bluuebunny/crossref_metadata_2025_split huggingface dataset:
Clinical prediction models assessing response to radiotherapy for rectal cancer: protocol for a systematic review
Authors: Karageorgou Margarita , Hughes David M. , Myint Arthur Sun , Pritchard D. Mark , Bonnett Laura J. 
Published: October 2022

Abstract
Background
Rectal cancer has a high prevalence. The standard of care for management of localised disease involves major surgery and/or chemoradiotherapy, but these modalities are sometimes associated with mortality and morbidity. The notion of ‘watch and wait’ has therefore emerged and offers an organ-sparing approach to patients after administering a less invasive initial treatment, such as X-ray brachytherapy (Papillon technique). It is thus important to evaluate how likely patients are to respond to such therapies, to develop patient-tailored treatment pathways. We propose a systematic review to identify published clinical prediction models of the response of rectal cancer to treatment that includes radiotherapy and here present our protocol.

Methods
Included studies will develop multivariable clinical prediction models which assess response to treatment and overall survival of adult patients who have been diagnosed with any stage of rectal cancer and have received radiotherapy treatment with curative intent. Cohort studies and randomised controlled trials will be included. The primary outcome will be the occurrence of salvage surgery at 1 year after treatment. Secondary outcomes include salavage surgery at at any reported time point, the predictive accuracy of models, the quality of the developed models and the feasibility of using the model in clinical practice.
Ovid MEDLINE, PubMed, Cochrane Library, EMBASE and CINAHL will be searched from inception to 24 February 2022. Keywords and phrases related to rectal cancer, radiotherapy and prediction models will be used. Studies will be selected once the deduplication, title, abstract and full-text screening process have been completed by two independent reviewers. The PRISMA-P checklist will be followed. A third reviewer will resolve any disagreement. The data extraction form will be pilot-tested using a representative 5% sample of the studies reviewed. The CHARMS checklist will be implemented. Risk of bias in each study will be assessed using the PROBAST tool. A narrative synthesis will be performed and if sufficient data are identified, meta-analysis will be undertaken as described in Debray et al.

Discussion
This systematic review will identify factors that predict response to the treatment protocol. Any gaps for potential development of new clinical prediction models will be highlighted.

Trial registration
CRD42022277704.
Cost Study of the PlasmaJet Surgical Device Versus Conventional Cytoreductive Surgery in Patients With Advanced-Stage Ovarian Cancer
Authors: Nieuwenhuyzen-de Boer Gatske M. , Geraerds Alexandra J.L.M. , van der Linden Marieke H. , van Doorn Helena C. , Polinder Suzanne , van Beekhuizen Heleen J. 
Published: October 2022

PURPOSEAdjuvant use of Neutral Argon Plasma (PlasmaJet Surgical Device) during cytoreductive surgery (CRS) for advanced-stage epithelial ovarian cancer improves surgical outcomes. The aim of this study is to examine the costs of adjuvant use of the PlasmaJet during surgery compared with conventional CRS in advanced-stage epithelial ovarian cancer.MATERIALS AND METHODSThe patients were randomly assigned to surgery with or without the PlasmaJet. Analysis of the intra- and extramural health care costs was performed. Costs were divided into three categories: costs of the diagnostic phase (T1), inpatient care up to discharge including costs of surgery (T2), and outpatient care including chemotherapy until 6 weeks after the last cycle of chemotherapy (T3).RESULTSOverall, 327 patients underwent CRS (surgery with PlasmaJet: n = 157; conventional surgery: n = 170). The mean total health costs were significantly higher for CRS with adjuvant use of PlasmaJet compared with conventional CRS (€19,414 v €18,165, P = .017). Costs are divided into costs of the diagnostic phase (€2,034 v €1,974, P = .890), costs of inpatient care (€10,956 v €9,556, P = .003), and costs of outpatient care (€6,417 v €6,628, P = .147).CONCLUSIONMean total health care costs of the use of PlasmaJet in CRS were significantly higher than those for conventional CRS. This difference is fully explained by the additional surgery costs of the use of PlasmaJet. However, surgery with the use of the PlasmaJet leads to a significantly higher percentage of complete CRS and a halving of stomas. A cost-effectiveness analysis will be performed once survival data are available (funded by ZonMw, Trial Register NL62035.078.17).
Measuring deviation from Skumanich braking index in active stars observed by Kepler mission
Authors: de Freitas D. B. , Cavalcante F. J. , Santiago T. M. 
Published: October 2022

Abstract
The aim of this work is to determine the deviation of the value of magnetic braking index q from Skumanich q = 3 canonical value for giant and main-sequence stars. In this context, the present work attempts to analytically calculate the braking index based on the balance of gravitational and centrifugal forces, a determining factor for understanding the delicate mechanisms that control the spin-down of stars in these evolutionary phases. In the present study, we used a wide sample of stellar targets from the Kepler mission with well-defined mass, radius, and rotation period. As a result, Kepler stellar parameters provide rather precise values of q index limited in the range

, which is consistent with the predictions of the model of magnetic stellar wind. Our results show conclusively that, within the model used in this work, any significant deviation of the braking index away from the value q = 3 occurs at masses higher than the Kraft break.
Intestinal Calcium Absorption Decreases After Laparoscopic Sleeve Gastrectomy Despite Optimization of Vitamin D Status
Authors: Wu Karin C , Cao Sisi , Weaver Connie M , King Nicole J , Patel Sheena , Kim Tiffany Y , Black Dennis M , Kingman Hillary , Shafer Martin M , Rogers Stanley J , Stewart Lygia , Carter Jonathan T , Posselt Andrew M , Schafer Anne L 
Published: October 2022

AbstractContextLaparoscopic sleeve gastrectomy (LSG), now the most commonly performed bariatric operation, is a highly effective treatment for obesity. While Roux-en-Y gastric bypass is known to impair intestinal fractional calcium absorption (FCA) and negatively affect bone metabolism, LSG's effects on calcium homeostasis and bone health have not been well characterized.ObjectiveWe determined the effect of LSG on FCA, while maintaining robust 25-hydroxyvitamin D (25OHD) levels and recommended calcium intake.Design, setting, participantsProspective pre-post observational cohort study of 35 women and men with severe obesity undergoing LSG.Main outcomesFCA was measured preoperatively and 6 months postoperatively with a gold-standard dual stable isotope method. Other measures included calciotropic hormones, bone turnover markers, and bone mineral density (BMD) by dual-energy X-ray absorptiometry and quantitative computed tomography.ResultsMean ± SD FCA decreased from 31.4 ± 15.4% preoperatively to 16.1 ± 12.3% postoperatively (P &lt; 0.01), while median (interquartile range) 25OHD levels were 39 (32-46) ng/mL and 36 (30-46) ng/mL, respectively. Concurrently, median 1,25-dihydroxyvitamin D level increased from 60 (50-82) pg/mL to 86 (72-107) pg/mL (P &lt; 0.01), without significant changes in parathyroid hormone or 24-hour urinary calcium levels. Bone turnover marker levels increased substantially, and areal BMD decreased at the proximal femur. Those with lower postoperative FCA had greater areal BMD loss at the total hip (ρ = 0.45, P &lt; 0.01).ConclusionsFCA decreases after LSG, with a concurrent rise in bone turnover marker levels and decline in BMD, despite robust 25OHD levels and with recommended calcium intake. Decline in FCA could contribute to negative skeletal effects following LSG.
Practices for Addressing Affective Difficulty in the Writing Classroom
Authors: McCabe Rachel 
Published: October 2022

Abstract
Any attempt to control the content and conversations of first-year composition classrooms has become increasingly complicated by social media and technology. Building on the types of textual difficulty explored by scholars like Mariolina Rizzi Salvatori and Patricia Donahue, Jeffrey Berman, and Alan Purves, this article considers the challenges presented to contemporary college-level readers by affectively difficult texts such as David Lynch's 1986 film Blue Velvet. The article also explores the potential responses students express to difficult texts and encourages flexibility in the assumptions made about these reactions. By working through the importance of these questions, the author ultimately examines the potential benefits and best strategies of using difficult fictional texts in the writing classroom to help students investigate the nuances of verbal and written conversations such as those created by the #MeToo movement.
The Inaudacity of Hope
Authors: Walker Paul 
Published: October 2022

AbstractWriting assessment and social justice rely largely on success-trajectory narratives, which sideline productive failure as a means of resisting normative futurity-based modes of education and policy. This essay offers an alternative perspective on failure in writing assessment and social justice by illustrating how relying on rhetoric as a hope and means for positive change can undermine aims of social justice and a critical education. By examining the queer (non)possibilities for assessment and acceptance without dependence on constant improvement and success, instructors may find more inclusive ways of thinking about the value of rhetoric's role in a generative acceptance of difference.
Class Politics and the Filmmaker's Craft in Mike Leigh's Peterloo
Authors: Wells Richard 
Published: October 2022

Abstract
This essay offers a close examination of director Mike Leigh's Peterloo, which recounts the struggle for parliamentary reform in Great Britain between the battle of Waterloo and the Peterloo massacre of 1819. Peterloo succeeds, the essay contends, because of Leigh's approach to the craft of filmmaking. If we take Peterloo on its own terms, that is, with an understanding of the unique form of creative labor that went into it, we get a better sense of what we can learn from it, about class politics, about power, about the complicated and difficult formation of democratic movements such as that which brought those many thousands to St. Peter's Field in 1819.
Heterologous expression of a lycophyte protein enhances angiosperm seedling vigor
Authors: Koh Samuel W. H. , Diaz-Ardila Harold Nicholay , Bascom Carlisle S. , Berenguer Eduardo , Ingram Gwyneth , Estelle Mark , Hardtke Christian S. 
Published: October 2022

ABSTRACT
Seedling vigor is a key agronomic trait that determines juvenile plant performance. Angiosperm seeds develop inside fruits and are connected to the mother plant through vascular tissues. Their formation requires plant-specific genes, such as BREVIS RADIX (BRX) in Arabidopsis thaliana roots. BRX family proteins are found throughout the euphyllophytes but also occur in non-vascular bryophytes and non-seed lycophytes. They consist of four conserved domains, including the tandem BRX domains. We found that bryophyte or lycophyte BRX homologs can only partially substitute for Arabidopsis BRX (AtBRX) because they miss key features in the linker between the BRX domains. Intriguingly, however, expression of a BRX homolog from the lycophyte Selaginella moellendorffii (SmBRX) in an A. thaliana wild-type background confers robustly enhanced root growth vigor that persists throughout the life cycle. This effect can be traced to a substantial increase in seed and embryo size, is associated with enhanced vascular tissue proliferation, and can be reproduced with a modified, SmBRX-like variant of AtBRX. Our results thus suggest that BRX variants can boost seedling vigor and shed light on the activity of ancient, non-angiosperm BRX family proteins.
Specialized germline P-bodies are required to specify germ cell fate in Caenorhabditis elegans embryos
Authors: Cassani Madeline , Seydoux Geraldine 
Published: October 2022

ABSTRACT
In animals with germ plasm, specification of the germline involves ‘germ granules’, cytoplasmic condensates that enrich maternal transcripts in the germline founder cells. In Caenorhabditis elegans embryos, P granules enrich maternal transcripts, but surprisingly P granules are not essential for germ cell fate specification. Here, we describe a second condensate in the C. elegans germ plasm. Like canonical P-bodies found in somatic cells, ‘germline P-bodies’ contain regulators of mRNA decapping and deadenylation and, in addition, the intrinsically-disordered proteins MEG-1 and MEG-2 and the TIS11-family RNA-binding protein POS-1. Embryos lacking meg-1 and meg-2 do not stabilize P-body components, misregulate POS-1 targets, mis-specify the germline founder cell and do not develop a germline. Our findings suggest that specification of the germ line involves at least two distinct condensates that independently enrich and regulate maternal mRNAs in the germline founder cells.
This article has an associated ‘The people behind the papers’ interview.
The GATA factor ELT-3 specifies endoderm in Caenorhabditis angaria in an ancestral gene network
Authors: Broitman-Maduro Gina , Sun Simo , Kikuchi Taisei , Maduro Morris F. 
Published: October 2022

ABSTRACT
Endoderm specification in Caenorhabditis elegans occurs through a network in which maternally provided SKN-1/Nrf, with additional input from POP-1/TCF, activates the GATA factor cascade MED-1,2→END-1,3→ELT-2,7. Orthologues of the MED, END and ELT-7 factors are found only among nematodes closely related to C. elegans, raising the question of how gut is specified in their absence in more distant species in the genus. We find that the C. angaria, C. portoensis and C. monodelphis orthologues of the GATA factor gene elt-3 are expressed in the early E lineage, just before their elt-2 orthologues. In C. angaria, Can-pop-1(RNAi), Can-elt-3(RNAi) and a Can-elt-3 null mutation result in a penetrant ‘gutless’ phenotype. Can-pop-1 is necessary for Can-elt-3 activation, showing that it acts upstream. Forced early E lineage expression of Can-elt-3 in C. elegans can direct the expression of a Can-elt-2 transgene and rescue an elt-7 end-1 end-3; elt-2 quadruple mutant strain to viability. Our results demonstrate an ancestral mechanism for gut specification and differentiation in Caenorhabditis involving a simpler POP-1→ELT-3→ELT-2 gene network.
DUX4 expression activates JNK and p38 MAP kinases in myoblasts
Authors: Brennan Christopher M. , Hill Abby S. , St. Andre Michael , Li Xianfeng , Madeti Vijaya , Breitkopf Susanne , Garren Seth , Xue Liang , Gilbert Tamara , Hadjipanayis Angela , Monetti Mara , Emerson Charles P. , Moccia Robert , Owens Jane , Christoforou Nicolas 
Published: October 2022

ABSTRACT
Facioscapulohumeral muscular dystrophy (FSHD) is caused by misexpression of the DUX4 transcription factor in skeletal muscle that results in transcriptional alterations, abnormal phenotypes and cell death. To gain insight into the kinetics of DUX4-induced stresses, we activated DUX4 expression in myoblasts and performed longitudinal RNA sequencing paired with proteomics and phosphoproteomics. This analysis revealed changes in cellular physiology upon DUX4 activation, including DNA damage and altered mRNA splicing. Phosphoproteomic analysis uncovered rapid widespread changes in protein phosphorylation following DUX4 induction, indicating that alterations in kinase signaling might play a role in DUX4-mediated stress and cell death. Indeed, we demonstrate that two stress-responsive MAP kinase pathways, JNK and p38, are activated in response to DUX4 expression. Inhibition of each of these pathways ameliorated DUX4-mediated cell death in myoblasts. These findings uncover that the JNK pathway is involved in DUX4-mediated cell death and provide additional insights into the role of the p38 pathway, a clinical target for the treatment of FSHD.
The efficacy of negative pressure wound therapy after hepatopancreatobiliary surgery: A systematic review and meta-analysis
Authors: Ren Bei , Jiang Xiaojuan , Chen Jin , Mo Junjun 
Published: October 2022

Objective: To evaluate the comparative influence of NPT and standard surgical dressing administration on incidence risk for surgical site infections, complications, and hospital readmission after hepatopancreatobiliary surgery.
Methods: Five databases were systematically searched according to PRISMA guidelines. These databases included Web of Science, MEDLINE, CENTRAL, EMBASE, and Scopus for eligible studies published prior to March 2021. With eligible studies, we conducted a random-effects meta-analysis to evaluate comparative outcomes such as superficial surgical infection, deep surgical infection, seroma incidence, hematoma incidence, and hospital re-admission in patients receiving NPT or standard surgical dressings after hepatopancreatobiliary surgery.
Results: The search strategy yielded 963 studies, with six studies meeting inclusion criteria. Odds of superficial surgical site infection (OR: 1.58), deep surgical site infection (1.43), seroma complication (1.64), hematoma complication (0.40) were insignificantly different between patients receiving NPT and standard surgical dressing. The odds of hospital re-admission rate (2.37), however, were elevated in patients receiving standard surgical dressing relative to those receiving NPT.
Conclusion: This meta-analysis shows that NPT usage slightly reduces risk of hospital readmission as compared to standard surgical dressing. We did not observe any significant effect of NPT on superficial, deep surgical infections, seroma, and haematoma outcomes following hepatopancreatobiliary surgery. These findings may aid clinicians in stratifying risk and selecting treatment strategy in patients undergoing hepatopancreatobiliary surgery.
doi: https://doi.org/10.12669/pjms.38.8.6601
How to cite this:Ren B, Jiang X, Chen J, Mo J. The efficacy of negative pressure wound therapy after hepatopancreatobiliary surgery: A systematic review and meta-analysis. Pak J Med Sci. 2022;38(8):---------. doi: https://doi.org/10.12669/pjms.38.8.6601
This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/3.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Incentives and disincentives to private sector reporting on family planning in Kenya: why these matter, and how they may change over time
Authors: Appleford Gabrielle , Mumbia Daniel , Emmart Priya 
Published: October 2022

Background: This study sought to understand private sector reporting on family planning in Kenya’s health information system (KHIS). We approached this through three lenses: governance, procedural and technical. Our study looked at these areas of interest in Kenya, complemented by deeper exploration in Nairobi County. Methods: The study used mixed methods drawing on analysis from the KHIS and surveys, complemented by desk review. The qualitative research entailed group discussions with public sector personnel while more in-depth qualitative interviews were done with public and private sector respondents. A framework matrix was developed for the qualitative analysis. The study was approved by the Ministry of Health in March 2022 and conducted over the period March - May 2022. Results: From a governance lens, private sector respondents recognised the importance of registry and reporting as a government policy requirement. From a procedural lens, private sector respondents saw reporting procedures as duplicative and parallel processes as reports are not generated through digitised information systems. From a technical lens, private sector reporting rates have improved over time however other data quality issues remain, which include over- and under-reporting of family planning services into KHIS. Secondary analysis for Nairobi County shows that the private facility contribution to family planning has declined over time while family planning access through pharmacies have grown over the same period; there is no visibility on this shift within the KHIS. Changes in private sector family service provision have implications for assumptions underpinning modern contraceptive modelled estimates and programmatic decision-making. Conclusions: There is limited monitoring of the incentives and disincentives for reporting by private health facilities into the KHIS. These have changed over time and place. Sustained private sector engagement is important to align incentives for reporting as is greater visibility on the role of pharmacies in family planning.
Quality parameters for RNA preparations from biopsies of ulcerated human skin
Authors: Giraldo-Parra Lina , Ramirez Lady Giovanna , Navas Adriana , Gómez María Adelaida 
Published: October 2022

Background: Obtaining high quality RNA from skin biopsies is complex due the physical composition and high content of nucleases of this tissue. This becomes particularly challenging when using compromised skin samples with necrotic, inflammed or damaged areas, such as those from patients suffering skin conditions, which affect more than 900 million people annually. We evaluated the impact of the biopsy size and tissue preservation method on the quality and quantity of RNA extracts. Methods: Skin lesion biopsies were obtained from patients with cutaneous leishmaniasis (CL). Biopsy specimens of 2 mm (n = 10) and 3 mm (n = 59) were preserved in Allprotect® reagent, and 4 mm biopsies in OCT (n = 54). Quality parameters were evaluated using Nanodrop and Bioanalyzer. The informativeness of the extracted samples for downstream analyses was evaluated using RT-qPCR and RNA-Seq. Results: The success rate, based on quality parameters of RNA extraction from tissue biopsies stored in OCT and 2 mm biopsies stored in Allprotect®, was 56% (30/54) and 30% (3/10), respectively. For 3 mm skin biopsies stored in Allprotect® was 93% (55/59). RNA preparations from 3 mm-Allprotect® biopsies had an average RIN of 7.2 ± 0.7, and their integrity was not impacted by sample storage time (up to 200 days at -20°C). RNA products were appropriate for qRT-PCR and RNA-seq. Based on these results, we propose a standardized method for RNA extraction from disrupted skin samples. This protocol was validated with lesion biopsies from CL patients (n = 30), having a success rate of 100%. Conclusions: Our results indicate that a biopsy size of 3 mm in diameter and preservation in Allprotect® for up to 200 days at -20°C, are best to obtain high quality RNA preparations from ulcerated skin lesion biopsy samples.