein designs, annotating protein functions and predicting protein structure. The template modeling score (TM-score) is a widely used but computationally expensive measure of protein similarity that is applicable to a wide variety of structural biology problems. We introduce TMQuery—a continuously updated database containing over eight billion pre-computed TM-score values for every pair of proteins in the Protein Data Bank, allowing researchers to quickly query and download TM-scores via a web interface.

Availability and implementation
Publicly available at https://tmquery.gsk.com/.
A correlation-shrinkage prior for Bayesian prediction of the two-dimensional Wishart model
Authors: Sei T , Komaki F 
Published: January 2022

Summary
A Bayesian prediction problem for the two-dimensional Wishart model is investigated within the framework of decision theory. The loss function is the Kullback–Leibler divergence. We construct a scale-invariant and permutation-invariant prior distribution that shrinks the correlation coefficient. The prior is the geometric mean of the right invariant prior with respect to permutation of the indices, and is characterized by a uniform distribution for Fisher’s $z$-transformation of the correlation coefficient. The Bayesian predictive density based on the prior is shown to be minimax.
Dissolution improvement of binary solid dispersions of erlotinib prepared by one-step electrospray method
Authors: Jahangiri Azin , Khalilzad Fakhronnesa , Barghi Leila 
Published: January 2022

Abstract
Erlotinib hydrochloride, a selective tyrosine kinase inhibitor approved for treatment of non-small cell lung cancer firstly. Erlotinib classified as class II drugs in the Biopharmaceutical Classification System (BCS), which characterized by low solubility and high permeability. The aim of this study was to enhance the dissolution rate of this drug. The binary solid dispersions of erlotinib: PVP prepared at different ratios (1:3, 1:5, and 1:8) by electrospray technique. The characterization of formulations performed using differential scanning calorimetery (DSC), Fourier transform infrared spectroscopy (FT-IR) and dissolution rate test. The dissolution results showed that the dissolution rate of erlotinib from binary solid dispersions improved in comparison to pure drug. FTIR spectrum results showed that all peaks of erlotinib functional groups are also observable in the prepared solid dispersions. The FTIR results demonstrated that there was no interaction between drug and polymer. DSC thermograms of the prepared solid dispersions showed no drug-related peak, which is probably related to reduced crystallinity and drug amorphization. Based on the obtained results, it can be concluded that the erlotinib solid dispersion systems displayed improved dissolution rate compared to the pure drug. This will likely lead to increased drug bioavailability.
Systematic review and validation of clinical models predicting survival after oesophagectomy for adenocarcinoma
Authors: Boshier Piers R , Swaray Alison , Vadhwana Bhamini , O’Sullivan Arun , Low Donald E , Hanna George B , Peters Christopher J 
Published: January 2022

Abstract

Background
Oesophageal adenocarcinoma poses a significant global health burden, yet the staging used to predict survival has limited ability to stratify patients by outcome. This study aimed to identify published clinical models that predict survival in oesophageal adenocarcinoma and to evaluate them using an independent international multicentre dataset.

Methods
A systematic literature search (title and abstract) using the Ovid Embase and MEDLINE databases (from 1947 to 11 July 2020) was performed. Inclusion criteria were studies that developed or validated a clinical prognostication model to predict either overall or disease-specific survival in patients with oesophageal adenocarcinoma undergoing surgical treatment with curative intent. Published models were validated using an independent dataset of 2450 patients who underwent oesophagectomy for oesophageal adenocarcinoma with curative intent.

Results
Seventeen articles were eligible for inclusion in the study. Eleven models were suitable for testing in the independent validation dataset and nine of these were able to stratify patients successfully into groups with significantly different survival outcomes. Area under the receiver operating characteristic curves for individual survival prediction models ranged from 0.658 to 0.705, suggesting poor-to-fair accuracy.

Conclusion
This study highlights the need to concentrate on robust methodologies and improved, independent, validation, to increase the likelihood of clinical adoption of survival predictions models.
Prediction and consequences of postoperative pancreatitis after pancreaticoduodenectomy
Authors: Bonsdorff Akseli , Helanterä Ilkka , Tarvainen Timo , Sirén Jukka , Kokkola Arto , Sallinen Ville 
Published: January 2022

Abstract

Background
Recent studies have suggested postoperative acute pancreatitis (POAP) as a serious complication after pancreaticoduodenectomy (PD) and have speculated on its possible role in the pathogenesis of postoperative pancreatic fistula (POPF). This study aimed to assess the impact of POAP on post-PD outcomes and fistula risk score (FRS) performance in predicting POAP.

Methods
All PDs at Helsinki University Hospital between 2013 and 2020 were analysed. POAP was defined as a plasma amylase activity greater than the normal upper limit on postoperative day (POD) 1 and stratified as clinically relevant (CR)-POAP once C-reactive protein (CRP) reached or exceeded 180 mg/l, and non-CR-POAP once CRP was less than 180 mg/l on POD 2. The Comprehensive Complication Index (CCI) was used to assess total postoperative morbidity. Different FRSs were assessed using receiver operating characteristic curves.

Results
Of the 508 patients included, POAP occurred in 202 (39.8 per cent) patients, of whom 91 (17.9 per cent) had CR-POAP. The incidence of CR-POPF was 12.6 per cent (64 patients). Patients with non-CR-POAP had a similar morbidity to patients with no POAP (median CCI score 24.2 versus 22.6; P = 0.142), while CCI score was significantly higher (37.2) in patients with CR-POAP (P &lt; 0.001). CR-POAP was associated with increased rates of CR-POPF, delayed gastric emptying, haemorrhage, and bile leak, while non-CR-POAP was associated only with CR-POPF. Ninety-day mortality was 1.6 per cent, 0.9 per cent, and 3.3 per cent in patients with no-POAP, non-CR-POAP, and CR-POAP, respectively. Updated alternative FRS showed the best performance in predicting CR-POAP (area under the curve 0.834).

Conclusion
CR-POAP was associated with a higher CCI score, suggesting CR-POAP as a distinct entity from non-CR-POAP. FRSs can be used to assess the risk of CR-POAP.
Three-port versus four-port technique for laparoscopic cholecystectomy: systematic review and meta-analysis
Authors: Nip Lawrence , Tong Kin-Seng , Borg Cynthia M. 
Published: January 2022

Abstract

Background
The four-port laparoscopic technique is the standard approach for cholecystectomy. A three-port technique has been described, but there is no consensus over the outcomes and efficacy of this approach. The aim was to perform a systematic review and meta-analysis to compare the three- and four-port techniques in laparoscopic cholecystectomy for benign diseases of the gallbladder.

Methods
The review was conducted according to a predefined protocol registered on PROSPERO. Two authors independently conducted an electronic database search of CENTRAL, MEDLINE, Embase, CINAHL, WHO International Clinical Trials Registry, and ClinicalTrials.gov. Outcomes are reported as risk ratios (RR), mean difference (m.d.), or standardized mean difference (s.m.d.) with 95 per cent confidence intervals.

Results
Eighteen trials were included with 2085 patients. Length of hospital stay and postoperative analgesia requirement favoured the three-port group (m.d. −0.29, 95 per cent c.i. −0.43 to −0.16 (P &lt; 0.001); and s.m.d. −0.68, 95 per cent c.i. −1.03 to −0.33 (P &lt; 0.001), respectively). There were no differences in length of procedure or success rate between the two groups (m.d. 0.90, 95 per cent c.i. −3.78 to 5.58 (P = 0.71) and RR 0.99, 95 per cent c.i. 0.97 to 1.01 (P = 0.17), respectively). There were no differences in adverse events. The overall quality of evidence was low.

Conclusion
The three-port technique for laparoscopic cholecystectomy is an option for appropriately trained surgeons who perform it regularly. However, the decision to use three ports should not be at the expense of safe dissection of Calot’s triangle.
Abdominal versus perineal approach for external rectal prolapse: systematic review with meta-analysis
Authors: Pellino Gianluca , Fuschillo Giacomo , Simillis Costantinos , Selvaggi Lucio , Signoriello Giuseppe , Vinci Danilo , Kontovounisios Christos , Selvaggi Francesco , Sciaudone Guido 
Published: January 2022

Abstract

Background
External rectal prolapse (ERP) is a debilitating condition in which surgery plays an important role. The aim of this study was to evaluate the outcomes of abdominal approaches (AA) and perineal approaches (PA) to ERP.

Methods
This was a PRISMA-compliant systematic review with meta-analysis. Studies published between 1990 and 2021 were retrieved. The primary endpoint was recurrence at the last available follow-up. Secondary endpoints included factors associated with recurrence and function. All studies were assessed for bias using the Newcastle–Ottawa Scale and Cochrane tool.

Results
Fifteen studies involving 1611 patients (AA = 817; PA = 794) treated for ERP were included, three of which were randomized controlled trials (RCTs; 114 patients (AA = 54; PA = 60)). Duration of follow-up ranged from 12 to 82 months. Recurrence in non-randomized studies was 7.7 per cent in AA versus 20.1 per cent in PA (odds ratio (OR) 0.29, 95 per cent confidence interval (c.i.) 0.17 to 0.50; P &lt; 0.001, I2 = 45 per cent). In RCTs, there was no significant difference (9.8 per cent versus 16.3 per cent, AA versus PA (OR 0.82, 95 per cent c.i. 0.29 to 2.37; P = 0.72, I2 = 0.0 per cent)). Age at surgery and duration of follow-up were risk factors for recurrence. Following AA, the recurrence rates were 10.1 per cent and 6.2 per cent in patients aged 65 years and older and less than 65 years of age, respectively (effect size [e.s.] 7.7, 95 per cent c.i. 4.5 to 11.5). Following PA, rates were 27 per cent and 16.3 per cent (e.s. 20.1, 95 per cent c.i. 13 to 28.2). Extending follow-up to at least 40 months increased the likelihood of recurrence. The median duration of hospital stay was 4.9 days after PA versus 7.2 days after AA. Overall, incontinence was less likely after AA (OR 0.32), but constipation occurred more frequently (OR 1.68). Most studies were retrospective, and several outcomes from RCTs were not consistent with those observed in non-RCTs.

Conclusion
The overall risk of recurrence of ERP appears to be higher with PA versus AA. Incontinence is less frequent after AA but at the cost of increased constipation. Age at surgery and duration of follow-up are associated with increased risk of recurrence, which warrants adequate reporting of future studies on this topic.
The Challenges Faced by Korean Social Workers at the Community Welfare Centres for People with Disabilities during COVID-19 Pandemic
Authors: Kim Kyung Mee , Hwang Se Kwang 
Published: January 2022

Abstract
This study was intended to explore the experiences of social workers in Community Welfare Centres for People with Disabilities (CWCPDs) to understand their practices and challenges during COVID-19. It considered the essential role that CWCPD social workers play in responding to ‘new normal’ settings. Zoom interviews were conducted with twenty supervisory and manager-level social workers of CWCPDs nationwide. This study showed the unexpected cross-regional nature of risks and burdens. The high level of uncertainty and complexity allowed for the centres to operate safely under the COVID-19 legislation and for them to change and deliver alternative service provisions. Social workers had to develop new ways to deal with unprecedented risks, challenges, and dilemmas within ‘the new normal’. COVID-19 means that centres must recalibrate their relationships with service users, communities and the government. CWCPDs need to change their service provision model from a large group-centred to a person-centred model to meet individual demands. Changes are needed in terms of clarity of communication, the application of step-by-step guidelines to service provisions and a shift away from an exclusive focus on quantitative performance needs in how centres are evaluated. In all these processes, both close cooperation and support from local authorities are needed.
Autophagy and skin wound healing
Authors: Ren Haiyue , Zhao Feng , Zhang Qiqi , Huang Xing , Wang Zhe 
Published: January 2022

Abstract
Autophagy is a lysosome-dependent, self-renewal mechanism that can degrade and recycle cellular components in eukaryotic cells to maintain the stability of the intracellular environment and the cells ability to cope with unfavorable environments. Numerous studies suggest that autophagy participates in regulating various cellular functions and is closely associated with the onset and progression of various diseases. Wound healing is a complex, multistep biological process that involves multiple cell types. Refractory wounds, which include diabetic skin ulcers, can seriously endanger human health. Previous studies have confirmed that autophagy plays an essential role in various phases of wound healing. Specifically, in the inflammatory phase, autophagy has an anti-infection effect and it negatively regulates the inflammatory response, which prevents excessive inflammation from causing tissue damage. In the proliferative phase, local hypoxia in the wound can induce autophagy, which plays a role in anti-apoptosis and anti-oxidative stress and promotes cell survival. Autophagy of vascular endothelial cells promotes wound angiogenesis and that of keratinocytes promotes their differentiation, proliferation and migration, which is conducive to the completion of wound re-epithelialisation. In the remodeling phase, autophagy of fibroblasts affects the formation of hypertrophic scars. Additionally, a refractory diabetic wound may be associated with increased levels of autophagy, and the regulation of mesenchymal stem cell autophagy may improve its application to wound healing. Therefore, understanding the relationship between autophagy and skin wound healing and exploring the molecular mechanism of autophagy regulation may provide novel strategies for the clinical treatment of wound healing.
Identification of biomarkers for the diagnosis and targets for therapy in patients with clear cell ovarian cancer: a systematic literature review
Authors: Butler Holly , Saulat Omar , Guinn Barbara-ann 
Published: January 2022

Abstract
Clear cell ovarian cancer (CCOC) is a rare type of epithelial cancer often resistant to platinum-based chemotherapy. Biomarkers for the diagnosis of CCOC, and targets for immunotherapy, both have the potential to improve outcomes for patients. Our review aims to determine whether any antigens already identified in the literature could fulfil this remit. PubMed, Medline, Web of Science, Scopus, Cochrane, CINAHL and EMBASE were searched and included all reported studies up until August 2021. Primary research articles on human adult females including at least 10 CCOC patients were included. Quality assurance was carried out using a modified version of the QUADAS-2 tool. Sensitivity, specificity and area under the curve were extracted from each included study by two independent reviewers. Twenty-three articles were included which identified 19 gene transcripts/proteins and one antibody, with reported sensitivities between 21% and 100% and specificities between 0% and 100% for expression in CCOC and differentiation from other epithelial ovarian cancer subtypes, benign gynaecological disease or normal tissue. Twelve studies identified biomarkers with a sensitivity and specificity above 80%. A panel of biomarkers consisting of IMP3, napsin A and hepatocyte nuclear factor 1 beta achieved the highest area under the curve of 0.954. This review demonstrates that there are promising candidate biomarkers for the diagnosis of CCOC, some of which are highly specific, and have the potential to act as targets for therapy. However, larger cohort studies are needed to validate these biomarkers and their potential use in clinical practice.