bluuebunny/crossref_metadata_2025_split huggingface dataset:
Active ingredients Isorhamnetin of Croci Srigma inhibit stomach adenocarcinomas progression by MAPK/mTOR signaling pathway
Authors: Shi Xue-feng , Yu Qi , Wang Kai-bo , Fu Yi-dong , Zhang Shun , Liao Zhen-yun , Li Yan , Cai Ting 
Published: August 2023

AbstractGastric cancer (GC) remains the third leading cause of cancer-related mortality in the world, and ninety-five percent of GC are stomach adenocarcinomas (STAD). The active ingredients of Croci Stigma, such as Isorhamnetin, Crocin, Crocetin and Kaempferol, all have antitumor activity. However, their chemical and pharmacological profiles remain to be elusive. In this study, network pharmacology was used to characterize the action mechanism of Croci Stigma. All compounds were obtained from the traditional Chinese medicine systems pharmacology (TCMSP) database, and active ingredients were selected by their oral bioavailability and drug-likeness index. The targets of Croci Stigma active ingredients were obtained from the traditional Chinese medicine integrated database (TCMID), whereas the related genes of STAD were obtained from DisGeNET platform. Cytoscape was used to undertake visual analyses of the Drug Ingredients–Gene Symbols–Disease (I–G–D) network, and 2 core genes including MAPK14, ERBB3 were obtained, which are the predicted targets of isorhamnetin (IH) and quercetin, respectively. Data analysis from TCGA platform showed that MAPK14 and ERBB3 all upregulated in STAD patients, but only the effect of MAPK14 expression on STAD patients’ survival was significant. Molecular docking showed that IH might affect the function of MAPK14 protein, and then the underlying action mechanisms of IH on STAD were experimentally validated using human gastric cancer cell line, HGC-27 cells. The results showed that IH can inhibit cell proliferation, migration, clonal formation, and arrest cell cycle, but promote the apoptosis of HGC-27 cells. qRT-PCR data demonstrated that IH downregulated the MAPK14 mRNA expression and EMT related genes. WB results showed that IH regulates MAPK/mTOR signaling pathway. These findings suggest that IH has the therapeutic potential for the treatment of STAD.
Genomic and phenotypic characterization of Acinetobacter colistiniresistens isolated from the feces of a healthy member of the community
Authors: Muzahid Nazmul Hasan , Md Zoqratt Muhammad Zarul Hanifah , Ten Kah Ern , Hussain Md Hamed , Su Tin Tin , Ayub Qasim , Tan Hock Siew , Rahman Sadequr 
Published: August 2023

AbstractAcinetobacter species are widely known opportunistic pathogens causing severe community and healthcare-associated infections. One such emerging pathogen, Acinetobacter colistiniresistens, is known to exhibit intrinsic resistance to colistin. We investigated the molecular characteristics of A. colistiniresistens strain C-214, isolated from the fecal sample of a healthy community member, as part of a cohort study being conducted in Segamat, Malaysia. Comparison of the whole genome sequence of C-214 with other A. colistiniresistens sequences retrieved from the NCBI database showed 95% sequence identity or more with many of the genome sequences representing that species. Use of the Galleria mellonella killing assay showed that C-214 was pathogenic in this model infection system. The strain C-214 had a colistin and polymyxin B MIC of 32 and 16 mg/L, respectively. Besides, it was resistant to cefotaxime, amikacin, and tetracycline and showed moderate biofilm-producing ability. Different genes associated with virulence or resistance to major classes of antibiotics were detected. We observed mutations in lpxA/C/D in C-214 and other A. colistiniresistens strains as probable causes of colistin resistance, but the biological effects of these mutations require further investigation. This study provides genomic insights into A. colistiniresistens, a potentially pathogenic bacterium isolated from a community member and notes the public health threat it may pose.
Invasion success of a Lessepsian symbiont-bearing foraminifera linked to high dispersal ability, preadaptation and suppression of sexual reproduction
Authors: S. Raposo Débora , A. Zufall Rebecca , Caruso Antonio , Titelboim Danna , Abramovich Sigal , Hassenrück Christiane , Kucera Michal , Morard Raphaël 
Published: August 2023

AbstractAmong the most successful Lessepsian invaders is the symbiont-bearing benthic foraminifera Amphistegina lobifera. In its newly conquered habitat, this prolific calcifier and ecosystem engineer is exposed to environmental conditions that exceed the range of its native habitat. To disentangle which processes facilitated the invasion success of A. lobifera into the Mediterranean Sea we analyzed a ~ 1400 bp sequence fragment covering the SSU and ITS gene markers to compare the populations from its native regions and along the invasion gradient. The genetic variability was studied at four levels: intra-genomic, population, regional and geographical. We observed that the invasion is not associated with genetic differentiation, but the invasive populations show a distinct suppression of intra-genomic variability among the multiple copies of the rRNA gene. A reduced genetic diversity compared to the Indopacific is observed already in the Red Sea populations and their high dispersal potential into the Mediterranean appears consistent with a bridgehead effect resulting from the postglacial expansion from the Indian Ocean into the Red Sea. We conclude that the genetic structure of the invasive populations reflects two processes: high dispersal ability of the Red Sea source population pre-adapted to Mediterranean conditions and a likely suppression of sexual reproduction in the invader. This discovery provides a new perspective on the cost of invasion in marine protists: The success of the invasive A. lobifera in the Mediterranean Sea comes at the cost of abandonment of sexual reproduction.
Exploring the G-quadruplex binding and unwinding activity of the bacterial FeS helicase DinG
Authors: De Piante Elisa , D’Aria Federica , Napolitano Luisa M. R. , Amato Jussara , Pirrello Simone , Onesti Silvia , Giancola Concetta 
Published: August 2023

AbstractDespite numerous reports on the interactions of G-quadruplexes (G4s) with helicases, systematic analysis addressing the selectivity and specificity of each helicase towards a variety of G4 topologies are scarce. Among the helicases able to unwind G4s are those containing an iron-sulphur (FeS) cluster, including both the bacterial DinG (found in E. coli and several pathogenic bacteria) and the medically important eukaryotic homologues (XPD, FancJ, DDX11 and RTEL1). We carried out a detailed study of the interactions between the E. coli DinG and a variety of G4s, by employing physicochemical and biochemical methodologies. A series of G4-rich sequences from different genomic locations (promoter and telomeric regions), able to form unimolecular G4 structures with diverse topologies, were analyzed (c-KIT1, KRAS, c-MYC, BCL2, Tel23, T30695, Zic1). DinG binds to most of the investigated G4s with little discrimination, while it exhibits a clear degree of unwinding specificity towards different G4 topologies. Whereas previous reports suggested that DinG was active only on bimolecular G4s, here we show that it is also able to bind to and resolve the more physiologically relevant unimolecular G4s. In addition, when the G4 structures were stabilized by ligands (Pyridostatin, PhenDC3, BRACO-19 or Netropsin), the DinG unwinding activity decreased and in most cases was abolished, with a pattern that is not simply explained by a change in binding affinity. Overall, these results have important implications for the biochemistry of helicases, strongly suggesting that when analysing the G4 unwinding property of an enzyme, it is necessary to investigate a variety of G4 substrates.
Gata3 is required in late proneurosensory development for proper sensory cell formation and organization
Authors: Blinkiewicz Paige V. , Long Makayla R. , Stoner Zachary A. , Ketchum Elizabeth M. , Sheltz-Kempf Sydney N. , Duncan Jeremy S. 
Published: August 2023

AbstractIt has previously been shown that the zinc-finger transcription factor Gata3 has dynamic expression within the inner ear throughout embryonic development and is essential for cochlear neurosensory development. However, the temporal window for which Gata3 is required for proper formation of the cochlear neurosensory epithelia remains unclear. To investigate the role of Gata3 in cochlear neurosensory development in the late prosensory stages, we used the Sox2-creERT2 mouse line to target and conditionally delete Gata3 at E11.5, a timepoint before cells have fully committed to a neurosensory fate. While the inner ears of Sox2-creERT2: Gata3 f/f mice appear normal with no gross structural defects, the sensory cells in the organ of Corti are partially lost and disorganized in an increasing severity from base to apex. Additionally, spiral ganglion neurons display aberrant peripheral projections, including increased distances between radial bundles and disorganization upon reaching the organ of Corti. Furthermore, heterozygous Sox2-creERT2: Gata3 f/+ mice show a reduced aberrant phenotype in comparison to the homozygous mutant, supporting the hypothesis that Gata3 is not only required for proper formation at the later proneurosensory stage, but also that a specific expression level of Gata3 is required. Therefore, this study provides evidence that Gata3 plays a time-sensitive and dose-dependent role in the development of sensory and neuronal cells in late proneurosensory stages.
A new formula to predict the size and insertion depth of cuffed nasotracheal tube in children receiving dental surgery: a retrospective study
Authors: Chou Chen-Hung , Tsai Chia-Ling , Lin Kai-Lieh , Wu Shao-Chun , Chiang Min-Hsien , Huang Hui-Wen , Hung Kuo-Chuan 
Published: August 2023

AbstractThis retrospective study aimed to develop a new formula for selecting the appropriate size and determining the depth of the cuffed nasotracheal intubation (NTI) for a cuffed endotracheal tube (cETT) in pediatric patients undergoing dental surgery. In addition, the clinical data on cETT (i.e., the size and depth of insertion) was compared with those calculated with age-based formulas to evaluate their correlation. A total number of 684 patients who received NTI were enrolled (healthy group, n = 607; special-need group, n = 77). The ETT size used in real-world scenarios was smaller (i.e., about 0.5 and 0.94 mm) than the age-based formula, while the ETT depth was greater (i.e., about 1.5 cm) than the age-based formula in both groups. In the healthy group, age, gender, and body weight were identified as predictors of ETT size and depth through multiple linear regression analysis, while only age and body weight were predictors in the special-needs group. New formulas were developed based on these findings, with ETT size = 3.98 + 0.052 × age + 0.048 × gender (male = 1, female = 0) + 0.023 × body weight (kg) and ETT depth = 15.1 + 0.43 × age + 0.300 × gender (male = 1, female = 0) + 0.007 × body weight (kg). The new formula could be useful for both healthy and special-need pediatric populations undergoing dental procedures.
Deep learning-based method for analyzing the optically trapped sperm rotation
Authors: Zhao Jiangcheng , Bai Chuanbiao , Zhang Zhiguo , Zhang Qingchuan 
Published: August 2023

AbstractOptical tweezers exert a strong trapping force on cells, making it crucial to analyze the movement of trapped cells. The rotation of cells plays a significant role in their swimming patterns, such as in sperm cells. We proposed a fast deep-learning-based method that can automatically determine the projection orientation of ellipsoidal-like cells without additional optical design. This method was utilized for analyzing the planar rotation of trapped sperm cells using an optical tweezer, demonstrating its feasibility in extracting the rotation of the cell head. Furthermore, we employed this method to investigate sperm cell activity by examining variations in sperm rotation rates under different conditions, including temperature and laser output power. Our findings provide evidence for the effectiveness of this method and the rotation analysis method developed may have clinical potential for sperm quality evaluation.
Functional status analysis of RNH1 in bladder cancer for predicting immunotherapy response
Authors: Chen Sen , Ran Jun , Fan Zhouqian , Liu Mingyou , Wu Liang , Li Qiude , Peng Jian , Hu Zuquan 
Published: August 2023

AbstractBladder cancer (BLCA) typically has a poor prognosis due to high rates of relapse and metastasis. Although the emergence of immunotherapy brings hope for patients with BLCA, not all patients will benefit from it. Identifying some markers to predict treatment response is particularly important. Here, we aimed to determine the clinical value of the ribonuclease/angiogenin inhibitor 1 (RNH1) in BLCA therapy based on functional status analysis. First, we found that RNH1 is aberrantly expressed in multiple cancers but is associated with prognosis in only a few types of cancer. Next, we determined that low RNH1 expression was significantly associated with enhanced invasion and metastasis of BLCA by assessing the relationship between RNH1 and 17 functional states. Moreover, we identified 95 hub genes associated with invasion and metastasis among RNH1-related genes. Enrichment analysis revealed that these hub genes were also significantly linked with immune activation. Consistently, BLCA can be divided into two molecular subtypes based on these hub genes, and the differentially expressed genes between the two subtypes are also significantly enriched in immune-related pathways. This indicates that the expression of RNH1 is also related to the tumour immune response. Subsequently, we confirmed that RNH1 shapes an inflammatory tumour microenvironment (TME), promotes activation of the immune response cycle steps, and has the potential to predict the immune checkpoint blockade (ICB) treatment response. Finally, we demonstrated that high RNH1 expression was significantly associated with multiple therapeutic signalling pathways and drug targets in BLCA. In conclusion, our study revealed that RNH1 could provide new insights into the invasion of BLCA and predict the immunotherapy response in patients with BLCA.
Classification of mild Parkinson’s disease: data augmentation of time-series gait data obtained via inertial measurement units
Authors: Uchitomi Hirotaka , Ming Xianwen , Zhao Changyu , Ogata Taiki , Miyake Yoshihiro 
Published: August 2023

AbstractData-augmentation methods have emerged as a viable approach for improving the state-of-the-art performances for classifying mild Parkinson’s disease using deep learning with time-series data from an inertial measurement unit, considering the limited amount of training datasets available in the medical field. This study investigated effective data-augmentation methods to classify mild Parkinson’s disease and healthy participants with deep learning using a time-series gait dataset recorded via a shank-worn inertial measurement unit. Four magnitude-domain-transformation and three time-domain-transformation data-augmentation methods, and four methods involving mixtures of the aforementioned methods were applied to a representative convolutional neural network for the classification, and their performances were compared. In terms of data-augmentation, compared with baseline classification accuracy without data-augmentation, the magnitude-domain transformation performed better than the time-domain transformation and mixed-data augmentation. In the magnitude-domain transformation, the rotation method significantly contributed to the best performance improvement, yielding accuracy and F1-score improvements of 5.5 and 5.9%, respectively. The augmented data could be varied while maintaining the features of the time-series data obtained via the sensor for detecting mild Parkinson’s in gait; this data attribute may have caused the aforementioned trend. Notably, the selection of appropriate data extensions will help improve the classification performance for mild Parkinson’s disease.
Comparison of the dried properties of Ganoderma lucidum produced by the convective dryer and infrared dryer
Authors: Naseri Maryam , Movagharnejad Kamyar , Nanvakenari Sara 
Published: August 2023

AbstractGanoderma lucidum is a promising medicine with a high amount of antioxidants and calcium. The selection of appropriate drying process methods in food science has a chief role to reach the best final characteristics. This study aimed to investigate the effects of air velocity and temperature in the convective dryer, sample distance, and infrared power in infrared dryers on the drying kinetics and quality of Ganoderma lucidum slices. In addition, Response Surface Methodology based on central composition design was used to optimize and analyze drying conditions. The ranges of temperature and air velocity were 40–60 °C and 0.5–1.5 m/s, respectively in the convective drying process while the range of distance and infrared power was 4–16 cm and 500–1500 W, respectively in the infrared drying process. It is worth mentioning that antioxidant and calcium contents were greatly enhanced during the drying procedures. Moreover, the values of the total color difference ranged between 8.21 and 19.66 for the convective dryer and 8.14 and 28.85 for the infrared dryer. A kinetic study indicated that dried samples by the infrared dryer could rapidly reach equilibrium moisture content due to exposure to IR radiation. Consequently, the results indicated that the infrared dryer has better performance than the convective dryer regarding drying time, energy consumption, and amount of calcium and antioxidant.
Weekly Treatment for Childhood Apraxia of Speech With Rapid Syllable Transition Treatment: A Single-Case Experimental Design Study
Authors: Thomas Donna , Murray Elizabeth , Williamson Eliza , McCabe Patricia 
Published: August 2023

Purpose:
The aim of this study was to pilot the efficacy of rapid syllable transition (ReST) treatment when provided once per week for a 50-min treatment session for 12 weeks with five children with childhood apraxia of speech. Of central importance was the children's retention and generalization of gains from treatment as indicators of speech motor learning.

Method:
A multiple-baseline across-participant design was employed to investigate (a) treatment effect on the 20 treated pseudowords, (b) generalization to 40 untreated real words and 10 untreated polysyllabic word sentences, and (c) maintenance of any treatment and generalization goals to up to 4 months posttreatment. To investigate any difference between in-session performance and retention, a comparison was made between data collected during treatment and probe sessions.

Results:
Treatment data collected during therapy showed all children improving across their 12 treatment sessions. Three of the five children showed a treatment effect on treated pseudowords in the probe sessions, but only one child showed generalization to untreated real words, and no children showed generalization to sentences.

Conclusions:
ReST treatment delivered at a dose frequency of once per week was efficacious for only one of the five children. In-session treatment data were not a reliable indicator of children's learning. One session per week of ReST therapy is therefore not recommended.

Supplemental Material:

https://doi.org/10.23641/asha.23751018
What the Evidence Does (and Does Not) Show for the Centers for Disease Control and Prevention Child Development Milestones: An Illustrative Example Using Expressive Vocabulary
Authors: Roberts Megan Y. , Sone Bailey J. , Jones Maranda K. , Standley Murielle , Conner Tracy , Lee E. Debbie , Norton Elizabeth S. , Roman Judith , Speights Marisha , Young Rylie , Weisleder Adriana 
Published: August 2023

Purpose:
Child development milestones are a critical tool for pediatricians and caregivers to use for developmental surveillance. Following review and selection by a panel of subject matter experts, the Centers for Disease Control and Prevention (CDC) published a revised list of milestones across multiple domains of development. Using expressive vocabulary, a key indicator of language development, as an illustrative example, the purpose of this brief review is to evaluate the evidence used to establish the CDC developmental milestones and determine whether the samples used to establish these milestones are representative of U.S. children.

Method:
Authors reviewed the methods and evidence cited to determine the CDC milestones. First, authors identified each language/communication milestone that measured expressive vocabulary as number of words, followed by review of the sources cited in support of each extracted milestone. Then, data related to both milestones and sample characteristics were extracted and compiled as well as compared with data from a validated parent report measure of expressive vocabulary, the MacArthur–Bates Communication Development Inventories.

Results:
Results indicated that evidence was conflicting, misaligned, or missing for the selected CDC expressive vocabulary milestones. This review also indicated that the samples used to determine the selected CDC expressive vocabulary milestones are not representative of U.S. children.

Conclusion:
The striking paucity of evidence supporting the new CDC milestones for expressive vocabulary illustrates the critical need for future research in this area to establish more accurate milestones for U.S. children, with a focus on culturally inclusive large-scale data.
Strong lensing selection effects
Authors: Sonnenfeld Alessandro , Li Shun-Sheng , Despali Giulia , Gavazzi Raphael , Shajib Anowar J. , Taylor Edward N. 
Published: August 2023

Contact. Strong lenses are a biased subset of the general population of galaxies.
Aims. The goal of this work is to quantify how lens galaxies and lensed sources differ from their parent distribution, namely the strong lensing bias.
Methods. We first studied how the strong lensing cross-section varies as a function of lens and source properties. Then, we simulated strong lensing surveys with data similar to that expected for Euclid and measured the strong lensing bias in different scenarios. We focused particularly on two quantities: the stellar population synthesis mismatch parameter, αsps, defined as the ratio between the true stellar mass of a galaxy and the stellar mass obtained from photometry, and the central dark matter mass at fixed stellar mass and size.
Results. Strong lens galaxies are biased towards higher stellar masses, smaller half-mass radii, and higher dark matter masses. The amplitude of the bias depends on the intrinsic scatter in the mass-related parameters of the galaxy population and on the completeness in Einstein radius of the lens sample. For values of the scatter that are consistent with observed scaling relations and a minimum detectable Einstein radius of 0.5″, the strong lensing bias in αsps is 10%, while that in the central dark matter mass is 5%. The bias has little dependence on the properties of the source population: samples of galaxy-galaxy lenses and galaxy-quasar lenses that probe the same Einstein radius distribution are biased in a very similar way.
Conclusions. Given current uncertainties, strong lensing observations can be used directly to improve our current knowledge of the inner structure of galaxies, without the need to correct for selection effects. Time-delay measurements of H0 from lensed quasars can take advantage of prior information obtained from galaxy-galaxy lenses with similar Einstein radii.