bluuebunny/crossref_metadata_2025_split huggingface dataset:
Risk factors associated with progression from papilloedema to optic atrophy: results from a cohort of 113 patients
Authors: Attia Ruben , Fitoussi Ruben , Mairot Kevin , Demortiere Sarah , Stellman Jan-Patrick , Tilsley Penelope , Audoin Bertrand , David Thierry , Stolowy Natacha 
Published: November 2023

BackgroundThe aim of this study was to assess the risk factors for atrophic progression of patients with papilloedema secondary to intracranial hypertension, using optical coherence tomography parameters.MethodsA retrospective study was conducted at Marseille University Hospitals’ Ophthalmology departments between December 2015 and December 2021. All patients with papilloedema resulting from elevated intracranial hypertension at the initial presentation were included. Ophthalmological evaluations included analysing retinal nerve fibre layer (RNFL), ganglion cell layer (GCL) and total peripapillary retinal thickness (RT).ResultsThe study included 222 eyes from 113 patients. The main aetiologies of intracranial hypertension were idiopathic intracranial hypertension (49/113), intracranial tumours (33/113) and cerebral venous thrombosis (15/113). The initial RNFL and RT showed significant correlations with optic atrophy. The mean RNFL was 199.63 µm in the ‘no atrophy’ group and 365.28 µm in the ‘atrophy’ group (p<0.001). Similarly, the mean RT was 483.72 µm in the ‘non-atrophy’ group and 796.69 µm in the ‘atrophy’ group (p<0.001). The presence of peripapillary haemorrhages showed a strong correlated with optic atrophy with an OR=19.12 (p<0.001). Impaired initial visual acuity was also associated with final optic atrophy with an OR=7.76 (p=0.020). Furthermore, impaired initial GCL was a major predictor of optic atrophy (OR=18.25 (p=0.021)).ConclusionOur study highlights the risk factors for optic atrophy in papilloedema, aiming to facilitate the early detection of patients at a high risk of vision loss and enable more aggressive medical or surgical management.
Extension VM: Interleaved Data Layout in Vector Memory
Authors: Zhang Dunbo , Lang Qingjie , Wang Ruoxi , Shen Li 
Published: November 2023

While vector architecture is widely employed in processors for neural networks, signal processing, and high-performance computing; however, its performance is limited by inefficient column-major memory access. The column-major access limitation originates from the unsuitable mapping of multidimensional data structures to two-dimensional vector memory spaces. In addition, the traditional data layout mapping method creates an irreconcilable conflict between row- and column-major accesses. Ideally, both row- and column-major accesses can take advantage of the bank parallelism of vector memory.
To this end, we propose the Interleaved Data Layout (IDL) method in vector memory, which can distribute vector elements into different banks regardless of whether they are in the row- or column-major category, so that any vector memory access can benefit from bank parallelism. Additionally, we propose an Extension Vector Memory (EVM) architecture to achieve IDL in vector memory. EVM can support two data layout methods and vector memory access modes simultaneously. The key idea is to continuously distribute the data that needs to be accessed from the main memory to different banks during the loading period. Thus, EVM can provide a larger spatial locality level through careful programming and the extension ISA support.
The experimental results showed a 1.43-fold improvement of state-of-the-art vector processors by the proposed architecture, with an area cost of only 1.73%. Furthermore, the energy consumption was reduced by 50.1%.
CRISPR Screening Identifies Mechanisms of Resistance to KRASG12C and SHP2 Inhibitor Combinations in Non–Small Cell Lung Cancer
Authors: Prahallad Anirudh , Weiss Andreas , Voshol Hans , Kerr Grainne , Sprouffske Kathleen , Yuan Tina , Ruddy David , Meistertzheim Morgane , Kazic-Legueux Malika , Kottarathil Tina , Piquet Michelle , Cao Yichen , Martinuzzi-Duboc Laetitia , Buhles Alexandra , Adler Flavia , Mannino Salvatore , Tordella Luca , Sansregret Laurent , Maira Sauveur-Michel , Graus Porta Diana , Fedele Carmine , Brachmann Saskia M. 
Published: November 2023

Abstract

Although KRASG12C inhibitors show clinical activity in patients with KRAS G12C mutated non–small cell lung cancer (NSCLC) and other solid tumor malignancies, response is limited by multiple mechanisms of resistance. The KRASG12C inhibitor JDQ443 shows enhanced preclinical antitumor activity combined with the SHP2 inhibitor TNO155, and the combination is currently under clinical evaluation. To identify rational combination strategies that could help overcome or prevent some types of resistance, we evaluated the duration of tumor responses to JDQ443 ± TNO155, alone or combined with the PI3Kα inhibitor alpelisib and/or the cyclin-dependent kinase 4/6 inhibitor ribociclib, in xenograft models derived from a KRASG12C-mutant NSCLC line and investigated the genetic mechanisms associated with loss of response to combined KRASG12C/SHP2 inhibition. Tumor regression by single-agent JDQ443 at clinically relevant doses lasted on average 2 weeks and was increasingly extended by the double, triple, or quadruple combinations. Growth resumption was accompanied by progressively increased KRAS G12C amplification. Functional genome-wide CRISPR screening in KRASG12C-dependent NSCLC lines with distinct mutational profiles to identify adaptive mechanisms of resistance revealed sensitizing and rescuing genetic interactions with KRASG12C/SHP2 coinhibition; FGFR1 loss was the strongest sensitizer, and PTEN loss the strongest rescuer. Consistently, the antiproliferative activity of KRASG12C/SHP2 inhibition was strongly enhanced by PI3K inhibitors. Overall, KRAS G12C amplification and alterations of the MAPK/PI3K pathway were predominant mechanisms of resistance to combined KRASG12C/SHP2 inhibitors in preclinical settings. The biological nodes identified by CRISPR screening might provide additional starting points for effective combination treatments.

Significance:
Identification of resistance mechanisms to KRASG12C/SHP2 coinhibition highlights the need for additional combination therapies for lung cancer beyond on-pathway combinations and offers the basis for development of more effective combination approaches.
See related commentary by Johnson and Haigis, p. 4005
LINC00869 Promotes Hepatocellular Carcinoma Metastasis via Protrusion Formation
Authors: Shao Xiaowen , Dang Yamei , Zhang Tingting , Bai Nan , Huang Jianing , Guo Mengya , Sun Li , Li Minghe , Sun Xiao , Zhang Xinran , Han Feng , Zhang Ning , Zhuang Hao , Li Yongmei 
Published: November 2023

Abstract

Coordination of filament assembly and membrane remodeling is required for the directional migration of cancer cells. The Wiskott–Aldrich syndrome protein (WASP) recruits the actin-related protein (ARP) 2/3 complex to assemble branched actin networks. The goal of our study was to assess the potential regulatory role exerted by the novel long noncoding RNA (lncRNA) LINC00869 on hepatocellular carcinoma (HCC) cells. We used HCC cells to overexpress or knockdown LINC00869, analyzed patient data from publicly available databases and Cancer Hospital Affiliated with Zhengzhou University, and used a xenograft mouse model of HCC to study the molecular mechanism associated with LINC00869 expression. We found that high levels of LINC00869 expression were associated with poor prognosis in patients with HCC. Next, we detected an interaction between LINC00869 and both WASP and ARP2 in HCC cells, and observed a modulatory effect of LINC00869 on the phosphorylation of WASP at Y291 and the activity of cell division control protein 42 (CDC42). These modulatory roles were required for WASP/CDC42 activity on F-actin polymerization to enhance membrane protrusion formation and maintain persistent cell polarization. This, in turn, promoted the migration and invasion abilities of HCC cells. Finally, we confirmed the role of LINC00869in vivo, using the tumor xenograft mouse model; and identified a positive correlation between LINC00869 expression levels and the phosphorylation levels of WASP in HCC samples. Overall, our findings suggest a unique mechanism by which LINC00869 orchestrates membrane protrusion during migration and invasion of HCC cells.

Implications:
LncRNA LINC00869 regulates the activity of CDC42–WASP pathway and positively affects protrusion formation in HCC cells, which expands the current understanding of lncRNA functions as well as gives a better understanding of carcinogenesis.
Lung Cancer Mimicking Aspergilloma: A Case Report
Authors: Wasim Jamal Sheikh M. , Aboukamar Mohamed R. , Khatib Mohamad , Al Maslamani Muna , Nashwan Abdulqadir J. 
Published: November 2023

An aspergilloma is a conglomeration of <i>Aspergillus</i> hyphae, fibrin, mucus, and cellular debris, typically found within a pulmonary cavity or ectatic bronchus. Computerized tomography (CT) scans often depict a cavity containing a solid mass and a notable crescent sign. Though these signs are indicative of aspergilloma, the European Respiratory Society emphasizes the need for a more detailed diagnostic criteria. A patient with a history of hemoptysis was initially diagnosed with an aspergilloma based on CT chest findings, showing a cavitary lesion in the left upper lobe with an intracavitary lobular opacity. Post resection, histological examination contradicted the initial diagnosis, revealing lung cancer instead. This case underscores the importance of tissue diagnosis from the outset or employing a multifaceted diagnostic criteria encompassing radiological findings, serology and microbiology tests. In the absence of an initial tissue diagnosis, rigorous follow-up, including early interval scanning, is crucial.
Possible Occurrence of Delayed Leukoencephalopathy Following Acute Ischemic Stroke With Large‐Vessel Occlusion
Authors: Sato Takeo , Matsushima Satoshi , Okumura Motohiro , Maku Takahiro , Kitagawa Tomomichi , Tanabe Maki , Takatsu Hiroki , Komatsu Teppei , Sakai Kenichiro , Sakuta Kenichi , Umehara Tadashi , Murakami Hidetomo , Mitsumura Hidetaka , Matsushima Masato , Iguchi Yasuyuki 
Published: November 2023

Background
Typically detected at least 14 days after acute ischemic stroke onset, delayed leukoencephalopathy (DL) involves diffuse hyperintensities restricted to white matter on fluid‐attenuated inversion recovery accompanied mostly by partial diffusion‐weighted image hyperintensities. DL cases, which are rarely reported, have occurred after large‐vessel occlusion (LVO). Herein, we aim to elucidate the incidence and factors associated with DL.

Methods
Our study covers consecutive ischemic strokes involving: (1) onset‐to‐door time within 7 days and (2) available scans from at least a second magnetic resonance imaging procedure at least 14 days after onset. First, we examined the incidence of DL generally and whether LVO could be a risk factor for DL in ischemic strokes generally, and second, we examined the incidence and risk factors associated with DL in patients with LVO.

Results

We screened 1857 consecutive patients with ischemic stroke and selected 792 general patients—573 (72%) men, median age 67 years—and 183 patients with LVO—128 (70%) men, median age 67 years. DL was detected in 2.3% of the general patients and 9.2% of the patients with LVO ischemic stroke. LVO was strongly associated with DL (odds ratio [OR], 69.1 [95 CI, 9.06–526];
P
<0.001). Among patients with LVO, DL‐associated factors were age/10 years (OR, 1.76 [95% CI, 1.13–2.75];
P
=0.012), low‐density lipoprotein cholesterol/10 mg/dL (OR, 0.863 [95% CI, 0.745–1.00];
P
=0.049), complete recanalization (OR, not calculable;
P
<0.001), and endovascular therapy (OR, 17.4 [95% CI, 4.44–68.5];
P
<0.001).

Conclusion
DL might not be rare following LVO. We speculate that certain risk factors and their combinations are key in the development of DL.
Improving Extraction of Chinese Open Relations Using Pre-trained Language Model and Knowledge Enhancement
Authors: Wen Chaojie , Jia Xudong , Chen Tao 
Published: November 2023

ABSTRACT
Open Relation Extraction (ORE) is a task of extracting semantic relations from a text document. Current ORE systems have significantly improved their efficiency in obtaining Chinese relations, when compared with conventional systems which heavily depend on feature engineering or syntactic parsing. However, the ORE systems do not use robust neural networks such as pre-trained language models to take advantage of large-scale unstructured data effectively. In respons to this issue, a new system entitled Chinese Open Relation Extraction with Knowledge Enhancement (CORE-KE) is presented in this paper. The CORE-KE system employs a pre-trained language model (with the support of a Bidirectional Long Short-Term Memory (BiLSTM) layer and a Masked Conditional Random Field (Masked CRF) layer) on unstructured data in order to improve Chinese open relation extraction. Entity descriptions in Wikidata and additional knowledge (in terms of triple facts) extracted from Chinese ORE datasets are used to fine-tune the pre-trained language model. In addition, syntactic features are further adopted in the training stage of the CORE-KE system for knowledge enhancement. Experimental results of the CORE-KE system on two large-scale datasets of open Chinese entities and relations demonstrate that the CORE-KE system is superior to other ORE systems. The F1-scores of the CORE-KE system on the two datasets have given a relative improvement of 20.1% and 1.3%, when compared with benchmark ORE systems, respectively. The source code is available at https://github.com/cjwen15/CORE-KE.
Building Expertise on FAIR Through Evolving Bring Your Own Data (BYOD) Workshops: Describing the Data, Software, and Management-focused Approaches and Their Evolution
Authors: Bernabé César H. , Thielemans Lieze , Kaliyaperumal Rajaram , Carta Claudio , Zhang Shuxin , van Gelder Celia W.G. , Benis Nirupama , da Silva Santos Luiz Olavo Bonino , Cornet Ronald , dos Santos Vieira Bruna , Lalout Nawel , Henriques Ines , Ballesteros Alberto Cámara , Burger Kees , Kersloot Martijn G. , Ehrhart Friederike , van Enckevort Esther , Evelo Chris T. , Gray Alasdair J. G. , Hanauer Marc , Hettne Kristina , de Ligt Joep , Pereira Arnaldo , Queralt-Rosinach Núria , Schultes Erik , Taruscio Domenica , Waagmeester Andra , Wilkinson Mark D. , Willighagen Egon L. , Jansen Mascha , Mons Barend , Roos Marco , Jacobsen Annika 
Published: November 2023

ABSTRACT
Since 2014, “Bring Your Own Data” workshops (BYODs) have been organised to inform people about the process and benefits of making resources Findable, Accessible, Interoperable, and Reusable (FAIR, and the FAIRification process). The BYOD workshops’ content and format differ depending on their goal, context, and the background and needs of participants. Data-focused BYODs educate domain experts on how to make their data FAIR to find new answers to research questions. Management-focused BYODs promote the benefits of making data FAIR and instruct project managers and policy-makers on the characteristics of FAIRification projects. Software-focused BYODs gather software developers and experts on FAIR to implement or improve software resources that are used to support FAIRification. Overall, these BYODs intend to foster collaboration between different types of stakeholders involved in data management, curation, and reuse (e.g. domain experts, trainers, developers, data owners, data analysts, FAIR experts). The BYODs also serve as an opportunity to learn what kind of support for FAIRification is needed from different communities and to develop teaching materials based on practical examples and experience. In this paper, we detail the three different structures of the BYODs and describe examples of early BYODs related to plant breeding data, and rare disease registries and biobanks, which have shaped the structure of the workshops. We discuss the latest insights into making BYODs more productive by leveraging our almost ten years of training experience in these workshops, including successes and encountered challenges. Finally, we examine how the participants’ feedback has motivated the research on FAIR, including the development of workflows and software.
Description of Longidorus zhengi n. sp. (Nematoda: Longidoridae) from the rhizosphere of Quercus aliena in China
Authors: Gu Jianfeng , Ma Xinxin , Liu Yanchun , Cai Ruihang 
Published: November 2023

Summary
Longidorus zhengi n. sp. was recovered in the rhizosphere of Quercus aliena in China. The new species is characterised by medium-length females (3.2-4.0 mm), lip region slightly offset, anteriorly flat and separated from the rest of the body by constriction, funnel-shaped amphidial pouches, a simple guiding ring located at 57.0-60.0 μm distance from the anterior end, stylet composed of a moderately long odontostyle (108.0-139.0 μm) and weakly developed odontophore (56.0-68.0 μm), 61.0-74.0 μm long pharyngeal bulb, well-developed offset cardia, and a short conical tail with widely rounded terminus. The species has four juvenile developmental stages (J1-J4) and no male was found. The matrix codes of the new species are: A45-B23-C5-D2-E1-F2-G1-H1-I1-J1-K5. The new species was molecularly characterised using ITS1 and 28S D2-D3 rRNA gene sequences. The phylogenetic analyses placed L. zhengi n. sp. with several species described from the mainland of China, which were clustered with L. litchi, L. diadecturus and L. juglans.
Variability in soil nematode communities across recovery patches in degraded Alpine meadows of the Yellow River source region
Authors: Chen Guorong , Hu Jing , Li Chengyi , She Yandi , Wu Yong , Li Xilai 
Published: November 2023

Summary
Accurate measurements of soil nematode communities are important for an in-depth understanding of the ecological functions of soil nematodes. High throughput sequencing (HTS) has been reported extensively, but the concordance between HTS and morphological identification results is still lacking. To compare two methods, we selected bare patches (BP), short-term recovery patches (SP), middle-term recovery patches (MP) and long-term recovery patches (LP) of different restoration succession stages in three sample sites to survey the nematode characteristics. In addition to nematode community structure and community ecological function, common nematode genera in BP, SP, MP and LP were compared by two methods: HTS and morphological identification. The results show that the number of species identified in the morphological analysis was lower than using HTS. The soil nematode diversity in different recovery patches was LP > MP > SP > BP. The indices of Shannon-Wiener, Pielou, Simpson and species number of different recovery patches based on HTS reflected the biodiversity of nematode communities, which was consistent with the results of morphological identification. Of the common nematode genera, Coslenchus, Aphelenchus and Leptonchus showed a significant correlation by the two methods. Although both methods have limitations, the HTS provides a more effective means of observing soil nematode biodiversity levels for rapid insight across recovery patches in degraded alpine meadows of the Yellow River source region in our results.
Bioassay to characterise the effects of nematicidal compounds on Meloidogyne species
Authors: Oka Yuji 
Published: November 2023

Summary
A bioassay was developed to characterise the effects of nematicidal compounds and tested using low concentrations (0.125 and 0.25 mg l−1) of three nematicides: fluensulfone, fluopyram and fluazaindolizine. Germinating lettuce seeds with ca 2-3 mm roots were planted in a 5.5-cm-diam. Petri dish on agar containing the nematicides. Second-stage juveniles (J2) of Meloidogyne javanica and M. incognita were introduced to the agar plate immediately after planting. Alternatively, lettuce seeds were planted 48 h after introducing J2 to the plate. The number of J2 attracted to a root tip and J2 mobility were recorded 19 h after inoculation or planting, and infection rate and root length were recorded 5 days after planting. The three nematicides showed different effects on J2 of the Meloidogyne species. Fluensulfone did not inhibit infection by either species if the lettuce was planted immediately after inoculation, but their infection rates, and especially those of M. incognita, were reduced when lettuce seeds were planted 2 days later. Fluopyram reduced infection with M. javanica J2 at higher rates (>83.3%) than for M. incognita J2 (<58.4%) compared to the control, even without 48 h exposure before planting. Fluazaindolizine reduced M. incognita infection at high rates (>83.3%), although the J2 were attracted to the lettuce roots. Root lengths also showed differences in infection severity. This assay distinguished the effects of the three nematicides on the two Meloidogyne species and can also serve to screen compounds that inhibit nematode infection without killing Meloidogyne J2.
Shame in the Philosophical Narrative of the Pour-Soi: On Sartre’s Being and Nothingness
Authors: Falcato Ana 
Published: November 2023

Abstract
This paper discusses the relevance and the conceptual role, within Sartre’s Being and Nothingness, of a fleeting impression of shame that reverts the threat of solipsism looming over any project of transcendental philosophy. In reading Sartre’s masterpiece, I underscore two methodological points that tend to be bypassed in standard interpretations and lengthy discussions of the book. On the one hand, I safeguard the strictly descriptive core of Sartre’s presentation of the impression of shame and what it reveals about the formal structures of the (pre-reflective) cogito, as Sartre understands it. On the other hand, my analysis explores the different phases of the (conceptual) narrative of the For-Itself, which Sartre inherits from the Idealist tradition in modern philosophy and applies to the concreteness of a phenomenological description of the main stages of one’s experience of the outside world.
Rethinking the Gay Chinese Migrant through the Prism of Migration Aspirations
Authors: 吴 艾榮 , 陈 才 
Published: November 2023

Abstract
On the basis of data gathered by two independent ethnographic studies of gay Chinese migrants in France and Belgium, this paper aims to identify the role of intersecting and parallel aspirations which shape their migration trajectories toward Western countries. These aspirations include motivations to respond to or appropriate traditional family configurations, imaginaries that characterize the countries of destination, the desire to fulfill same-sex sexual and relationship goals, as well as class, educational, national, and ethnic affiliations. Using concepts of intersectionality and super-diversity, this paper further argues that the simultaneous and overlapping nature of these motivations deserves to be discussed as a subset of current Chinese diasporas.
Blending Soviet and Dutch Culture: Communist Family Life in the Netherlands 1945–1965
Authors: Weesjes Elke 
Published: November 2023

Abstract
This article examines the postwar cultural sphere of the Dutch communist movement. Drawing on a series of interviews with 27 Dutch cradle communists born between 1935 and 1955, communist archives, and a wide range of other sources, it explores respondents’ cultural upbringing and family leisure time in the period 1945–1965. It challenges the notion that Dutch communists all lived in a closed sectarian milieu or ideological bubble and instead argues that Dutch communists had a close yet complex relationship with the ‘bourgeois’ (non-communist) world.