bluuebunny/crossref_metadata_2025_split huggingface dataset:
Valine improves mitochondrial function and protects against oxidative stress
Authors: Sharma Shakshi , Zhang Xiaomin , Azhar Gohar , Patyal Pankaj , Verma Ambika , KC Grishma , Wei Jeanne Y 
Published: December 2023

ABSTRACT
Among the branched-chain amino acids, leucine and isoleucine have been well studied for their roles in improving mitochondrial function and reducing oxidative stress. However, role of valine in mitochondrial function regulation and oxidative stress management remains elusive. This study investigated valine effect on mitochondrial function and oxidative stress in vitro. Valine increased expression of genes involved in mitochondrial biogenesis and dynamics. It upregulates mitochondrial function at complexes I, II, and IV levels of electron transport chain. Flow cytometry studies revealed, valine reduced oxidative stress by significantly lowering mitochondrial reactive oxygen species and protein expression of 4-hydroxynonenal. Functional role of valine against oxidative stress was analyzed by XFe96 Analyzer. Valine sustained oxidative phosphorylation and improved ATP generation rates during oxidative stress. In conclusion, our findings shed more light on the critical function of valine in protecting mitochondrial function thereby preventing mitochondrial/cellular damage induced by oxidative stress.
Clumppling: cluster matching and permutation program with integer linear programming
Authors: Liu Xiran , Kopelman Naama M , Rosenberg Noah A 
Published: December 2023

Abstract

Motivation
In the mixed-membership unsupervised clustering analyses commonly used in population genetics, multiple replicate data analyses can differ in their clustering solutions. Combinatorial algorithms assist in aligning clustering outputs from multiple replicates so that clustering solutions can be interpreted and combined across replicates. Although several algorithms have been introduced, challenges exist in achieving optimal alignments and performing alignments in reasonable computation time.

Results
We present Clumppling, a method for aligning replicate solutions in mixed-membership unsupervised clustering. The method uses integer linear programming for finding optimal alignments, embedding the cluster alignment problem in standard combinatorial optimization frameworks. In example analyses, we find that it achieves solutions with preferred values of a desired objective function relative to those achieved by Pong and that it proceeds with less computation time than Clumpak. It is also the first method to permit alignments across replicates with multiple arbitrary values of the number of clusters K.

Availability and implementation
Clumppling is available at https://github.com/PopGenClustering/Clumppling.
Phenotyping of heart failure with preserved ejection faction using electronic health records and echocardiography
Authors: Pierre-Jean Morgane , Marut Benjamin , Curtis Elizabeth , Galli Elena , Cuggia Marc , Bouzillé Guillaume , Donal Erwan 
Published: December 2023

Abstract

Aims
Patients presenting symptoms of heart failure with preserved ejection fraction (HFpEF) are not a homogenous population. Different phenotypes can differ in prognosis and optimal management strategies. We sought to identify phenotypes of HFpEF by using the medical information database from a large university hospital centre using machine learning.

Methods and results
We explored the use of clinical variables from electronic health records in addition to echocardiography to identify different phenotypes of patients with HFpEF. The proposed methodology identifies four phenotypic clusters based on both clinical and echocardiographic characteristics, which have differing prognoses (death and cardiovascular hospitalization).

Conclusion
This work demonstrated that artificial intelligence–derived phenotypes could be used as a tool for physicians to assess risk and to target therapies that may improve outcomes.
Chromosome-level genome of the transformable northern wattle, Acacia crassicarpa
Authors: Massaro Isabelle , Poethig Richard Scott , Sinha Neelima R , Leichty Aaron R 
Published: December 2023

Abstract
The genus Acacia is a large group of woody legumes containing an enormous amount of morphological diversity in leaf shape. This diversity is at least in part the result of an innovation in leaf development where many Acacia species are capable of developing leaves of both bifacial and unifacial morphologies. While not unique in the plant kingdom, unifaciality is most commonly associated with monocots, and its developmental genetic mechanisms have yet to be explored beyond this group. In this study, we identify an accession of Acacia crassicarpa with high regeneration rates and isolate a clone for genome sequencing. We generate a chromosome-level assembly of this readily transformable clone, and using comparative analyses, confirm a whole-genome duplication unique to Caesalpinoid legumes. This resource will be important for future work examining genome evolution in legumes and the unique developmental genetic mechanisms underlying unifacial morphogenesis in Acacia.
Single-vessel access venoarterial extracorporeal membrane oxygenation and Impella technique for acute cardiogenic shock complicated by lung congestion
Authors: Tadokoro Naoki , Tonai Kohei , Kainuma Satoshi , Fukushima Satsuki 
Published: December 2023

Abstract
The combination of the Impella and peripheral venoarterial extracorporeal membrane oxygenation (Ecmella) is a promising treatment for critically ill patients. We report a single-access Ecmella approach using the brachiocephalic artery. A 65-year-old woman with acute myocardial infarction involving the left main coronary artery underwent intra-aortic balloon pump and peripheral venoarterial extracorporeal membrane oxygenation (VA-ECMO) placement. Given the progression of pulmonary congestion and lower limb ischaemia, and an axillary artery diameter of 4.9 mm, we decided to perform a single Ecmella approach. A Y-shaped 9-mm Dacron woven graft was anastomosed to the brachiocephalic artery through a reverse T-shaped partial sternotomy. The Impella 5.5 and arterial cannula of VA-ECMO were introduced through each graft. Six days after, VA-ECMO was removed. Sixty-two days after the surgery, the patient received durable left ventricle assist device implantation. In conclusion, haemodynamic support using a single-access Ecmella through brachiocephalic artery allows for managing patients with narrow peripheral arteries.
Riding the Wave of Renewable Energy: Exploring the Power of Carry Arrangements in the Green Industry
Authors: Adekanye Iyunola , Sobande Temitayo 
Published: December 2023

Abstract
This article will explore how Carry Arrangements, a sophisticated financing technique commonly used in oil and gas projects, can be adapted, and applied in the renewable energy industry. It will highlight the importance of oil and gas companies’ involvement in the low-carbon energy transition and how they can leverage their expertise in supply chain and market development to promote the deployment of low-carbon energy solutions. The article will discuss the potential of Carry Arrangements to facilitate collaboration between traditional energy players and renewable energy developers and accelerate the transition to a sustainable future. It will also examine the challenges and opportunities of applying Carry Arrangements in the renewable energy industry and provide recommendations for their successful implementation.
Liquid biopsy in H3K27M diffuse midline glioma
Authors: Patel Jina , Aittaleb Rayan , Doherty Robert , Gera Ananya , Lau Benison , Messinger Dana , Wadden Jack , Franson Andrea , Saratsis Amanda , Koschmann Carl 
Published: December 2023

Abstract
Diffuse midline glioma (DMG) with H3K27M mutation is an aggressive and difficult to treat pediatric brain tumor. Recurrent gain of function mutations in H3.3 (H3.3A) and H3.1 (H3C2) at the 27th lysine to methionine (H3K27M) are seen in over 2/3 of DMGs, and are associated with a worse prognosis. Due to the anatomical location of DMG, traditional biopsy carries risk for neurologic injury as it requires penetration of vital midline structures. Further, radiographic (MRI) monitoring of DMG often shows nonspecific changes, which makes therapeutic monitoring difficult. This indicates a critical need for more minimally invasive methods, such as liquid biopsy, to understand, diagnose, and monitor H3K27M DMG. Here, we review the use of all modalities to date to detect biomarkers of H3K27M in cerebrospinal fluid (CSF), blood, and urine, and compare their effectiveness in detection, diagnosis, and monitoring treatment response. We provide specific detail of recent efforts to monitor CSF and plasma H3K27M cell-free DNA in patients undergoing therapy with the imipridone ONC201. Lastly, we discuss the future of therapeutic monitoring of H3K27M-DMG, including biomarkers such as mitochondrial DNA, mutant and modified histones, and novel sequencing-based approaches for improved detection methods.
Rule by the Horse
Authors: Miller Bryan K. 
Published: December 2023

Abstract
This chapter surveys the social and economic institutions that the Xiongnu further developed in order to manage and maintain their expansive empire. In addition to practices of accounting and resource extraction, it divulges an array of common rites and materials that formed the core political culture of the empire—ornate belts being some of the most conspicuous accoutrements of elite constituents of the empire. The most substantial portion of the chapter presents the structured body of the Xiongnu entity, dissecting it into its peripheral regions of colonial enterprise, its interior regional networks, and its varied individual communities that served as the building blocks of empire. The picture gleaned from the full corpus of historical records and archaeological remains across Inner Asia exhibits an economically and sometimes culturally diverse yet politically cohesive empire.
Hunnic Heritage
Authors: Miller Bryan K. 
Published: December 2023

Abstract
This chapter probes those vestiges of the Xiongnu Empire that lived on in the culture, politics, and folklore of Eastern Eurasia. Archaeological remains exhibit straggling adherences to materials and practices of Xiongnu political culture, while historical accounts demonstrate the use of the Xiongnu name and its affiliated institutions in subsequent regimes established by groups from Inner Asia. Last, the chapter provides an overview of the longer history of Asia to demonstrate the persistent potency of the model of empire formulated by the Xiongnu and of the primacy of the Xiongnu legacy in literature and folk tales, just as in diplomacy and policy.
Epilogue
Authors: Miller Bryan K. 
Published: December 2023

Abstract
This final brief chapter revisits the problematic assumptions of nomads as the antithesis of the state, of political progress and of cultural sophistication. It argues that nomadic regimes, like many states, should not be analyzed according to notions of polities as systematic static machines but as living organic entities. The chapter also brings to bear the legacy of influence and pride associated with the Xiongnu, or Hunnu, in modern Mongolia as a catalyst for redressing prevailing portrayals and advocating for a greater place of the Xiongnu entity in world history.
Enter the Musical
Authors: Savran David 
Published: December 2023

Abstract
Although music theatre in Germany dates back hundreds of years, Broadway musicals were not imported until after World War II, when they were seen as being, like operetta, trivial entertainment. In 1961, however, My Fair Lady became a sensational success in West Berlin shortly after the erection of the Berlin Wall. In response, the East Germans started developing their own musicals, which supposedly demonstrated the decadence of the West. The first homegrown West German musical hit was Linie 1 (Subway Line #1) in 1986, which toured widely and was later adapted around the world, including South Korea. With the cultural shake-up that followed the fall of the Berlin Wall in 1989, German directors in state-subsidized theatre developed their own hybrids, such as Robert Wilson and Tom Waits’s The Black Rider, that mixed Broadway conventions with the experimental theatre idioms that had been evolving in Germany since the 1960s.
Afterword
Authors: Savran David 
Published: December 2023

Abstract
The Broadway-style musical functions globally as a lingua franca that is decipherable cross-culturally. It is, however, not one language but a compilation of as many idiolects as there are subcultures and ethnicities. It will be different each time it is extemporized, but it still manages to communicate not only information but also a rich tapestry of emotions. Its comprehensibility was proven to me when I saw Seopyeonje in Seoul, South Korea, and understood it despite my scant knowledge of Korean. It was also proven to me when I saw a summer production of La Cage aux Folles in a small German town that managed to challenge and transform one man’s homophobic response.
Punctuation—Who Needs It?
Authors: Spector Stephen 
Published: December 2023

Abstract
Let’s face it: writing isn’t a natural act. Our ancestors may have started speaking between fifty thousand and two million years ago, but it was only five thousand years ago that people started to write. Three thousand more years passed before they began to use a system of little points that eventually evolved into our modern punctuation. Then it took centuries for those punctuation practices to develop. To put that in perspective, let’s say that humanity has existed for twenty-four hours. By traditional estimates, more than twenty-three of those hours passed before people invented writing. And punctuation didn’t come along until closer to midnight.1
The Oxford Comma
Authors: Spector Stephen 
Published: December 2023

Abstract
A lot of people go a little crazy about whether to use the Oxford comma. Roy Peter Clark, the author of The Glamour of Grammar, told me that if he blogs about the conflict in Syria, he might get three responses. But if he defends the Oxford comma, his readers will fight about it for weeks. Mignon Fogarty, aka Grammar Girl, says that this is the comma that people ask her about the most.1 And when people learned that I was writing a book on punctuation, several of them immediately asked me one burning question: Where do I stand on the Oxford comma? Obviously it’s a celebrity punctuation mark.
Phonological Grammars
Authors: Archibald John 
Published: December 2023

Abstract
This chapter explores the construct of a phonological grammar with specific reference to syllable structure and stress. The background literature in the L2 acquisition of sub-syllabic constituents (e.g. onset and coda) is summarized, with illustrations of how differing repair strategies can reveal the influence of markedness and universals. Through the construct of ultimate attainment, the idea of full transfer / full access in phonology is explored. The chapter presents a critique of the influential stress ‘deafness’ literature and its oversimplification of the phonology of stress. The discussion of phonological licensing reveals how the interface of segments and syllables is important in understanding phonological parsing.
The Sedleian Professors of the Eighteenth Century
Authors: Aston Nigel 
Published: December 2023

Abstract
The four Sedleian Professors between 1704 and 1782—James Farrer, Charles Bertie, Joseph Browne, and Benjamin Wheeler—were not mathematicians and they had limited claims to being, as contemporaries would have understood the phrase, ‘natural philosophers’. None of them were Fellows of the Royal Society. Yet all were, in various ways, significant figures within eighteenth-century Oxford (Browne was Vice-Chancellor between 1759 and 1765), whose appointments to the chair are explicable given the workings of the patronage system at a time when personal connection rather than innate talent was the overriding decider in advancement. Their careers and, by extension, their attitudes to the remit of the professorship merit recovery from any dismissive notice.
Thomas Hornsby
Authors: Bennett Jim 
Published: December 2023

Abstract
Thomas Hornsby was one of those quietly effective eighteenth-century academic scientists in holy orders who are too easily overlooked by historians of science. There is no biography beyond the one in the ODNB. He spent his whole career in Oxford, holding both the Savilian Professorship of Astronomy (1763–1810) and the Sedleian Professorship of Natural Philosophy (1782–1810). He was also Professor of Experimental Philosophy, concurrently with the Savilian Chair, and from 1783 Radcliffe Librarian. A major achievement was the foundation and equipping of the Radcliffe Observatory, where observations began in 1774, and he developed the experimental philosophy collection used for his lectures, which were given in the School of Natural History in the same building as the Ashmolean Museum. The record of this collection, and the lectures Hornsby delivered with their assistance, is extensive and is one of the finest registers in English of the eighteenth-century tradition of philosophical lecturing. Unfortunately, none of these instruments are known to have survived, unlike those of the Radcliffe Observatory. Outside Oxford he was active in the Royal Society and his involvement with the Board of Longitude is especially interesting, coming as it did at a time of lively activity and national prominence for the board.
Recovering prosody from Karuk texts
Authors: Sandy Clare S. 
Published: December 2023

Abstract
In the 1920s, J. P. Harrington made voluminous transcriptions of Karuk, which has a complex system of word-level prosody. This chapter demonstrates that useful prosodic data can be gleaned from Harrington’s baroque and unfamiliar system of diacritic marks. Published texts, archival materials, and historic recordings of master Karuk speakers are analyzed to provide a translation of Harrington’s diacritics into modern Karuk orthography and a contemporary linguistic interpretation of them. The analysis shows that Harrington’s accentual notation is highly phonetically accurate, making a large corpus of transcribed texts useable for synchronic and diachronic study of Karuk accent. Further, Harrington demonstrates reference to an abstract level of representation in a subset of his accent marking, which is unexpected in his surface-oriented phonetic transcriptions. Harrington’s reputation for accurate but over-differentiated transcriptions is thus both affirmed and complicated.
Sound structure and the psycholinguistics of language contact
Authors: Babel Molly , Fricke Melinda 
Published: December 2023

Abstract
In this chapter we propose a conceptualization of the literatures on language contact and mutual influence of sound categories in terms of three interrelated areas of inquiry: Static Knowledge of Phonetic Categories, Dynamic Processes of Cross-Linguistic Influence, and Relating Individuals to Communities. The overarching question to be answered is, how do processes of cross-language interaction within an individual speaker shape sound patterns in the context of languages in contact, such that the community norms are shifted? To this end, we highlight and attempt to synthesize partially overlapping areas of these literatures with the express purpose of building towards a framework for understanding sound patterns in language contact. The ultimate goal is to develop a mechanistic, psycholinguistically-informed model of sound-related language contact phenomena, and to sketch a research agenda in pursuit of such a model.
Language change in small-scale multilingual societies
Authors: Good Jeff 
Published: December 2023

Abstract
The tree and wave models of linguistic diversification represent the most longstanding approaches to understanding the ways in which linguistic subgroups develop. Such highly schematic scenarios, however, lack the sociolinguistic grounding that would be needed to fully understand the range of historical processes that trigger the formation of new subgroups, and there is evidence that tree-like patterns of linguistic diversification may be associated with radically different underlying sociohistories. This chapter proposes a new historical path to the development of tree-like patterns through changes initiated and reinforced by what will be termed magnetic sociolinguistic dynamics. Support for this proposal is drawn from languages spoken by small-scale societies in a rural African region, a sociolinguistic context which has not received significant attention in the literature on linguistic diversification, even though it is likely historically typical for many parts of Africa and beyond.
Strawson’s Basic Particulars
Authors: Snowdon Paul 
Published: December 2023

Abstract
This chapter analyses P.F. Strawson’s argument in chapter 1 of Individuals for the claim that material particulars are the basic particulars in our conceptual scheme. It is asked what group is meant by this third person pronoun and it is not exactly clear. Strawson’s argument starts from the characterization of understanding reference in terms of hearers identifying particulars. The present chapter suggests that understanding reference should not be analysed in terms of identification. Strawson next suggests that demonstratives are the central case with other reference employing spatio-temporal descriptions capturing items outside the demonstrable. It is tentatively suggested in response that demonstration is less connected itself with locatability and that extra descriptions need not be spatio-temporal. Next Strawson provides a transcendental argument to show that we have knowledge-generating methods for making identifications without continuous observation. It would be questionable to deny that we do have such methods but his argument contains some steps which may be deniable. In the final stage of his argument Strawson claims it follows that material objects are the basic objects of reference for us. It is suggested that this may overlook the possibility of very primitive spatial thinking, and that the debate should not assume, as Strawson does, that the basic choice is between material objects and events.
Strawson’s Metacritique
Authors: Gomes Anil 
Published: December 2023

Abstract
What is the status of the claims which make up Kant’s arguments in the Critique of Pure Reason? This question seemed to Kant’s contemporaries to require a metacritique. Strawson’s criticisms of Kant should be understood in this context: as raising a metacritical challenge about Kant’s grounds for the claims which make up his arguments. What about the claims which make up Strawson’s own arguments in The Bounds of Sense? This chapter argues, against what it takes to be the general consensus, that Strawson did not and should not have understood these claims to be analytic. Rather he is somewhat puzzlingly committed to our possessing non-analytic but still a priori knowledge of his claims. What could such knowledge consist in? The chapter extracts from G.E. Moore’s early writings on Kant a model for understanding such knowledge, one which enables us to better appreciate the way in which Strawson’s methodology dovetails with Kant’s own.