bluuebunny/crossref_metadata_2025_split huggingface dataset:
Single-cell analysis of microglial transcriptomic diversity in subarachnoid hemorrhage
Authors: Chen Junfan , Sun Lei , Lyu Hao , Zheng Zhiyuan , Lai Huasheng , Wang Yang , Luo Yujie , Lu Gang , Chan Wai Yee , Zhang Yisen , Chen Xinyi , Li Zhongqi , Ko Ho , Wong Kwok Chu George 
Published: December 2021

AbstractBackgroundSubarachnoid hemorrhage (SAH) is a severe stroke and the advanced treatment for SAH is still limited. Recent studies have shown that microglia-mediated neuroinflammation plays a critical role in the pathogenesis of SAH. Microglia can transform their states in response to central nervous system injury. However, the transcriptomic features of microglia remained unknown in SAH. Recent developed single-cell RNA sequencing (scRNA-seq) provides a possible way to solve this problem.MethodsEndovascular perforation (EVP) murine SAH model was established to reproduce experimental SAH. Microglia states are examined with immune staining and quantitate analysis. Post-SAH microglial single-cell suspension were harvest and sequenced using 10X scRNA-seq platform. Then, the detailed single-cell transcriptomic characterization of post-SAH microglia were analyzed with bioinformatics.ResultsTranscriptional analysis revealed at least ten diverse microglial subgroups, including SAH-associated microglia (SAM), inflammatory-associated microglia (IAM) and proliferation-associated microglia (PAM), which all exhibit distinct marker gene expression patterns. Microglia subsets interaction reveals the functional relationship between elevated signaling pathways and microglial sub-populations in SAH. Receptor-ligand pair analysis revealed that complex inter-cellular interactions exist between the microglia subsets and other cell types, and indicated that microglia are important mediators of neuroinflammation after SAH. Integrated analysis with normal microglia further proved the existence of these microglia subpopulations and different gene markers associated with SAH were clarified.ConclusionsCollectively, we first report the single-cell transcriptome of post-SAH microglia and found specific biomarkers related to the neuroinflammation in SAH. These results enhanced our understanding of the pathological mechanisms of microglial response to SAH, and may guide future development of SAH monitoring methods and therapeutics.
Species-specific mitochondria dynamics and metabolism regulate the timing of neuronal development
Authors: Iwata Ryohei , Casimir Pierre , Erkol Emir , Boubakar Leïla , Planque Mélanie , Ditkowska Martyna , Vints Katlijn , Poovathingal Suresh , Gaspariunaite Vaiva , Bird Matthew , Corthout Nikky , Vermeersch Pieter , Davie Kristofer , Gounko Natalia V. , Aerts Stein , Ghesquière Bart , Fendt Sarah-Maria , Vanderhaeghen Pierre 
Published: December 2021

AbstractThe evolution of species involves changes in the timeline of key developmental programs. Among these, neuronal development is considerably prolonged in the human cerebral cortex compared with other mammals, leading to brain neoteny. Here we explore whether mitochondria influence the species-specific properties of cortical neuron maturation. By comparing human and mouse cortical neuronal maturation at high temporal and cell resolution, we found a slower pattern of mitochondria development in human cortical neurons compared with the mouse, together with lower mitochondria metabolic activity, particularly oxidative phosphorylation. Stimulation of mitochondria metabolism in human neurons resulted in accelerated maturation, leading to excitable and complex cells weeks ahead of time. Our data identify mitochondria as important regulators of the pace of neuronal development underlying human-specific features of brain evolution.
Multivalent Interactions between Molecular Components Involved in Fast Endophilin Mediated Endocytosis Drive Protein Phase Separation
Authors: Mondal Samsuzzoha , Narayan Karthik , Botterbusch Samuel , Powers Imania , Zheng Jason , James Honey Priya , Jin Rui , Baumgart Tobias 
Published: December 2021

AbstractA specific group of transmembrane receptors, including the β1-adrenergic receptor (β1-AR), is internalized through a non-clathrin pathway known as Fast Endophilin Mediated Endocytosis (FEME). A key question is: how does the endocytic machinery assemble and how is it modulated by activated receptors during FEME. Here we show that endophilin, a major regulator of FEME, undergoes a phase transition into liquid-like condensates, which facilitates the formation of multi-protein assemblies by enabling the phase partitioning of endophilin binding proteins. The phase transition can be triggered by specific multivalent binding partners of endophilin in the FEME pathway such as the third intracellular loop (TIL) of the β1-AR, and the C-terminal domain of lamellipodin (LPD). Other endocytic accessory proteins can either partition into, or target interfacial regions of, these condensate droplets. On the membrane, TIL promotes protein clustering in the presence of endophilin and LPD C-terminal domain. Our results demonstrate how the multivalent interactions between endophilin, LPD, and TIL regulate protein assembly formation on the membrane, providing mechanistic insights into the priming and initiation steps of FEME.
Vendor-neutral sequences and fully transparent workflows improve inter-vendor reproducibility of quantitative MRI
Authors: Karakuzu Agah , Biswas Labonny , Cohen-Adad Julien , Stikov Nikola 
Published: December 2021

AbstractPurposeWe developed an end-to-end workflow that starts with a vendor-neutral acquisition and tested the hypothesis that vendor-neutral sequences decrease inter-vendor variability of T1, MTR and MTsat measurements.MethodsWe developed and deployed a vendor-neutral 3D spoiled gradient-echo (SPGR) sequence on three clinical scanners by two MRI vendors. We then acquired T1 maps on the ISMRM-NIST system phantom, as well as T1, MTR and MTsat maps in three healthy participants. We performed hierarchical shift function analysis in vivo to characterize the differences between scanners when the vendor-neutral sequence is used instead of commercial vendor implementations. Inter-vendor deviations were compared for statistical significance to test the hypothesis.ResultsIn the phantom, the vendor-neutral sequence reduced inter-vendor differences from 8 - 19.4% to 0.2 - 5% with an overall accuracy improvement, reducing ground truth T1 deviations from 7 - 11% to 0.2 - 4%. In vivo we found that the variability between vendors is significantly reduced (p = 0.015) for all maps (T1, MTR and MTsat) using the vendor-neutral sequence.ConclusionWe conclude that vendor-neutral workflows are feasible and compatible with clinical MRI scanners. The significant reduction of inter-vendor variability using vendor-neutral sequences has important implications for qMRI research and for the reliability of multicenter clinical trials.
Mistimed feeding disrupts circadian rhythms of male mating behavior and female preovulatory LH surges in mice
Authors: Kukino Ayaka , Walbeek Thijs J. , Sun Lori J. , Watt Alexander T. , Park Jin Ho , Kauffman Alexander S. , Butler Matthew P. 
Published: December 2021

AbstractIn rodents, eating at atypical circadian times, such as during the biological rest phase when feeding is normally minimal, reduces fertility. Prior findings suggest this fertility impairment is due, at least in part, to reduced mating success. However, the physiological and behavioral mechanisms underlying this reproductive suppression are not known. In the present study, we tested the hypothesis that mistimed feeding-induced infertility is due to a disruption in the normal circadian timing of mating behavior and/or the generation of pre-ovulatory luteinizing hormone (LH) surges (estrogen positive feedback). In the first experiment, male+female mouse pairs, acclimated to be food restricted to either the light (mistimed feeding) or dark (control feeding) phase, were scored for mounting frequency and ejaculations over 96 hours. Male mounting behavior and ejaculations were distributed much more widely across the day in light-fed mice than in dark-fed controls and fewer light-fed males ejaculated. In the second experiment, the timing of the LH surge, a well characterized circadian event driven by estradiol (E2) and the SCN, was analyzed from serial blood samples taken from ovariectomized and E2-primed female mice that were light-, dark-, or ad-lib-fed. LH concentrations peaked 2h after lights-off in both dark-fed and ad-lib control females, as expected, but not in light-fed females. Instead, the normally clustered LH surges were distributed widely with high inter-mouse variability in the light-fed group. These data indicate that mistimed feeding disrupts the temporal control of the neural processes underlying both ovulation and mating behavior, contributing to subfertility.
Identification of potential astrocytes in the teleost brain
Authors: Hui Tan Germaine Jia , Bei Cheow Kathleen Wen , Min Ho May Si , Jesuthasan Suresh 
Published: December 2021

SummaryAstrocytes are abundant star-shaped glial cells in the mammalian brain, with essential roles in metabolism, development, homeostasis, response to injury, behavior, and learning. Surprisingly, most regions of the teleost brain are thought to lack astrocytes, based primarily on the use of GFAP (glial fibrillary acidic protein) as a marker1. Here, drawing on recent evidence that astrocytes are molecularly heterogeneous, we propose that astrocytes exist in the teleost brain, albeit of the olig2 subtype2. Highly branched cells are present throughout the zebrafish brain, as shown here in Tg(sox10:EGFP) fish and previously in Tg(olig2:GFP) fish. Transcriptome data indicates the presence of brain cells that are olig2 and sox10 positive, which also express the astrocyte markers sox9b, sparcl1 and slc1a2b but lack gfap and the oligodendrocyte marker mbp. In situ hybridization confirms that stellate sox10:EGFP cells express olig2 and sox9b, while immunofluorescence indicates that they lack HuC/D and GFAP. We suggest that these cells be classified as astrocytes as this may more accurately reflect their functions.
Perceptual uncertainty alternates top-down and bottom-up fronto-temporal network signaling during response inhibition
Authors: Tsumura Kaho , Shintaki Reiko , Takeda Masaki , Chikazoe Junichi , Nakahara Kiyoshi , Jimura Koji 
Published: December 2021

AbstractResponse inhibition is a primary executive control function that allows the withholding of inappropriate responses, and requires appropriate perception of the external environment to achieve a behavioral goal. It remains unclear, however, how response inhibition is achieved when goal-relevant information involves perceptual uncertainty. Twenty-six human participants of both sexes performed a go/no-go task where visually presented random-dot motion stimuli involved perceptual uncertainties. The right inferior frontal cortex (rIFC) was involved in response inhibition, and the middle temporal (MT) region showed greater activity when dot motions involved less uncertainty. A neocortical temporal region in the superior temporal sulcus (STS) specifically showed greater activity during response inhibition in more perceptually certain trials. In this STS region, activity was greater when response inhibition was successful than when it failed. Directional effective connectivity analysis revealed that in more coherent trials, the MT and STS regions showed enhanced connectivity to the rIFC, whereas in less coherent trials, the signal direction was reversed. These results suggest that a reversible fronto-temporal functional network guides response inhibition under perceptual uncertainty, and in this network, perceptual information in the MT is converted to control information in the rIFC via STS, enabling achievement of response inhibition.Significance statementResponse inhibition refers to withholding inappropriate behavior and is an important for achieving goals. Often, however, decision must be made based on limited environmental evidence. We showed that successful response inhibition is guided by a neocortical temporal region that plays a hub role in converting perceived information coded in a posterior temporal region to control information coded in the prefrontal cortex. Interestingly, when a perceived stimulus becomes more uncertain, the prefrontal cortex supplements stimulus encoding in the temporal regions. Our results highlight fronto-temporal mechanisms of response inhibition in which conversion of stimulus-control information is regulated based on the uncertainty of environmental evidence.
A Musculoskeletal Model of the Hand and Wrist Capable of Simulating Functional Tasks
Authors: McFarland Daniel C. , Binder-Markey Benjamin I. , Nichols Jennifer A. , Wohlman Sarah J. , de Bruin Marije , Murray Wendy M. 
Published: December 2021

AbstractObjectiveThe purpose of this work was to develop an open-source musculoskeletal model of the hand and wrist and to evaluate its performance during simulations of functional tasks.MethodsThe musculoskeletal model was developed by adapting and expanding upon existing musculoskeletal models. An optimal control theory framework that combines forward-dynamics simulations with a simulated-annealing optimization was used to simulate maximum grip and pinch force. Active and passive hand opening were simulated to evaluate coordinated kinematic hand movements.ResultsThe model’s maximum grip force production matched experimental measures of grip force, force distribution amongst the digits, and displayed sensitivity to wrist flexion. Simulated lateral pinch strength fell within variability of in vivo palmar pinch strength data. Additionally, predicted activation for 7 of 8 muscles fell within variability of EMG data during palmar pinch. The active and passive hand opening simulations predicted reasonable activations and demonstrated passive motion mimicking tenodesis, respectively.ConclusionThis work advances simulation capabilities of hand and wrist models and provides a foundation for future work to build upon.SignificanceThis is the first open-source musculoskeletal model of the hand and wrist to be implemented during both functional kinetic and kinematic tasks. We provide a novel simulation framework to predict maximal grip and pinch force which can be used to evaluate how potential surgical and rehabilitation interventions influence these functional outcomes while requiring minimal experimental data.
Layer-specific mitochondrial diversity across hippocampal CA2 dendrites
Authors: Pannoni Katy , Gil Daniela , Cawley Mikel , Campbell Logan , Farris Shannon 
Published: December 2021

ABSTRACTCA2 is an understudied subregion of the hippocampus that is critical for social memory. Previous studies identified multiple components of the mitochondrial calcium uniporter (MCU) complex as selectively enriched in CA2, however the functional significance of this enrichment remains unclear. The MCU complex regulates calcium entry into mitochondria, which in turn regulates mitochondrial transport and localization to active synapses. We found that MCU is strikingly enriched in CA2 distal apical dendrites, precisely where CA2 neurons receive entorhinal cortical input carrying social information. Further, MCU-enriched mitochondria in CA2 distal dendrites are larger compared to mitochondria in CA2 proximal apical dendrites and neighboring CA1 apical dendrites, an effect also seen with genetically labeled mitochondria and electron microscopy. MCU overexpression in neighboring CA1 led to larger mitochondria preferentially in proximal dendrites compared to distal dendrites and controls, suggesting that MCU may act as a coincidence detector linking synaptic activity to mitochondrial morphology and function. Our findings demonstrate that mitochondria are molecularly and structurally diverse across hippocampal cell types and circuits, and implicate MCU expression in regulating mitochondrial mass and layer-specific dendritic localization. Functionally distinct mitochondria in CA2 distal dendrites may confer unique synaptic and circuit properties underlying CA2 function in social memory.
Exploring BIM-triggered organisational and professional culture change: a systematic literature review
Authors: Alankarage Sonali , Chileshe Nicholas , Rameezdeen Raufdeen , Edwards David J. , Samaraweera Aparna 
Published: December 2021

Purpose
Building information modelling (BIM) has had a considerable impact on the socio-technical aspects of construction organisations. Culture has been considered an essential element in BIM practice. Hence, this paper aims to explore existing research relates to culture in the BIM context.

Design/methodology/approach
A systematic literature review (SLR) was conducted based on the PRISMA guidelines using 104 articles published between 2011 and 2020 and directed with a descriptive and content analysis.

Findings
The SLR results give evidence that culture in the BIM context is still an under-researched topic. Culture has been considered as both a dependent and independent factor in the BIM domain. Organisational BIM culture is a collection of fundamental beliefs established in a BIM using organisation and passed to new employees with the use of BIM. BIM using organisations are have either weak or strong BIM cultures. Proper analysis and understanding of the BIM culture of different organisations are necessary to realise the strategies of transformation from a weak BIM culture to a strong BIM culture.

Originality/value
To the best of the author's knowledge, this is the first SLR in BIM research that investigates the role of culture in the BIM setting. This study contributed to the existing body of knowledge by proposing a conceptual framework to understand and change a weak BIM culture of an organisation to a strong, matured BIM culture. This SLR serves as a future research basis in BIM-triggered culture.
The application of “deep learning” in construction site management: scientometric, thematic and critical analysis
Authors: Elghaish Faris , Matarneh Sandra T. , Alhusban Mohammad 
Published: December 2021

Purpose
The digital construction transformation requires using emerging digital technology such as deep learning to automate implementing tasks. Therefore, this paper aims to evaluate the current state of using deep learning in the construction management tasks to enable researchers to determine the capabilities of current solutions, as well as finding research gaps to carry out more research to bridge revealed knowledge and practice gaps.

Design/methodology/approach
The scientometric analysis is conducted for 181 articles to assess the density of publications in different topics of deep learning-based construction management applications. After that, a thematic and gap analysis are conducted to analyze contributions and limitations of key published articles in each area of application.

Findings
The scientometric analysis indicates that there are four main applications of deep learning in construction management, namely, automating progress monitoring, automating safety warning for workers, managing construction equipment, integrating Internet of things with deep learning to automatically collect data from the site. The thematic and gap analysis refers to many successful cases of using deep learning in automating site management tasks; however, more validations are recommended to test developed solutions, as well as additional research is required to consider practitioners and workers perspectives to implement existing applications in their daily tasks.

Practical implications
This paper enables researchers to directly find the research gaps in the existing solutions and develop more workable applications to bridge revealed gaps. Accordingly, this will be reflected on speeding the digital construction transformation, which is a strategy over the world.

Originality/value
To the best of the authors’ knowledge, this paper is the first of its kind to adopt a structured technique to assess deep learning-based construction site management applications to enable researcher/practitioners to either adopting these applications in their projects or conducting further research to extend existing solutions and bridging revealed knowledge gaps.
Hypercompetition: a review and agenda for future research
Authors: Lindskov Annesofie 
Published: December 2021

PurposeThe purpose of this study is to review and understand the dimensionality of hypercompetition, factors causing a hypercompetitive environment and the consequences of hypercompetition on markets. Thereby, the purpose of the study is to cover the main contributors in the research field of hypercompetition and explore their findings and different views on hypercompetition.Design/methodology/approachSystematically review 131 conceptual and empirical studies published or presented at a conference in the past 25 years, with the focus on the definitions, causes and consequences (or presumed effects) of hypercompetition. In the paper, I follow the well-known systematic literature review method by Tranfieldet al.(2003).FindingsThe contribution of the study is to advance the knowledge of researchers and managers, in such a way that it becomes easier for them to select relevant variables to measure hypercompetition and identify strategies for gaining temporary competitive advantages in hypercompetitive environments. The construct of hypercompetition required a consolidation of commonalities in the definitions and characteristics used by scholars, to ensure that proper assumptions and variables are being used to measure hypercompetition in future research. Several ways to measure the effects of hypercompetition on firms, industries and individuals have been proposed, but the field still lacks of a clear definition on how to directly measure the construct.Practical implicationsIn this paper, I highlight three managerial implications of hypercompetition as follows: action-based strategy, the determinants of hypercompetition and the importance for managers of accurately establishing their firm’s competitive situation.Originality/valuePrevious reviews in the area have either focussed on specific components or effects of hypercompetition. The present study collectively takes into consideration the definitions, causes and consequences of hypercompetition on firms, industries and individuals. The contribution of the paper is to indicate future opportunities and challenges within research on hypercompetition.