bluuebunny/crossref_metadata_2025_split huggingface dataset:
GIMLET: A Unified Graph-Text Model for Instruction-Based Molecule Zero-Shot Learning
Authors: Zhao Haiteng , Liu Shengchao , Ma Chang , Xu Hannan , Fu Jie , Deng Zhi-Hong , Kong Lingpeng , Liu Qi 
Published: June 2023

AbstractMolecule property prediction has gained significant attention in recent years. The main bottleneck is the label insufficiency caused by expensive lab experiments. In order to alleviate this issue and to better leverage textual knowledge for tasks, this study investigates the feasibility of employing natural language instructions to accomplish molecule-related tasks in a zero-shot setting. We discover that existing molecule-text models perform poorly in this setting due to inadequate treatment of instructions and limited capacity for graphs. To overcome these issues, we propose GIMLET, which unifies language models for both graph and text data. By adopting generalized position embedding, our model is extended to encode both graph structures and instruction text without additional graph encoding modules. GIMLET also decouples encoding of the graph from tasks instructions in the attention mechanism, enhancing the generalization of graph features across novel tasks. We construct a dataset consisting of more than two thousand molecule tasks with corresponding instructions derived from task descriptions. We pretrain GIMLET on the molecule tasks along with instructions, enabling the model to transfer effectively to a broad range of tasks. Experimental results demonstrate that GIMLET significantly outperforms molecule-text baselines in instruction-based zero-shot learning, even achieving closed results to supervised GNN models on tasks such as toxcast and muv.1
Ultrastructural analysis reveals mitochondrial placement independent of synapse placement in fine caliber C. elegans neurons
Authors: Riboul Danielle V. , Crill Sarah , Oliva Carlos D. , Restifo Maria Gabriela , Joseph Reggie , Joseph Kerdes , Nguyen Ken C.Q. , Hall David H. , Fily Yaouen , Macleod Gregory T. 
Published: June 2023

SUMMARYNeurons rely on mitochondria for an efficient supply of ATP and other metabolites. However, while neurons are highly elongated, mitochondria are discrete and limited in number. Due to the slow rates of diffusion over long distances it follows that neurons would benefit from an ability to control the distribution of mitochondria to sites of high metabolic activity, such as synapses. It is assumed that neurons’ possess this capacity, but ultrastructural data over substantial portions of a neuron’s extent that would allow for tests of such hypotheses are scarce. Here, we mined theCaenorhabditis elegans’electron micrographs of John White and Sydney Brenner and found systematic differences in average mitochondrial length (ranging from 1.3 to 2.4 μm), volume density (3.7% to 6.5%) and diameter (0.18 to 0.24 μm) between neurons of different neurotransmitter type and function, but found limited differences in mitochondrial morphometrics between axons and dendrites of the same neurons. Analyses of distance intervals found mitochondria to be distributed randomly with respect to presynaptic specializations, and an indication that mitochondria were displaced from postsynaptic specializations. Presynaptic specializations were primarily localized to varicosities, but mitochondria were no more likely to be found in synaptic varicosities than non-synaptic varicosities. Consistently, mitochondrial volume density was no greater in varicosities with synapses. Therefore, beyond the capacity to disperse mitochondria throughout their length, at least inC. elegans, fine caliber neurons manifest limitedsub-cellular control of mitochondrial size and distribution.SIGNIFICANCEBrain function is unequivocally reliant on mitochondrial function for its energy needs, and the mechanisms that cells use to control these organelles is an active field of enquiry. WormImage, a decades old electron microscopy database in the public domain, contains information about the ultrastructural disposition of mitochondria within the nervous system ofC elegansover previously unexamined extents. In a largely remote format, a team of students mined this database over the course of the pandemic. They found differences in mitochondrial size and density between neurons, but limited differences between different compartments of the same neurons. Also, while neurons are clearly able to disperse mitochondria throughout their extent, they found little evidence that they “install” mitochondria at synaptic varicosities.
Protocol for the development of an artificial intelligence extension to the Consolidated Health Economic Evaluation Reporting Standards (CHEERS) 2022
Authors: Hawksworth Claire , Elvidge Jamie , Knies Saskia , Zemplenyi Antal , Petykó Zsuzsanna , Siirtola Pekka , Chandra Gunjan , Srivastava Divya , Denniston Alastair , Chalkidou Anastasia , Delaye Julien , Nousios Petros , Gomes Manuel , Avsar Tuba Saygin , Wang Junfeng , Petrou Stavros , Dawoud Dalia 
Published: June 2023

1.2.AbstractIntroductionAI interventions for health care are on the rise. Decisions about coverage and reimbursement are often informed by Health Technology Assessment (HTA) bodies, who rely on Health Economic Evaluations (HEEs) to estimate the value for money (cost effectiveness) of interventions. Transparent reporting of HEEs ensures they can be used for decision making. Reporting guidance exists to support this, such as the Consolidated Health Economic Reporting Standards (CHEERS) checklist. We aim to identify consensus about specific items should be reported by HEEs that evaluate AI interventions and, if such items are identified, to develop them into an extension to CHEERS: “CHEERS-AI”.Methods and analysisThe project will have 4 phases:Phase 1 is a literature review to help identify potential AI-related reporting items.Phase 2 commences a Delphi process, with a series of surveys to elicit the importance of the potential AI-related reporting items.Phase 3 is a consensus-generation meeting to agree on the final extension items.Phase 4 is dissemination of the project’s outputs.Ethics and disseminationThis study has received ethical approval from Newcastle University Ethics Committee (reference: 28568/2022). The findings will be available in as an open access article and disseminated through blogs, newsletters, and presentations.1.3.Funding statementThis study is supported by the Next Generation Health Technology Assessment (HTx) project. The HTx project has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement Nº 825162. This dissemination reflects only the views of the authors and the Commission is not responsible for any use that may be made of the information it contains.
Anaerobic gut fungal communities in marsupial hosts
Authors: Jones Adrienne L. , Pratt Carrie J. , Meili Casey H. , Soo Rochelle M. , Hugenholtz Philip , Elshahed Mostafa S. , Youssef Noha H. 
Published: June 2023

AbstractThe anaerobic gut fungi (AGF) inhabit the alimentary tracts of herbivores. In contrast to placental mammals, information regarding the identity, diversity, and community structure of AGF in marsupials is extremely sparse. Here, we characterized AGF communities in sixty one fecal samples from ten marsupial species belonging to four families in the orderDiprotodontia:Vombatidae(wombats),Phascolarctidae(koalas),Phalangeridae(possums), andMacropodidae(kangaroos, wallabies, and pademelons). Amplicon-based diversity survey using the D2 region in the large ribosomal subunit (D2 LSU) as a phylogenetic marker indicated that marsupial AGF communities were dominated by eight genera commonly encountered in placental herbivores (Neocallimastix,Caecomyces,Cyllamyces,Anaeromyces,Orpinomyces,Piromyces,Pecoramyces, andKhoyollomyces). Community structure analysis revealed a high level of stochasticity, and ordination approaches did not reveal a significant role for animal host, gut type, dietary preferences, or lifestyle in structuring marsupial AGF communities. Marsupial foregut and hindgut communities displayed diversity and community structure patterns comparable to AGF communities typically encountered in placental foregut hosts, while exhibiting a higher level of diversity and a distinct community structure compared to placental hindgut communities. Quantification of AGF load using quantitative PCR indicated a significantly smaller load in marsupial hosts compared to their placental counterparts. Isolation efforts were only successful from a single red kangaroo fecal sample and yielded aKhoyollomyces ramosusisolate closely related to strains previously isolated from placental hosts. Our results suggest that AGF communities in marsupials are in low abundance, and show little signs of selection based on ecological and evolutionary factors. The observed lack of host-fungal coevolutionary signal suggests a potential recent acquisition and/or a transient nature of AGF communities in marsupial herbivores.
Modulation of RNA processing genes during sleep-dependent memory
Authors: Li Yongjun , Chouhan Nitin S. , Zhang Shirley , Moore Rebecca S. , Noya Sara B. , Shon Joy , Yue Zhifeng , Sehgal Amita 
Published: June 2023

AbstractMemory consolidation inDrosophilacan be sleep-dependent or sleep-independent, depending on the availability of food. The anterior posterior (ap) alpha′/beta′ (α′/β′) neurons of the mushroom body (MB) are required for sleep-dependent memory consolidation in flies fed after training. These neurons are also involved in the increase of sleep after training, suggesting a coupling of sleep and memory. To better understand the mechanisms underlying sleep and memory consolidation initiation, we analyzed the transcriptome of ap α′/β′ neurons one hour after appetitive memory conditioning. A small number of genes, enriched in RNA processing functions, were differentially expressed in flies fed after training relative to trained and starved flies or untrained flies. Knockdown of each of these differentially expressed genes in the ap α′/β′ neurons revealed notable sleep phenotypes for Polr1F and Regnase-1, both of which decrease in expression after conditioning. Knockdown of Polr1F, a regulator of ribosome RNA transcription, in adult flies promotes sleep and increases pre-ribosome RNA expression as well as overall translation, supporting a function for Polr1F downregulation in sleep-dependent memory. Conversely, while constitutive knockdown of Regnase-1, an mRNA decay protein localized to the ribosome, reduces sleep, adult specific knockdown suggests that effects of Regnase-1 on sleep are developmental in nature. We further tested the role of each gene in memory consolidation. Knockdown of Polr1F does not affect memory, which may be expected from its downregulation during memory consolidation. Regnase-1 knockdown in ap α′/β′ neurons impairs all memory, including short-term, implicating Regnase-1 in memory, but leaving open the question of why it is downregulated during sleep-dependent memory. Overall, our findings demonstrate that the expression of RNA processing genes is modulated during sleep-dependent memory and, in the case of Polr1F, this modulation likely contributes to increased sleep.
Chromatin and gene expression changes during female Drosophila germline stem cell development illuminate the biology of highly potent stem cells
Authors: Pang Liang-Yu , DeLuca Steven , Zhu Haolong , Urban John M. , Spradling Allan C. 
Published: June 2023

AbstractHighly potent animal stem cells either self renew or launch complex differentiation programs, using mechanisms that are only partly understood. Drosophila female germline stem cells (GSC) perpetuate without change over evolutionary time and generate cystoblast daughters that develop into nurse cells and oocytes. Cystoblasts initiate differentiation by generating a transient syncytial state, the germline cyst, and by increasing pericentromeric H3K9me3 modification, actions likely to suppress transposable element activity. Relatively open GSC chromatin is further restricted by Polycomb repression of testis or somatic cell-expressed genes briefly active in early female germ cells. Subsequently, Neijre/CBP and Myc help upregulate growth and reprogram GSC metabolism by altering mitochondrial transmembrane transport, gluconeogenesis and other processes. In all these respects GSC differentiation resembles development of the totipotent zygote. We propose that the totipotent stem cell state was shaped by the need to resist transposon activity over evolutionary time scales.
Drug-drug interactions between classic psychedelics and psychoactive drugs: a systematic review
Authors: Halman Andreas , Kong Geraldine , Sarris Jerome , Perkins Daniel 
Published: June 2023

AbstractClassic psychedelics, lysergic acid diethylamide, psilocybin, mescaline and N,N-dimethyltryptamine, are potent psychoactive substances that have been studied for their physiological and psychological effects. However, our understanding of the potential interactions and outcomes of using these substances are used in combination with other psychoactive drugs is limited.This systematic review aims to provide a comprehensive overview of the current research on drug-drug interactions between classic psychedelics and other psychoactive drugs in humans. We conducted a thorough literature search using multiple databases, including PubMed, PsycINFO, Web of Science and other sources to supplement our search for relevant studies. A total of 8,487 records were screened, and studies involving human data describing potential interactions (as well as the lack thereof) between classic psychedelics and other psychoactive drugs were included.In total, we identified 50 studies from 34 reports published before April 20, 2023, encompassing 31 studies on LSD, 11 on psilocybin, 4 on mescaline, 3 on DMT and 1 on ayahuasca. These studies provide insights into the interactions between classic psychedelics and a range of drugs, including antidepressants, antipsychotics, anxiolytics, mood stabilisers, recreational drugs and others.The findings revealed various effects when psychedelics were combined with other drugs, including both attenuated and potentiated effects, as well as instances where no changes were observed. Except for a few case reports, no serious adverse drug events were described in the included studies. In-depth discussion of the results is presented, along with an exploration of the potential molecular pathways that underlie the observed effects.
Sustainable construction practice in Nigeria: barriers and strategies for improvement
Authors: Akindele Oluwaseun Enoch , Ajayi Saheed , Toriola-Coker Luqman , Oyegoke Adekunle Sabitu , Alaka Hafiz , Zulu Sambo Lyson 
Published: June 2023

PurposeAmidst all solutions posited to address sustainable construction practices in Nigeria, the implementation plans are repudiated by sustainable barriers. This study examines and confirms the strategy with the most significant impacts on the identified barrier to sustainable construction practice (SCP).Design/methodology/approachThe study deployed a questionnaire survey to evaluate the perspective of 100 construction actors on the barriers and strategies of sustainable construction practice in Nigeria. Factor Analysis was employed to categorize key barriers and strategies into their underlying clusters for further analysis. Partial least squares-structural equation modelling (PLS-SEM) was used to confirm the construct's significant relationship and magnitude, thereby establishing the strategies with the highest impacts on the barriers to sustainable construction practices.FindingsThe findings revealed three clusters of barriers and four groups of strategies to SCP, including technopolitic barrier, perception and awareness barrier and sociocultural barrier. For the significant strategies, education and training, stakeholder regulation, incentive support and government and legislative support strategies were established. Overall, education and training strategy was identified as the most dominant and effective strategy to mitigate the barriers of SCP in Nigeria.Originality/valueThe paper establishes education and training as the key strategy to achieving sustainable quest in the AEC industry. The practical implication is that policymakers, educators and professional bodies can harness sustainable knowledge transfer through education and training to improve sustainable construction practices in Nigeria.
A weighted fuzzy Petri-net analysis for Indian foodgrains supply chain
Authors: Rathore Rishabh , Thakkar Jitesh , Jha J.K. 
Published: June 2023

PurposeThis paper investigates the overall system risk for a foodgrains supply chain capturing the interrelationship among the risk factors and the effect of risk mitigation strategies.Design/methodology/approachThis paper first calculates the weight of risk factors using an integrated approach of failure mode, effects analysis and fuzzy VIKOR technique. Next, the weights are utilized as input for the weighted fuzzy Petri-net (WFPN) approach to calculate the system risk.FindingsTwo different WFPN models are developed based on the relationships among the risk factors, and both models demonstrate a higher risk value for the overall system.Originality/valueThe proposed methodology will help practitioners or managers understand the complexity involved in the system by capturing the interrelationship behaviour. This study also considers the concurrent effect of risk mitigation strategies for calculating the overall system risk, which helps to improve the system’s performance.
Quality improvement in retail-distribution of Saudi thobe using six-sigma
Authors: Abualsauod Emad Hashiem 
Published: June 2023

PurposeThis research aims to enhance the operational excellence and continuous improvement of the retail supply chain in the Saudi Thobe Factory through an integrated approach of Six Sigma DMAIC (Define-Measure-Analyze-Improve-Control) with artificial intelligence (AI).Design/methodology/approachThe study identified the tailoring department as the department with maximum defects by using voice of customer and critical to quality tools. An AI-integrated Six Sigma approach was applied to identify and eliminate nonproductive stages, and a new facility layout was designed to enhance productivity and customer satisfaction.FindingsThe use of the factor rating method and simulation using Arena software led to an improved sigma level from 1.597 to 2.237, representing an increment of about 40%. Additionally, the defects per million opportunities reduced from 461,538 to 230,769. The study can help production industry management to optimize facility layouts and improve overall production line efficiency.Practical implicationsThis study addresses the lack of published research on the use of an integrated approach of Six Sigma DMAIC with AI in the retail and distribution sector of Saudi Arabia, particularly for small and medium-sized enterprises (SMEs). The study demonstrates how this approach may significantly boost SMEs’ performance and provides a basis for future research in this area.Originality/valueThis study provides a practical example of how an integrated approach of Six Sigma DMAIC with AI can be used in the retail and distribution sector of Saudi Arabia to enhance operational excellence and continuous improvement. The study highlights the potential benefits of this approach for SMEs in the region and provides a framework for future research.
Risk formulation in forensic practice: a review of the evidence
Authors: Tarpey Emma , Stephenson Zoe , Barker Richard 
Published: June 2023

Purpose
The purpose of this paper is to review the evidence base for the use of risk formulation in forensic practice settings.

Design/methodology/approach
Systematic literature review principles were adopted to identify literature exploring risk formulation in forensic practice settings in relation to offending behaviour.

Findings
Data were analysed using a narrative synthesis approach, and commonalities were observed across some of the studies in terms of definitions, outcomes, and implementation, of risk formulation; however, the findings of the review did not provide a definitive account of risk formulation practice in forensic settings. This is due to the narrow scope of the included studies, the small yet diverse samples, the heterogeneity in research aims and the methodological weaknesses apparent within the included studies.

Research limitations/implications
Further research is needed to understand the application and outcomes of risk formulation in forensic practice settings.

Practical implications
Practitioners should be clear about how they are defining, implementing and assessing the outcomes of risk formulation, alongside being mindful of the evidence base when utilising forensic risk formulation in practice.

Originality/value
To the best of the authors’ knowledge, this is the first paper to focus solely on the evidence base for forensic risk formulation in practice.
When social media meets destination marketing: the mediating role of attachment to social media influencer
Authors: Zhu Chris , Fong Lawrence Hoc Nang , Liu Christy Ying Ni , Song Hongmei 
Published: June 2023

Purpose
This study aims to investigate the mediating role of attachment to social media influencer between authenticity and enjoyment and then travel intention while watching social media influencer video.

Design/methodology/approach
This study used the survey approach to collect responses from respondents who have watched the social media influencer video. Partial least squares structural equation modeling technique was applied for the data analysis.

Findings
The results indicated that authenticities positively impact tourist attachment to social media influencer, enjoyment and hence visit intention. Attachment to social media influencer mediates the relationships between authenticities and enjoyment.

Originality/value
This study proposes and examines the role of attachment to social media influencers as a mediator between authenticities and tourist responses, which provided meaningful theoretical and practical insights for the future research on social media influencers.
Rethinking workplace collaboration – an old topic with a practical view
Authors: Drake Ryan , Chen Wendy D. 
Published: June 2023

PurposeResearch has long lauded collaboration at work as one of the best management strategies to increase employee engagement, raise productivity and enhance innovation. In real life, many businesses also strongly encourage and enforce workplace collaboration. However, the purpose of this paper was to examine workplace collaboration from a practitioners' perspective who experienced collaborations firsthand.Design/methodology/approachThis paper takes a practical and ethnographic view and examines collaboration in three different organizations which varied in mission and size.FindingsThe findings identify three major drawbacks of collaboration including repetitive meetings, slowed business process and a reduction of recognition and accountability.Practical implicationsThree practical suggestions for leaders and managers to improve their collaboration strategies are discussed.Originality/valueThis article is one of the first to examine collaboration from a practitioner's point of view while providing detailed examples. It is also amongst the first to provide actionable suggestions to practitioners that can be implemented immediately.