bluuebunny/crossref_metadata_2025_split huggingface dataset:
William Williams, Anachronism, and the Temporal Logic of Textual Recovery (1776/1815/1969)
Authors: Pethers Matthew 
Published: February 2024

Abstract
This article takes the distinctive publishing history of William Williams’s Robinsonade novel Mr. Penrose as a prompt to challenge conventional assumptions about the temporal logic of textual recovery. Scholars typically make a case for the value of forgotten or neglected texts by emphasizing forms of “creative anachronism” in which an author is said to be ahead of their time in ways only recognizable by posterity. Mr. Penrose, written in America in 1776, published in a heavily redacted version in Britain in 1815, and finally published in full in 1969, offers a means of apprehending the far less familiar dynamics of “pathetic anachronism,” wherein a text repeatedly fails to connect with the successive historical moments of its appearance and remains uncanonized. This stalled trajectory of Williams’s novel helps to illuminate the limitations of conventional discourses of textual recovery by tracing them back to tropes of the “found manuscript” and transatlantic shifts in genre popularity in the eighteenth century, as well as Romantic theories of temporal disjunction and the emergence of the historical novel in the nineteenth century and models of textual editing and debates over “the first American novel” in the twentieth century.These three versions of Williams’s novel . . . help us to see how various intellectual, aesthetic, generic, and material factors can mitigate against a text fitting into the mechanisms critics typically deploy to advance the positive qualities of anachronism.
Archives of Rejection
Authors: Kotin Joshua 
Published: February 2024

Abstract
What can we learn about unpublished literature—and literature as such—by studying rejected literature? Each of the article’s four sections connects an archival document or set of documents to a topic in literary history and theory. In the first, a ledger tracking submissions to Charles Scribner’s Sons in 1882 leads to a discussion about recovery projects. In the second, a century of Houghton Mifflin reader reports leads to a discussion about evaluation. In the third, a novel submitted to Sylvia Beach at Shakespeare and Company in 1930 leads to a discussion about historical counterfactuals. In the fourth, correspondence from the archives of Amiri Baraka and his agent, Ronald Hobbs, from the 1970s leads to a discussion about taste. Together, these sections introduce a resource and exemplify a method: how attention to small, practical decisions can illuminate large, abstract processes.By attending to editorial debates about poetry, we can understand what artistic value meant to specific people in specific contexts—and thus what it might mean in general. Poetry, in other words, promises to illuminate what’s literary about literary history.
Data Bodies
Authors: Clark Rebecca B 
Published: February 2024

Abstract
This essay examines two recent books that each take up the vexed topic bodies of data in relation to literature and race in the US: Richard Jean So’s Redlining Culture: A Data History of Racial Inequality and Postwar Fiction and Elizabeth Rodrigues’s Collecting Lives: Critical Data Narrative as Modernist Aesthetic in Early Twentieth-Century U.S. Literatures. Each book, in its own way, asks literary scholars to take the data corpus seriously as both an object and a method of study. While acknowledging that the collection of bodies of data has long been used to efface, dehumanize, and racialize, So and Rodrigues ask readers not to dismiss reactively the data corpus’s potential to also be an unexpected tool for refuting those same naturalized and totalizing narratives. Contemplating, as they do, the unique temporality and spatiality of the accretion of singular points into a collective data, the books explore what a data corpus looks, feels, and sounds like and what it might tell us about the relationship between bodies, books in twentieth-century US literature, and the stories that have and could be told about both.Thinking in different ways about the vexed relationship between bodies of data, literature, and race in the US, Rodrigues and So each demonstrate that, while data cannot speak for itself, there are some stories we can neither hear, see, nor tell without its help.
Trilling Redux
Authors: Murphy Geraldine 
Published: February 2024

Abstract
This short essay considers the cultural and historical context of Lionel Trilling’s unfinished, unpublished novel in response to Michael Kalisch’s essay for this issue. Written in the 1940s, The Journey Abandoned (editor’s title) reprises Trilling’s preoccupations in The Liberal Imagination with anti-Stalinist liberalism and Cold War modernism and emphasizes the importance of American literature to Trilling at the beginning of his career as both a critic and a novelist. Trilling championed those writers—and created fictional characters—whose thinking affirmed and resisted the status quo. The dynamism of dialectical thinking that enlivened his essays also echoed the pluralist model of consensus liberalism, in which multitude conflicts were in continual negotiation. In concluding, the essay suggests that the unfinished novel, perpetually open to interpretation, is an apt tribute to Trilling’s signature mode of thought.Ambitious and having to make his way professionally (he had just become an assistant professor in 1939), Trilling saw American literature as a vehicle of upward mobility for himself, just as it was for Vincent.
A semantics for moral error theory
Authors: Behrens Singa 
Published: February 2024

Abstract
Moral error theory has been criticized on formal grounds for lacking a coherent semantics of moral sentences. In this paper, I provide a truthmaker-based semantics of moral sentences that is compatible with moral error theory. The hyperintensional account draws attention to the exact truth- and falsemakers of moral propositions. Error theorists must assume that propositions that have only moral truthmakers have at least one non-moral falsemaker. A central consequence of the discussion is that moral error theory is compatible with a classical logic of moral notions.
Impact of heat and a rest-shade-hydration intervention program on productivity of piece-paid industrial agricultural workers at risk of chronic kidney disease of nontraditional origin
Authors: Hansson Erik , Jakobsson Kristina , Glaser Jason , Wesseling Catharina , Chavarria Denis , Lucas Rebekah A I , Prince Heath , Wegman David H 
Published: February 2024

Abstract

Objectives
Assess the impact of environmental heat and a rest-shade-hydration (RSH) intervention against heat stress on productivity of piece-paid Mesoamerican sugarcane cutters. These workers are at a high risk of chronic kidney disease of non-traditional origin (CKDnt), from the severe heat stress they experience due to heavy work under hot conditions. RSH interventions in these populations improve kidney health outcomes, but their impact on productivity has yet to be examined.

Methods
We accessed routine productivity data from seed (SC, N = 749) and burned (BCC, N = 535) sugarcane cutters observed over five harvest seasons with increasing RSH intervention at a large Nicaraguan sugarcane mill. Hourly field-site wet-bulb globe temperature (WBGT) was recorded by mill staff and summarized as a daily mean. Mixed linear regression was used to model daily productivity, adjusting for age (18–29, 30–44, and &gt;45 years), sex, WBGT (&lt;28, 28–29, 29–30, 30–31, and &gt;31 °C) on the same and preceding day, harvest season (2017–18 to 2021–22), month, and acclimatization status (&lt;1, 1–2, and &gt;2 weeks).

Results
There was an inverse dose–response relationship between SC productivity and WBGT on the same and preceding days, decreasing by approximately 3%/°C WBGT. Productivity increased during the study period, i.e. coinciding with RSH scale-up, by approximately 19% in SC and 9% in BCC.

Conclusion
Agricultural worker productivity was expected lower on hotter days, strengthening the interest in all stakeholders to mitigate increasing global temperatures and their impact. Despite decreasing the total time allocated for work each day, an RSH intervention appears to result in increased productivity and no apparent loss in productivity.
Histochemical, metabolic and ultrastructural changes in leaf patelliform nectaries explain extrafloral nectar synthesis and secretion in Clerodendrum chinense
Authors: Paul Shobhon , Mitra Adinpunya 
Published: February 2024

Abstract

Background and Aims
Extrafloral nectaries are nectar-secreting structures present on vegetative parts of plants which provide indirect defences against herbivore attack. Extrafloral nectaries in Clerodendrum chinense are patelliform-shaped specialized trichomatous structures. However, a complete understanding of patelliform extrafloral nectaries in general, and of C. chinense in particular, has not yet been established to provide fundamental insight into the cellular physiological machinery involved in nectar biosynthesis and secretory processes.

Methods
We studied temporal changes in the morphological, anatomical and ultrastructural features in the architectures of extrafloral nectaries. We also compared metabolite profiles of extrafloral nectar, nectary tissue, non-nectary tissue and phloem sap. Further, both in situ histolocalization and normal in vitro activities of enzymes related to sugar metabolism were examined.

Key Results
Four distinct tissue regions in the nectar gland were revealed from histochemical characterization, among which the middle nectariferous tissue was found to be the metabolically active region, while the intermediate layer was found to be lipid-rich. Ultrastructural study showed the presence of a large number of mitochondria along with starch-bearing chloroplasts in the nectariferous region. However, starch depletion was noted with progressive maturation of nectaries. Metabolite analysis revealed compositional differences among nectar, phloem sap, nectary and non-nectary tissue. Invertase activity was higher in secretory stages and localized in nectariferous tissue and adjacent region.

Conclusions
Our study suggests extrafloral nectar secretion in C. chinense to be both eccrine and merocrine in nature. A distinct intermediate lipid-rich layer that separates the epidermis from nectary parenchyma was revealed, which possibly acts as a barrier to water flow in nectar. This study also revealed a distinction between nectar and phloem sap, and starch could act as a nectar precursor, as evidenced from enzymatic and ultrastructural studies. Thus, our findings on changing architecture of extrafloral nectaries with temporal secretion revealed a cell physiological process involved in nectar biosynthesis and secretion.
Orchid seeds are not always short lived in a conventional seed bank!
Authors: Francisqueti Ana Maria , Marin Rafael Rubio , Hengling Mariane Marangoni , Hosomi Silvério Takao , Pritchard Hugh W , Custódio Ceci Castilho , Machado-Neto Nelson Barbosa 
Published: February 2024

Abstract

Background and Aims
Orchid seeds are reputed to be short lived in dry, cold storage conditions, potentially limiting the use of conventional seed banks for long-term ex situ conservation. This work explores whether Cattleya seeds are long lived or not during conventional storage (predried to ~12 % relative humidity, then stored at −18 °C).

Methods
We explored the possible interaction of factors influencing seed lifespan in eight species of the genus Cattleya using physiological (germination and vigour), biochemical (gas chromatography), biophysical (differential scanning calorimetry) and morphometric methods. Seeds were desiccated to ~3 % moisture content and stored at −18 °C for more than a decade, and seed quality was measured via three in vitro germination techniques. Tetrazolium staining was also used to monitor seed viability during storage. The morphometric and germination data were subjected to ANOVA and cluster analysis, and seed lifespan was subjected to probit analysis.

Key Results
Seeds of all Cattleya species were found to be desiccation tolerant, with predicted storage lifespans (P50y) of ~30 years for six species and much longer for two species. Cluster analysis showed that the three species with the longest-lived seeds had smaller (9–11 %) airspaces around the embryo. The post-storage germination method impacted the quality assessment; seeds equilibrated at room temperature for 24 h or in 10 % sucrose solution had improved germination, particularly for the seeds with the smallest embryos. Chromatography revealed that the seeds of all eight species were rich in linoleic acid, and differential scanning calorimetry identified a peak that might be auxiliary to selecting long-lived seeds.

Conclusions
These findings show that not all orchids produce seeds that are short lived, and our trait analyses might help to strengthen prediction of seed longevity in diverse orchid species.
Analyses of high spatial resolution datasets identify genes associated with multi-layered secondary cell wall thickening in Pinus bungeana
Authors: Guo Yu , Jiao Lichao , Wang Jie , Ma Lingyu , Lu Yang , Zhang Yonggang , Guo Juan , Yin Yafang 
Published: February 2024

Abstract

Background and Aims
Secondary cell wall (SCW) thickening is a major cellular developmental stage determining wood structure and properties. Although the molecular regulation of cell wall deposition during tracheary element differentiation has been well established in primary growth systems, less is known about the gene regulatory processes involved in the multi-layered SCW thickening of mature trees.

Methods
Using third-generation [long-read single-molecule real-time (SMRT)] and second-generation [short-read sequencing by synthesis (SBS)] sequencing methods, we established a Pinus bungeana transcriptome resource with comprehensive functional and structural annotation for the first time. Using these approaches, we generated high spatial resolution datasets for the vascular cambium, xylem expansion regions, early SCW thickening, late SCW thickening and mature xylem tissues of 71-year-old Pinus bungeana trees.

Key Results
A total of 79 390 non-redundant transcripts, 31 808 long non-coding RNAs and 5147 transcription factors were annotated and quantified in different xylem tissues at all growth and differentiation stages. Furthermore, using this high spatial resolution dataset, we established a comprehensive transcriptomic profile and found that members of the NAC, WRKY, SUS, CESA and LAC gene families are major players in early SCW formation in tracheids, whereas members of the MYB and LBD transcription factor families are highly expressed during late SCW thickening.

Conclusions
Our results provide new molecular insights into the regulation of multi-layered SCW thickening in conifers. The high spatial resolution datasets provided can serve as important gene resources for improving softwoods.
Non-compensable regulation and regulatory expropriation: where is the line?
Authors: Riazantsev Mikhail 
Published: February 2024

Abstract
Having examined the police powers doctrine and clarified expropriation clauses, this study concludes that neither of the two instruments can draw the line between non-compensable regulation and regulatory expropriation in a predictable and consistent manner. The outcome of expropriation cases depends significantly on tribunals’ discretion and their ex post interpretation of State actions. In this paradigm, investors and States cannot assess their risks at the time of investment or regulation. Every decision to invest or to regulate becomes a gamble. There is a need for more objective and clear rules to distinguish expropriation and regulation in international investment law.
FEOpti-ACVP: identification of novel anti-coronavirus peptide sequences based on feature engineering and optimization
Authors: Jiang Jici , Pei Hongdi , Li Jiayu , Li Mingxin , Zou Quan , Lv Zhibin 
Published: February 2024

AbstractAnti-coronavirus peptides (ACVPs) represent a relatively novel approach of inhibiting the adsorption and fusion of the virus with human cells. Several peptide-based inhibitors showed promise as potential therapeutic drug candidates. However, identifying such peptides in laboratory experiments is both costly and time consuming. Therefore, there is growing interest in using computational methods to predict ACVPs. Here, we describe a model for the prediction of ACVPs that is based on the combination of feature engineering (FE) optimization and deep representation learning. FEOpti-ACVP was pre-trained using two feature extraction frameworks. At the next step, several machine learning approaches were tested in to construct the final algorithm. The final version of FEOpti-ACVP outperformed existing methods used for ACVPs prediction and it has the potential to become a valuable tool in ACVP drug design. A user-friendly webserver of FEOpti-ACVP can be accessed at http://servers.aibiochem.net/soft/FEOpti-ACVP/.
scEVOLVE: cell-type incremental annotation without forgetting for single-cell RNA-seq data
Authors: Zhai Yuyao , Chen Liang , Deng Minghua 
Published: February 2024

AbstractThe evolution in single-cell RNA sequencing (scRNA-seq) technology has opened a new avenue for researchers to inspect cellular heterogeneity with single-cell precision. One crucial aspect of this technology is cell-type annotation, which is fundamental for any subsequent analysis in single-cell data mining. Recently, the scientific community has seen a surge in the development of automatic annotation methods aimed at this task. However, these methods generally operate at a steady-state total cell-type capacity, significantly restricting the cell annotation systems'capacity for continuous knowledge acquisition. Furthermore, creating a unified scRNA-seq annotation system remains challenged by the need to progressively expand its understanding of ever-increasing cell-type concepts derived from a continuous data stream. In response to these challenges, this paper presents a novel and challenging setting for annotation, namely cell-type incremental annotation. This concept is designed to perpetually enhance cell-type knowledge, gleaned from continuously incoming data. This task encounters difficulty with data stream samples that can only be observed once, leading to catastrophic forgetting. To address this problem, we introduce our breakthrough methodology termed scEVOLVE, an incremental annotation method. This innovative approach is built upon the methodology of contrastive sample replay combined with the fundamental principle of partition confidence maximization. Specifically, we initially retain and replay sections of the old data in each subsequent training phase, then establish a unique prototypical learning objective to mitigate the cell-type imbalance problem, as an alternative to using cross-entropy. To effectively emulate a model that trains concurrently with complete data, we introduce a cell-type decorrelation strategy that efficiently scatters feature representations of each cell type uniformly. We constructed the scEVOLVE framework with simplicity and ease of integration into most deep softmax-based single-cell annotation methods. Thorough experiments conducted on a range of meticulously constructed benchmarks consistently prove that our methodology can incrementally learn numerous cell types over an extended period, outperforming other strategies that fail quickly. As far as our knowledge extends, this is the first attempt to propose and formulate an end-to-end algorithm framework to address this new, practical task. Additionally, scEVOLVE, coded in Python using the Pytorch machine-learning library, is freely accessible at https://github.com/aimeeyaoyao/scEVOLVE.
EvoAug-TF: extending evolution-inspired data augmentations for genomic deep learning to TensorFlow
Authors: Yu Yiyang , Muthukumar Shivani , Koo Peter K 
Published: February 2024

Abstract

Summary
Deep neural networks (DNNs) have been widely applied to predict the molecular functions of the non-coding genome. DNNs are data hungry and thus require many training examples to fit data well. However, functional genomics experiments typically generate limited amounts of data, constrained by the activity levels of the molecular function under study inside the cell. Recently, EvoAug was introduced to train a genomic DNN with evolution-inspired augmentations. EvoAug-trained DNNs have demonstrated improved generalization and interpretability with attribution analysis. However, EvoAug only supports PyTorch-based models, which limits its applications to a broad class of genomic DNNs based in TensorFlow. Here, we extend EvoAug’s functionality to TensorFlow in a new package, we call EvoAug-TF. Through a systematic benchmark, we find that EvoAug-TF yields comparable performance with the original EvoAug package.

Availability and implementation
EvoAug-TF is freely available for users and is distributed under an open-source MIT license. Researchers can access the open-source code on GitHub (https://github.com/p-koo/evoaug-tf). The pre-compiled package is provided via PyPI (https://pypi.org/project/evoaug-tf) with in-depth documentation on ReadTheDocs (https://evoaug-tf.readthedocs.io). The scripts for reproducing the results are available at (https://github.com/p-koo/evoaug-tf_analysis).
Insular evolution from an archaeological perspective: a case study of Orkney house mouse
Authors: Romaniuk Andrzej A , Renaud Sabrina , Bendrey Robin , Searle Jeremy B , Owen Olwyn , Herman Jeremy 
Published: February 2024

Abstract
Archaeological material adds a temporal dimension to evolutionary studies that is valuable for elucidating long-term population stability and evolutionary shifts for species closely associated with humans. Here, a two-dimensional geometric morphometrics approach on first upper molars was applied to modern and archaeological samples to assess the evolution of house mice in Orkney, an archipelago north of Scotland. Modern populations included localities in Orkney, north Scotland, and France. Two archaeological sites in Orkney represented the Norse period: Birsay Beachview (Mainland) and Tuquoy (Westray) (10th–14th/15th centuries AD). The archaeological specimens were larger than modern specimens from similar settings, suggesting processes leading to a recent decline in the size of Orkney house mice. Molar morphology and associated non-metric traits distinct to the Orkney lineage were already established in the Norse period, as indicated by morphological similarity of the Birsay samples to modern Orkney and north Scotland populations. Stability of human settlement is likely to influence morphological evolution in house mice. The Birsay site, located in Birsay village, which has been inhabited since Norse times, might represent the ancestral house mouse population in Orkney. Tuquoy, a settlement abandoned by the end of the medieval period, provided samples different from modern house mouse populations in Westray and neighbouring isles.
A critique of the use of colour lightness in animal studies
Authors: Lopez Vinicius M , Datto-Liberato Felipe , Gorb Stanislav N , Guillermo-Ferreira Rhainer 
Published: February 2024

Abstract
Colour lightness has received considerable attention owing to its diverse functional aspects, such as in thermoregulation, pathogen resistance, and photoprotection. However, the theoretical basis underlying the function of colour lightness is closely related to melanin pigments. Therefore, here we discuss that neglecting other colour-producing mechanisms may bias interpretation of the results. In general, colour lightness is indiscriminately employed as a measure of melanization. Nevertheless, animals may exhibit colours that derive from several pigmentary and structural mechanisms other than melanin. Our primary argument is that colour lightness should not be used indiscriminately before knowing the colour-producing mechanism and validating correlated physiological parameters. For instance, the use of colour lightness as a proxy for thermal or photoprotection function must be validated for pterins, ommochromes, and structural colours.