bluuebunny/crossref_metadata_2025_split huggingface dataset:
Current Evidence and Recommendations for Further Research
Authors: Manuel Jennifer I , Nizza Megan R , Herman Daniel B , Conover Sarah A , Esquivel Laura I , Yuan Yeqing , Susser Ezra S 
Published: August 2024

Abstract
This chapter reviews the current state of evidence on Critical Time Intervention (CTI), methodological strengths and challenges, and recommendations for future research. The authors discuss the effectiveness of CTI and its adaptations by summarizing the evidence derived from experimental and quasi-experimental studies of its impact conducted in the United States, Brazil, Canada, the Netherlands, and the United Kingdom and Europe. The review suggests that CTI has shown a consistent positive impact on reducing homelessness and enhancing service engagement across diverse populations and settings, while impacts in other domains are uneven. The chapter concludes with a discussion of the methodological challenges of the existing evidence and several recommendations for future research. These include factors associated with effective program implementation and the need to understand for whom and under what conditions CTI is most effective.
Good Judgment
Authors: Zinkin Melissa 
Published: August 2024

Abstract
This chapter explains why for Kant aesthetic judgment is the pure form of all judgment, including rational judgment. It is because our capacity for making aesthetic judgments is the same as our capacity for coming up with a concept and thereby comprehending something. Although many commentators have compared Kant’s discussion of judgments of taste in the third Critique to his discussion of the generation of concepts, none has argued that reason is the source of both of these forms of mental activity. To see this, we must adjust our understanding not only of aesthetic judgment in Kant’s philosophy, but also of human reason. We will have to see that human reason is the faculty of deep judgment and that it has an aesthetic—and an artistic—component.
Depth and Moral Worth
Authors: Zinkin Melissa 
Published: August 2024

Abstract
This chapter continues to set the stage for a discussion of moral worth in Kant by addressing two recent accounts of what Kant means by acting from the motive of duty. Julia Markovits and Nomy Arpaly each argue that their view is an improvement on Kant. This chapter argues that they misunderstand Kant, in part, because they think that for Kant acting for the sake of duty is meant only to avoid moral “contingency” and not to avoid moral “precariousness” as well. In order to clarify Kant’s position and defend it, the chapter shows how he would respond to Markovits and Arpaly, and, further, how he would resolve a disagreement between them about whether or not depth of concern contributes to the moral worth of an action. For Kant, the moral worth of an action does indeed involve a depth of moral feeling.
The “Third Thing”
Authors: Zinkin Melissa 
Published: August 2024

Abstract
This chapter argues that in Groundwork III, where Kant emphasizes that the free will is a kind of causality in accordance with immutable laws, the kind of causality that he has in mind is a teleological causality. To be autonomous is not just for me to be the efficient cause of my own action as opposed to having my action be determined by something external to my own reason. Instead, Kant’s “richer and more fruitful” idea of autonomy indicates that I am obligated to act on those maxims that I have self-legislated for the sake of myself, understood as a member of the intelligible world. What causes me to do what is right is the awareness that by doing so I am realizing my own necessary end. Accompanying such autonomous actions is what I call a feeling of “self-rightness.”
Cold War maladies
Authors: Clark Heather 
Published: August 2024

Abstract
This chapter looks into Sylvia Plath’s life, particularly her breakdown and the writing of her novel The Bell Jar. After struggling for several weeks with insomnia and depression, Plath began cutting herself; she was treated with a series of disastrous outpatient shock treatments at Valley Head Hospital in Carlisle, Massachusetts. Terrified of more shock treatments and fearful of a future trapped inside a mental hospital, Plath decided to end her life while she still possessed free will and was remembered as a success rather than a mental patient. Despite her suicide attempt and missing the academic year, Plath was still the star student in the English department at Smith College. This chapter cites numerous details from Plath’s own life that would inspire scenes in The Bell Jar, and outlines the novel’s major themes.
Inverse probability weighting to estimate impacts of hypothetical occupational limits on radon exposure to reduce lung cancer
Authors: Keil Alexander P , Li Yi , Lan Qing , Bertke Stephen , Daniels Robert D , Edwards Jessie K , Kelly-Reif Kaitlin 
Published: August 2024

Abstract
Radon is a known cause of lung cancer. Protective standards for radon exposure are derived largely from studies of working populations that are prone to healthy worker survivor bias. This bias can lead to underprotection of workers and is a key barrier to understanding health effects of many exposures. We apply inverse probability weighting to study a set of hypothetical exposure limits among 4137 male, White and American Indian radon-exposed uranium miners in the Colorado Plateau followed from 1950 to 2005. We estimate cumulative risk of lung cancer through age 90 under hypothetical occupational limits. We estimate that earlier implementation of the current US Mining Safety and Health Administration annual standard of 4 working level months (implemented here as a monthly exposure limit) could have reduced lung cancer mortality from 16 of 100 workers to 6 of 100 workers (95% confidence interval, 3/100, 8/100), in contrast with previous estimates of 10 of 100 workers. Our estimate is similar to that among contemporaneous occupational cohorts. Inverse probability weighting is a simple and computationally efficient way address healthy worker survivor bias to contrast health effects of exposure limits and estimate the number of excess health outcomes under exposure limits at work.
INTREPPPID—an orthologue-informed quintuplet network for cross-species prediction of protein–protein interaction
Authors: Szymborski Joseph , Emad Amin 
Published: August 2024

Abstract
An overwhelming majority of protein–protein interaction (PPI) studies are conducted in a select few model organisms largely due to constraints in time and cost of the associated ‘wet lab’ experiments. In silico PPI inference methods are ideal tools to overcome these limitations, but often struggle with cross-species predictions. We present INTREPPPID, a method that incorporates orthology data using a new ‘quintuplet’ neural network, which is constructed with five parallel encoders with shared parameters. INTREPPPID incorporates both a PPI classification task and an orthologous locality task. The latter learns embeddings of orthologues that have small Euclidean distances between them and large distances between embeddings of all other proteins. INTREPPPID outperforms all other leading PPI inference methods tested on both the intraspecies and cross-species tasks using strict evaluation datasets. We show that INTREPPPID’s orthologous locality loss increases performance because of the biological relevance of the orthologue data and not due to some other specious aspect of the architecture. Finally, we introduce PPI.bio and PPI Origami, a web server interface for INTREPPPID and a software tool for creating strict evaluation datasets, respectively. Together, these two initiatives aim to make both the use and development of PPI inference tools more accessible to the community.
Canalizing kernel for cell fate determination
Authors: Kim Namhee , Lee Jonghoon , Kim Jongwan , Kim Yunseong , Cho Kwang-Hyun 
Published: August 2024

Abstract
The tendency for cell fate to be robust to most perturbations, yet sensitive to certain perturbations raises intriguing questions about the existence of a key path within the underlying molecular network that critically determines distinct cell fates. Reprogramming and trans-differentiation clearly show examples of cell fate change by regulating only a few or even a single molecular switch. However, it is still unknown how to identify such a switch, called a master regulator, and how cell fate is determined by its regulation. Here, we present CAESAR, a computational framework that can systematically identify master regulators and unravel the resulting canalizing kernel, a key substructure of interconnected feedbacks that is critical for cell fate determination. We demonstrate that CAESAR can successfully predict reprogramming factors for de-differentiation into mouse embryonic stem cells and trans-differentiation of hematopoietic stem cells, while unveiling the underlying essential mechanism through the canalizing kernel. CAESAR provides a system-level understanding of how complex molecular networks determine cell fates.
TME-NET: an interpretable deep neural network for predicting pan-cancer immune checkpoint inhibitor responses
Authors: Ding Xiaobao , Zhang Lin , Fan Ming , Li Lihua 
Published: August 2024

Abstract
Immunotherapy with immune checkpoint inhibitors (ICIs) is increasingly used to treat various tumor types. Determining patient responses to ICIs presents a significant clinical challenge. Although components of the tumor microenvironment (TME) are used to predict patient outcomes, comprehensive assessments of the TME are frequently overlooked. Using a top-down approach, the TME was divided into five layers—outcome, immune role, cell, cellular component, and gene. Using this structure, a neural network called TME-NET was developed to predict responses to ICIs. Model parameter weights and cell ablation studies were used to investigate the influence of TME components. The model was developed and evaluated using a pan-cancer cohort of 948 patients across four cancer types, with Area Under the Curve (AUC) and accuracy as performance metrics. Results show that TME-NET surpasses established models such as support vector machine and k-nearest neighbors in AUC and accuracy. Visualization of model parameter weights showed that at the cellular layer, Th1 cells enhance immune responses, whereas myeloid-derived suppressor cells and M2 macrophages show strong immunosuppressive effects. Cell ablation studies further confirmed the impact of these cells. At the gene layer, the transcription factors STAT4 in Th1 cells and IRF4 in M2 macrophages significantly affect TME dynamics. Additionally, the cytokine-encoding genes IFNG from Th1 cells and ARG1 from M2 macrophages are crucial for modulating immune responses within the TME. Survival data from immunotherapy cohorts confirmed the prognostic ability of these markers, with p-values &lt;0.01. In summary, TME-NET performs well in predicting immunotherapy responses and offers interpretable insights into the immunotherapy process. It can be customized at https://immbal.shinyapps.io/TME-NET.
Generation of a high confidence set of domain–domain interface types to guide protein complex structure predictions by AlphaFold
Authors: Geist Johanna Lena , Lee Chop Yan , Strom Joelle Morgan , de Jesús Naveja José , Luck Katja 
Published: August 2024

Abstract

Motivation
While the release of AlphaFold (AF) represented a breakthrough for the prediction of protein complex structures, its sensitivity, especially when using full length protein sequences, still remains limited. Modeling success rates might increase if AF predictions were guided by likely interacting protein fragments. This approach requires available sets of highly confident protein–protein interface types. Computational resources, such as 3did, infer interacting globular domain types from observed contacts in protein structures. Assessing the accuracy of these predicted interface types is difficult because we lack hand-curated reference sets of verified domain–domain interface (DDI) types.

Results
To improve protein complex modeling of DDIs by AF, we manually inspected 80 randomly selected DDI types from the 3did resource to generate a first reference set of DDI types. Identified cases of DDI type nonapproval (40%) primarily resulted from inaccurate Pfam domain matches, crystal contacts, and synthetic protein constructs. Using logistic regression, we predicted a subset of 2411 out of 5724 considered DDI types in 3did to be of high confidence, which we subsequently applied to 53 000 human–protein interactions to predict DDIs followed by AF modeling. We obtained highly confident AF models for 604 out of 1129 predicted DDIs. Of note, for 47% of them no confident AF structural model could be obtained using full length protein sequences.

Availability and implementation
Code is available at https://github.com/KatjaLuckLab/DDI_manuscript.
A comparative study on the transcultural (re-)reception of The Untamed and its queerness with Chinese characteristics
Authors: Qiao Peng , Hu Yuqi 
Published: August 2024

Abstract
Drawing on Stanley Fish’s concept of interpretive communities, this article explores the various transcultural interpretations of queer opacity, a Chinese variant of queerness within dan’gai web series. This study reveals that while viewers employ a shared interpretive strategy of queer reading to identify queer opacity, the effect of queer interpretation is contingent upon the queer interpretive subcommunities’ familiarity with Chinese culture. Moreover, different cultures possess sub-strategies of queer reading: visibility reading is often practiced in the global northwest to initiate visibility politics in society, while opacity reading is used in the global southeast in an unconfrontational manner within fictional worlds. By examining a layered interpretive phenomenon that involves transcultural reaction videos towards the Chinese dan’gai web series The Untamed (TU), alongside the danmu from Chinese viewers on these videos, this study contributes to scholarship on transcultural queerness through the lenses of queer opacity and transcultural reader reception.
Predicting psoriasis severity using machine learning: a systematic review
Authors: McMullen Eric P , Al Naser Yousif A , Maazi Mahan , Grewal Rajan S , Abdel Hafeez Dana , Folino Tia R , Vender Ronald B 
Published: August 2024

Abstract

Background
In dermatology, the applications of machine learning (ML), an artificial intelligence (AI) subset that enables machines to learn from experience, have progressed past the diagnosis and classification of skin lesions. A lack of systematic reviews exists to explore the role of ML in predicting the severity of psoriasis.

Objectives
To identify and summarize the existing literature on predicting psoriasis severity using ML algorithms and to identify gaps in ­current clinical applications of these tools.

Methods
OVID Embase, OVID MEDLINE, ACM Digital Library, Scopus and IEEE Xplore were searched from inception to August 2024.

Results
In total, 30 articles met our inclusion criteria and were included in this review. One article used serum biomarkers, while the remaining 29 used image-based models. The most common severity assessment score employed by these ML models was the Psoriasis Area and Severity Index score, followed by body surface area, with 15 and 5 articles, respectively.

Conclusions
The small size and heterogeneity of the existing body of literature are the primary limitations of this review. Progress in assessing skin lesion severity through ML in dermatology has advanced, but prospective clinical applications remain limited. ML and AI promise to improve psoriasis management, especially in nonimage-based applications requiring further exploration. Large-scale prospective trials using diverse image datasets are necessary to evaluate and predict the clinical value of these predictive AI models.
Efficacy of salmon GnRHa, Ovaprim® and hCG for hormonal stimulation of spermiation in the Fowler’s toad (Anaxyrus fowleri)
Authors: Saylor Erin M , Kouba Andrew J , Boudreau Melanie R , Songsasen Nucharin , Kouba Carrie K 
Published: August 2024

Abstract
Ex situ amphibian populations can experience reproductive dysfunction due to the absence of environmental cues that trigger reproductive events. Assisted reproductive technologies (ART) for amphibians, specifically exogenous hormone regimens, can circumvent these external signals to induce gametogenesis and gamete release. Currently, the use of the mammalian reproductive hormones gonadotropin-releasing hormone (GnRH) and human chorionic gonadotropin (hCG) are used in a species-specific manner to stimulate amphibian breeding. Hormones or hormone mixtures that are effective in all breeding scenarios would provide the best option for conservation practitioners and some commercial products are already in use for breeding other ectotherms. Ovaprim®, which contains salmon GnRH analogue (sGnRHa) and the dopamine antagonist domperidone (DOM), is effective in fish aquaculture and may be effective for amphibians. To test this hypothesis, we treated Fowler’s toads (Anaxyrus fowleri) with either sGnRHa alone, a high or low dose of Ovaprim® or hCG. We then compared spermiation response, sperm quantity and quality parameters, and changes in animal mass over time within each treatment. We found administration of Ovaprim® resulted in more males producing sperm with better motility compared to administration of sGnRHa alone. In addition, the Ovaprim® and sGnRHa treatments resulted in lower response rates, lower sperm motilities, more abnormal sperm, and higher aggregations of sperm compared to the hCG treatment. Furthermore, Ovaprim®-treated males gained significant mass, suggesting an anti-diuretic effect of DOM. Together, these results show that neither Ovaprim® nor sGnRHa, at the concentrations tested, are likely suitable replacements for hCG in ex situ bufonid breeding programmes and that hormone mixtures developed for fish may have limited transferability to new world toad species.
RiceMetaSys: Drought-miR, a one-stop solution for drought responsive miRNAs-mRNA module in rice
Authors: Kumar Deepesh , Venkadesan SureshKumar , Prabha Ratna , Begam Shbana , Dutta Bipratip , Mishra Dwijesh C , Chaturvedi K K , Jha Girish Kumar , Solanke Amolkumar U , Sevanthi Amitha Mithra 
Published: August 2024

Abstract
MicroRNAs are key players involved in stress responses in plants and reports are available on the role of miRNAs in drought stress response in rice. This work reports the development of a database, RiceMetaSys: Drought-miR, based on the meta-analysis of publicly available sRNA datasets. From 28 drought stress-specific sRNA datasets, we identified 216 drought-responsive miRNAs (DRMs). The major features of the database include genotype-, tissue- and miRNA ID-specific search options and comparison of genotypes to identify common miRNAs. Co-localization of the DRMs with the known quantitative trait loci (QTLs), i.e., meta-QTL regions governing drought tolerance in rice pertaining to different drought adaptive traits, narrowed down this to 37 promising DRMs. To identify the high confidence target genes of DRMs under drought stress, degradome datasets and web resource on drought-responsive genes (RiceMetaSys: DRG) were used. Out of the 216 unique DRMs, only 193 had targets with high stringent parameters. Out of the 1081 target genes identified by Degradome datasets, 730 showed differential expression under drought stress in at least one accession. To retrieve complete information on the target genes, the database has been linked with RiceMetaSys: DRG. Further, we updated the RiceMetaSys: DRGv1 developed earlier with the addition of DRGs identified from RNA-seq datasets from five rice genotypes. We also identified 759 putative novel miRNAs and their target genes employing stringent criteria. Novel miRNA search has all the search options of known miRNAs and additionally, it gives information on their in silico validation features. Simple sequence repeat markers for both the miRNAs and their target genes have also been designed and made available in the database. Network analysis of the target genes identified 60 hub genes which primarily act through abscisic acid pathway and jasmonic acid pathway. Co-localization of the hub genes with the meta-QTL regions governing drought tolerance narrowed down this to 16 most promising DRGs.
Database URL: http://14.139.229.201/RiceMetaSys_miRNA
Updated database of RiceMetaSys URL: http://14.139.229.201/RiceMetaSysA/Drought/
Left ventricular diastolic dysfunction in non-myocardial disorders
Authors: Smiseth Otto A , Wang Tom Kai Ming , Klein Allan L , Nagueh Sherif F 
Published: August 2024

Abstract
This article reviews and discusses non-myocardial disorders that represent diagnostic challenges when evaluating patients for suspected heart failure with preserved left ventricular ejection fraction. This includes pre-capillary pulmonary hypertension, which is important to differentiate from post-capillary hypertension caused by left-sided heart disease. The impact of electrical disorders on LV diastolic function is also reviewed, and includes a discussion of left bundle branch, which has both a direct effect on LV diastolic function, as well as a long-term effect due to remodelling. Furthermore, evaluation of diastolic function in patients with atrial fibrillation is discussed. Pericardial diseases are reviewed as well as effects of a normal pericardium on diastolic function in failing hearts. Finally, the article reviews how valvular diseases impact LV diastolic function.
A case report of Ebstein’s anomaly–Gerbode defect dyad: is there room for another anomaly in the same patient?
Authors: Onea Horea-Laurentiu , Lazar Florin-Leontin , Teodoru Minodora , Stoia Oana , Olinic Dan-Mircea 
Published: August 2024

Abstract

Background
Ebstein’s anomaly is a rare congenital heart disease characterized by apical displacement of the septal and posterior tricuspid valve leaflets. It is commonly associated with other defects such as patent foramen ovale or accessory atrioventricular pathways.

Case summary
We describe a case of an Ebstein anomaly diagnosed in an adult in his 50s in association with a septal defect between the left ventricle and right atrium (Gerbode defect). The diagnosis was confirmed on magnetic resonance imaging. A third anomaly was noted on coronary angiography, consisting of an aberrant origin of the right coronary artery from the left sinus of Valsalva. The patient was paucisymptomatic until he developed typical atrial flutter. Catheter ablation was employed after first arrhythmia recurrence and the patient is to date in good clinical condition.

Conclusion
The association of Ebstein’s anomaly–Gerbode defect is extremely rare, and to our knowledge, this is the first case that presents in addition an anomalous coronary artery. Both structural defects were without haemodynamic significance, and there was no proof of myocardial ischaemia. As the case illustrates, congenital disorders, even when in conjunction, can have a silent clinical course and multimodality imaging is sometimes necessary for a complete and final diagnosis.