bluuebunny/crossref_metadata_2025_split huggingface dataset:
A new scaffold-free tumoroid model provides a robust preclinical tool to investigate invasion and drug response in Renal Cell Carcinoma
Authors: Séraudie Irinka , Pillet Catherine , Cesana Beatrice , Bazelle Pauline , Jeanneret Florian , Evrard Bertrand , Chalmel Frédéric , Bouzit Assilah , Battail Christophe , Long Jean-Alexandre , Descotes Jean Luc , Cochet Claude , Filhol Odile 
Published: September 2023

AbstractClear cell Renal Cell Carcinoma (ccRCC) is one of the most prevalent kidney cancers, which is often asymptomatic and thus discovered at a metastatic state (mRCC). mRCC are highly heterogeneous tumors composed of subclonal populations that lead to poor treatment response rate. Several recent works explored the potential of ccRCC tumoroids culture derived from patients. However, these models were produced following a scaffold-based method using collagen I or Matrigel that exhibit lot variability and whose complexity could induce treatment response modifications and phenotypic alterations. Following the observation that ccRCC tumoroids can create their own niche by secreting extracellular matrix components, we developed the first scaffold-free tumoroid model of ccRCC tumors. Tumoroids from mice as well as from human tumors were generated with high success rate (≥90%) using a magnetic suspension method and standard culture media. Immunofluorescence analysis revealed their self-organization capacities to maintain multiple tumor-resident cell types, including endothelial progenitor cells. Transcriptomic analysis showed the reproducibility of the method highlighting that the majority of gene expression patterns was conserved in tumoroids compared to their matching tumor tissue. Moreover, this model enables to evaluate drug effects and invasiveness of renal cancer cells in a 3D context, providing a robust preclinical tool for drug screening and biomarker assessment in line with alternative ex vivo methods like tumor tissue slice culture or in vivo xenograft models.
C9orf72-ALS human iPSC microglia are pro-inflammatory and toxic to co-cultured motor neurons via MMP9
Authors: Vahsen Björn F. , Nalluru Sumedha , Morgan Georgia R. , Farrimond Lucy , Carroll Emily , Xu Yinyan , Cramb Kaitlyn M. L. , Amein Benazir , Scaber Jakub , Katsikoudi Antigoni , Candalija Ana , Carcolé Mireia , Dafinca Ruxandra , Isaacs Adrian M. , Wade-Martins Richard , Gray Elizabeth , Turner Martin R. , Cowley Sally A. , Talbot Kevin 
Published: September 2023

AbstractAmyotrophic lateral sclerosis (ALS) is a neurodegenerative disease characterized by progressive motor neuron loss, with additional pathophysiological involvement of non-neuronal cells such as microglia. The commonest ALS-associated genetic variant is a hexanucleotide repeat expansion (HRE) mutation in C9orf72. Here, we study its consequences for microglial function using human iPSC-derived microglia. By RNA-sequencing, we identify enrichment of pathways associated with immune cell activation and cyto-/chemokines in C9orf72 HRE mutant microglia versus healthy controls, most prominently after LPS priming. Specifically, LPS-primed C9orf72 HRE mutant microglia show consistently increased expression and release of matrix metalloproteinase-9 (MMP9). LPS-primed C9orf72 HRE mutant microglia are toxic to co-cultured healthy motor neurons, which is ameliorated by concomitant application of an MMP9 inhibitor. Finally, we identify release of dipeptidyl peptidase-4 (DPP4) as a marker for MMP9-dependent microglial dysregulation in co-culture. These results demonstrate cellular dysfunction of C9orf72 HRE mutant microglia, and a non-cell-autonomous role in driving C9orf72-ALS pathophysiology in motor neurons through MMP9 signaling.
Acetylation discriminates disease-specific tau deposition
Authors: Chakraborty Pijush , Rivière Gwladys , Hebestreit Alina , de Opakua Alain Ibáñez , Vorberg Ina M. , Andreas Loren B. , Zweckstetter Markus 
Published: September 2023

AbstractPathogenic aggregation of the protein tau is a hallmark of Alzheimer’s disease and several other tauopathies. Tauopathies are characterized by the deposition of specific tau isoforms as disease-related tau filament structures. The molecular processes that determine isoform-specific deposition of tau are however enigmatic. Here we show that acetylation of tau discriminates its isoform-specific aggregation. We reveal that acetylation strongly attenuates aggregation of four-repeat tau protein, but promotes amyloid formation of three-repeat tau. We further identify acetylation of lysine 298 as a hot spot for isoform-specific tau aggregation. Solid-state NMR spectroscopy demonstrates that amyloid fibrils formed by unmodified and acetylated three-repeat tau differ in structure indicating that site-specific acetylation modulates tau structure. The results implicate acetylation as a critical regulator that guides the selective aggregation of three-repeat tau and the development of tau isoform-specific neurodegenerative diseases.
Multi-view emotional expressions dataset using 2D pose estimation
Authors: Zhang Mingming , Zhou Yanan , Xu Xinye , Ren Ziwei , Zhang Yihan , Liu Shenglan , Luo Wenbo 
Published: September 2023

AbstractHuman body expressions convey emotional shifts and intentions of action and, in some cases, are even more effective than other emotion models. Despite many datasets of body expressions incorporating motion capture available, there is a lack of more widely distributed datasets regarding naturalized body expressions based on the 2D video. In this paper, therefore, we report the multi-view emotional expressions dataset (MEED) using 2D pose estimation. Twenty-two actors presented six emotional (anger, disgust, fear, happiness, sadness, surprise) and neutral body movements from three viewpoints (left, front, right). A total of 4102 videos were captured. The MEED consists of the corresponding pose estimation results (i.e., 397,809 PNG files and 397,809 JSON files). The size of MEED exceeds 150 GB. We believe this dataset will benefit the research in various fields, including affective computing, human-computer interaction, social neuroscience, and psychiatry.
Meta-analysis of the responses of tree and herb to elevated CO2 in Brazil
Authors: da Silva Fortirer Janaina , Grandis Adriana , Pagliuso Débora , de Toledo Castanho Camila , Buckeridge Marcos Silveira 
Published: September 2023

AbstractThe CO2 concentration has increased in the atmosphere due to fossil fuel consumption, deforestation, and land-use changes. Brazil represents one of the primary sources of food on the planet and is also the world's largest tropical rainforest, one of the hot spots of biodiversity in the world. In this work, a meta-analysis was conducted to compare several CO2 Brazilian experiments displaying the diversity of plant responses according to life habits, such as trees (79% natives and 21% cultivated) and herbs (33% natives and 67% cultivated). We found that trees and herbs display different responses. The young trees tend to allocate carbon from increased photosynthetic rates and lower respiration in the dark—to organ development, increasing leaves, roots, and stem biomasses. In addition, more starch is accumulated in the young trees, denoting a fine control of carbon metabolism through carbohydrate storage. Herbs increased drastically in water use efficiency, controlled by stomatal conductance, with more soluble sugars, probably with a transient accumulation of carbon primarily stored in seeds as a response to elevated CO2.
Driving risk cognition of passengers in highly automated driving based on the prefrontal cortex activity via fNIRS
Authors: Wang Hong , Zhang Xiaofei , Li Jun , Li Bowen , Gao Xiaorong , Hao Zhenmao , Fu Junwen , Zhou Ziyuan , Atia Mohamed 
Published: September 2023

AbstractFor high-level automated vehicles, the human being acts as the passenger instead of the driver and does not need to operate vehicles, it makes the brain–computer interface system of high-level automated vehicles depend on the brain state of passengers rather than that of drivers. Particularly when confronting challenging driving situations, how to implement the mental states of passengers into safe driving is a vital choice in the future. Quantifying the cognition of the driving risk of the passenger is a basic step in achieving this goal. In this paper, the passengers’ mental activities in low-risk episode and high-risk episode were compared, the influences on passengers’ mental activities caused by driving scenario risk was first explored via fNIRS. The results showed that the mental activities of passengers caused by driving scenario risk in the Brodmann area 10 are very active, which was verified by examining the real-driving data collected in corresponding challenging experiments, and there is a positive correlation between the cerebral oxygen and the driving risk field. This initial finding provides a possible solution to design a human-centred intelligent system to promise safe driving for high-level automated vehicles using passengers’ driving risk cognition.
Estimating 225Ac yield in thorium metal targets
Authors: Rahmani M. , Martinez D. M. 
Published: September 2023

AbstractIn this work we estimate the yield of the radioisotope $$^{225}Ac$$

225

A
c

in a thorium metal target geometry similar to that described by Roberston et al.. We do so in three different yet complimentary studies. In the first study, we pose a three-way coupled time-dependent model describing beam position, temperature field, and local growth of the activity of the radioisotope and solve this numerically. In the second study, we present an analytical solution of the model equations for a generalized solid target in the “beam-thin” limit, i.e. where only a small fraction of the incoming energy of the proton beam is deposited into the thorium material. In the third study, we use the insight gained from the analytical solution and describe an operating strategy to maximize yield by modulating the beam flux temporally.
Measuring ancient technological complexity and its cognitive implications using Petri nets
Authors: Fajardo Sebastian , Kozowyk Paul R. B. , Langejans Geeske H. J. 
Published: September 2023

AbstractWe implement a method from computer sciences to address a challenge in Paleolithic archaeology: how to infer cognition differences from material culture. Archaeological material culture is linked to cognition, and more complex ancient technologies are assumed to have required complex cognition. We present an application of Petri net analysis to compare Neanderthal tar production technologies and tie the results to cognitive requirements. We applied three complexity metrics, each relying on their own unique definitions of complexity, to the modeled production processes. Based on the results, we propose that Neanderthal technical cognition may have been analogous to that of contemporary modern humans. This method also enables us to distinguish the high-order cognitive functions combining traits like planning, inhibitory control, and learning that were likely required by different ancient technological processes. The Petri net approach can contribute to our understanding of technology and cognitive evolution as it can be used on different materials and technologies, across time and species.
Neonatal outcomes of elective labor induction in low-risk term pregnancies
Authors: Bengtsson Frida , Ekéus Cecilia , Hagelroth Amelie , Ahlsson Fredrik 
Published: September 2023

AbstractThe rate of labor induction has increased in recent years. The results of previously conducted studies examining associations between elective induction of labor (IOL) and neonatal outcomes have been contradictory. The aim of this study was to examine the intrinsic neonatal risks following IOL. We conducted a population-based cohort study, including all women with recorded low-risk singleton pregnancies at a gestational age between 37 + 0 and 41 + 6 weeks in Sweden from 1999 to 2017. Data were collected from the Swedish Medical Birth register. Two study groups were compared—the elective induction group with the spontaneous labor onset group. The results showed that the rate of elective IOL increased from 7.2% in 1999 to 16.4% in 2017. Elective IOL was associated with a higher OR for chorioamnionitis, bacterial sepsis, intracranial hemorrhage, assisted ventilation, hyperbilirubinemia, APGAR < 7 at 5 min, and neonatal seizures compared to deliveries with spontaneous labor onset. Regarding mortality outcomes, no significant differences were shown between the groups for either early term or full-term deliveries. We conclude that IOL is associated with neonatal complications, although causality could not be established in this observational study. It is important to be aware of the increased risk and perform IOL with caution.
Life expectancy of Anopheles funestus is double that of Anopheles arabiensis in southeast Tanzania based on mark-release-recapture method
Authors: Ntabaliba Watson , Vavassori Laura , Stica Caleb , Makungwa Noel , Odufuwa Olukayode G. , Swai Johnson Kyeba , Lekundayo Ruth , Moore Sarah 
Published: September 2023

AbstractAnopheles arabiensis and Anopheles funestus sensu stricto mosquitoes are major East African malaria vectors. Understanding their dispersal and population structure is critical for developing effective malaria control tools. Three mark-release-recapture (MRR) experiments were conducted for 51 nights to assess daily survival and flight range of An. arabiensis and An. funestus mosquitoes in south-eastern, Tanzania. Mosquitoes were marked with a fluorescent dye as they emerged from breeding sites via a self-marking device. Mosquitoes were collected indoors and outdoors using human landing catches (HLC) and Centers for Disease Control and Prevention light traps (CDC-LT). In total, 4210 An. arabiensis and An. funestus were collected with 316 (7.5%) marked and recaptured (MR). Daily mean MR was 6.8, standard deviation (SD ± 7.6) for An. arabiensis and 8.9 (SD ± 8.3) for An. funestus. Probability of daily survival was 0.76 for An. arabiensis and 0.86 for An. funestus translating into average life expectancy of 3.6 days for An. arabiensis and 6.5 days for An. funestus. Dispersal distance was 654 m for An. arabiensis and 510 m for An. funestus. An. funestus life expectancy was substantially longer than that of An. arabiensis. The MRR method described here could be routinely utilized when evaluating the impact of new vector control tools on mosquito survival.
Febrile infants risk score at triage (FIRST) for the early identification of serious bacterial infections
Authors: Chong Shu-Ling , Niu Chenglin , Ong Gene Yong-Kwang , Piragasam Rupini , Khoo Zi Xean , Koh Zhi Xiong , Guo Dagang , Lee Jan Hau , Ong Marcus Eng Hock , Liu Nan 
Published: September 2023

AbstractWe aimed to derive the Febrile Infants Risk Score at Triage (FIRST) to quantify risk for serious bacterial infections (SBIs), defined as bacteremia, meningitis and urinary tract infections. We performed a prospective observational study on febrile infants < 3 months old at a tertiary hospital in Singapore between 2018 and 2021. We utilized machine learning and logistic regression to derive 2 models: FIRST, based on patient demographics, vital signs and history, and FIRST + , adding laboratory results to the same variables. SBIs were diagnosed in 224/1002 (22.4%) infants. Among 994 children with complete data, age (adjusted odds ratio [aOR] 1.01 95%CI 1.01–1.02,p < 0.001), high temperature (aOR 2.22 95%CI 1.69–2.91, p < 0.001), male sex (aOR 2.62 95%CI 1.86–3.70, p < 0.001) and fever of ≥ 2 days (aOR 1.79 95%CI 1.18–2.74,p = 0.007) were independently associated with SBIs. For FIRST + , abnormal urine leukocyte esterase (aOR 16.46 95%CI 10.00–27.11,p < 0.001) and procalcitonin (aOR 1.05 95%CI 1.01–1.09,p = 0.009) were further identified. A FIRST + threshold of ≥ 15% predicted risk had a sensitivity of 81.8% (95%CI 70.5–91.0%) and specificity of 65.6% (95%CI 57.8–72.7%). In the testing dataset, FIRST + had an area under receiver operating characteristic curve of 0.87 (95%CI 0.81–0.94). These scores can potentially guide triage and prioritization of febrile infants.
Pichia pastoris growth—coupled heme biosynthesis analysis using metabolic modelling
Authors: Pentjuss Agris , Bolmanis Emils , Suleiko Anastasija , Didrihsone Elina , Suleiko Arturs , Dubencovs Konstantins , Liepins Janis , Kazaks Andris , Vanags Juris 
Published: September 2023

AbstractSoy leghemoglobin is one of the most important and key ingredients in plant-based meat substitutes that can imitate the colour and flavour of the meat. To improve the high-yield production of leghemoglobin protein and its main component—heme in the yeast Pichia pastoris, glycerol and methanol cultivation conditions were studied. Additionally, in-silico metabolic modelling analysis of growth-coupled enzyme quantity, suggests metabolic gene up/down-regulation strategies for heme production. First, cultivations and metabolic modelling analysis of P. pastoris were performed on glycerol and methanol in different growth media. Glycerol cultivation uptake and production rates can be increased by 50% according to metabolic modelling results, but methanol cultivation—is near the theoretical maximum. Growth-coupled metabolic optimisation results revealed the best feasible upregulation (33 reactions) (1.47% of total reactions) and 66 downregulation/deletion (2.98% of total) reaction suggestions. Finally, we describe reaction regulation suggestions with the highest potential to increase heme production yields.
Identification of mouse soleus muscle proteins altered in response to changes in gravity loading
Authors: Ino Yoko , Ohira Takashi , Kumagai Ken , Nakai Yusuke , Akiyama Tomoko , Moriyama Kayano , Takeda Yuriko , Saito Tomoyuki , Ryo Akihide , Inaba Yutaka , Hirano Hisashi , Kimura Yayoi 
Published: September 2023

AbstractGravity-dependent physical processes strongly affect the ability of elderly people to maintain musculoskeletal health by reducing muscle atrophy and increasing bone mineral density, thereby increasing quality of life. A need therefore exists to identify molecules in the musculoskeletal system that are responsive to gravitational loading and to establish an objective indicator for the maintenance of healthy musculoskeletal systems. Here, we performed an integrated assessment of the results of soleus muscle proteomic analyses in three model mouse experiments under different gravity environments (hypergravity, hindlimb unloading, and spaceflight). Myl6b, Gpd1, Fbp2, Pvalb, and Actn3 were shown to be gravity-responsive muscle proteins, and alterations in the levels of these proteins indicated changes in muscle fiber type to slow-twitch type due to gravity loading. In addition, immunoblotting and enzyme-linked immunosorbent assays revealed that Pvalb levels in the sera of hindlimb-unloaded mice and osteoporosis patients were higher than in control subjects, suggesting that Pvalb levels might be useful to objectively evaluate soleus muscle atrophy and bone loss.
Identification of transcriptional level variations in microRNA-221 and microRNA-222 as alternate players in the thyroid cancer tumor microenvironment
Authors: Khan Rashida , Riaz Aayesha , Abbasi Samina Asghar , Sadaf Tanzeela , Baig Ruqia Mehmood , Mansoor Qaisar 
Published: September 2023

AbstractThyroid cancer (TC) is caused by genetic factors and or their cross talk with lifestyle and environment. An important role of miRNA involvement has been identified in different human diseases alongside the cancer. The growing cloud of miRNA discoveries narrates miRNA-221 and miRNA-222 as key elements of ready arsenal in the cancer micro-niches. The aim of present study was to identify the variations of miRNA-221 and miRNA-222 expression in TC tissues and their likely association with TC. miRNA-221 and miRNA-222 were investigated for their expressional alterations in TC tissue samples and healthy thyroid tissue. Expression of miRNA-221 and -222 was analyzed through real time PCR. The relative gene expression of both the miRNA was quantified and statistically evaluated. miRNA-221 and miRNA-222 were found to be highly over expressed when compared with samples of multinodular goiter (MNG) and normal controls. Interestingly, it was also noted that miRNA-221 and miRNA-222 expression is working in a cluster in thyroid cancer patients. So, it can be concluded that the expressional alterations of miRNA-221 and -222 are playing their potential role in the development of thyroid cancer.
The effect of mobile-based logotherapy on depression, suicidal ideation, and hopelessness in patients with major depressive disorder: a mixed-methods study
Authors: Shaygan Maryam , Hosseini Fahimeh Alsadat , Shemiran Marzieh , Hedayati Arvin 
Published: September 2023

AbstractMajor depressive disorder is one of the most common psychiatric disorders in the world. It is essential to study and use effective, available, and affordable psychotherapy methods along with drug therapy to manage the symptoms of this disease. Therefore, the current study aimed to determine the effect of mobile phone-based logotherapy on depression, suicidal ideation, and hopelessness in patients with major depressive disorder by using a mixed-methods approach. In the first phase of this mixed-methods study, 70 patients completed the quantitative phase (control group = 35, intervention group = 35). The intervention group received an 8-week mobile-based logotherapy program via WhatsApp (one 180-min module per week) combined with sertraline, while the control group received just sertraline plus education about pharmacotherapy. Data was collected before, immediately after the intervention, and 3 months later using the Beck depression inventory short form items (BDI-13), the Beck hopelessness scale (BHS), and the Beck scale for suicide ideation (BSSI). Then, a qualitative study on the intervention group was conducted to explain the findings of the quantitative phase. The repeated measure MANOVA revealed a significant interaction effect of time and group on the set of dependent variables (F(6,63) = 25.218, P < 0.001). Qualitative analysis confirmed the efficacy of sertraline plus mobile-based logotherapy on depression, suicidal ideation, and hopelessness in the intervention group. Three key themes extracted from the participants’ experiences of mobile-based logotherapy were “efficient instruction”, “user-friendly intervention” and “constructive change”. Mobile-based logotherapy through WhatsApp was an effective psychotherapy method for decreasing depression, hopelessness, and suicidal ideation in patients with major depressive disorder. It is suggested that educational, institutional, and technological infrastructure for providing and using mobile-based logotheapy for patients with major depressive disorder be considered in the mental health care system.