bluuebunny/crossref_metadata_2025 huggingface dataset:
Transdiagnostic clustering and network analysis for questionnaire-based symptom profiling and drug recommendation in the UK Biobank and a Korean cohort
Authors: Lee Eunjin , Lee Dongbin , Baek Ji Hyun , Kim So Yeon , Park Woong-yang
Published: February 2024

Clinical decision support systems (CDSSs) play a critical role in enhancing the efficiency of mental health care delivery and promoting patient engagement. Transdiagnostic approaches that utilize raw psychological and biological data enable personalized patient profiling and treatment. This study introduces a CDSS incorporating symptom profiling and drug recommendation for mental health care. Among the UK Biobank cohort, we analyzed 157,348 participants for symptom profiling and 14,358 participants with a drug prescription history for drug recommendation. Among the 1307 patients in the Samsung Medical Center cohort, 842 were eligible for analysis. Symptom profiling utilized demographic and questionnaire data, employing conventional clustering and community detection methods. Identified clusters were explored using diagnostic mapping, feature importance, and scoring. For drug recommendation, we employed cluster- and network-based approaches. The analysis identified nine clusters using k-means clustering and ten clusters with the Louvain method. Clusters were annotated for distinct features related to depression, anxiety, psychosis, drug addiction, and self-harm. For drug recommendation, drug prescription probabilities were retrieved for each cluster. A recommended list of drugs, including antidepressants, antipsychotics, mood stabilizers, and sedative–hypnotics, was provided to individual patients. This CDSS holds promise for efficient personalized mental health care and requires further validation and refinement with larger datasets, serving as a valuable tool for mental healthcare providers.
Tsunami deposits in Tunisia contemporaneous of the large 365 CE Crete earthquake and Mediterranean Sea catastrophic event
Authors: Bahrouni Nejib , Meghraoui Mustapha , Bayraktar Hafize Başak , Lorito Stefano , Zagrarni Mohamed Fawzi , Polonia Alina , Bel Mabrouk Nabil , Kamoun Fekri
Published: February 2024

New field investigations along the East Tunisian coastline reveal sedimentary deposits and damaged localities that may account for a catastrophic event during the late Holocene. North of Sfax city, ~ 3.4 m high cliff coastal marine and alluvial terraces show 20 to 50-cm-thick chaotic layer with sandy coarse gravels mixed with reworked pebbles, broken shells of gastropods and molluscs, organic matter and Roman pottery. The chaotic layer truncates sandy-silty paleosol, covers Roman settlements and is overlain by fire remains, a thin sandy-silty aeolian unit and ~ 1-m-thick alluvial deposits. Charcoal samples collected at 10 cm below and 4 cm above the catastrophic deposits provide radiocarbon dating that brackets the catastrophic unit between 286 and 370 CE. Other historical investigations on the Roman sites of Neapolis (Nabeul), Hadrumete (Sousse), Thyna (Sfax), Meninx in Girba (Djerba), Wadi Ennouili (Gulf of Gabes), and Sabratha (in Libya) evidenced major damage and abandonment of sites in the fourth century (16, 41, 42, 43, 44). The new identification of catastrophic deposits, offshore-onshore correlations with turbidites and modelling of tsunami waves suggest the relationship with the 21 July 365 tsunamigenic earthquake (Mw ~ 8) of west Crete (Greece) and call for a better estimate of tsunami risk on the Mediterranean coastlines.
Machine learning approaches to evaluate infants’ general movements in the writhing stage—a pilot study
Authors: Letzkus Lisa , Pulido J. Vince , Adeyemo Abiodun , Baek Stephen , Zanelli Santina
Published: February 2024

The goals of this study are to describe machine learning techniques employing computer-vision movement algorithms to automatically evaluate infants’ general movements (GMs) in the writhing stage. This is a retrospective study of infants admitted 07/2019 to 11/2021 to a level IV neonatal intensive care unit (NICU). Infant GMs, classified by certified expert, were analyzed in two-steps (1) determination of anatomic key point location using a NICU-trained pose estimation model [accuracy determined using object key point similarity (OKS)]; (2) development of a preliminary movement model to distinguish normal versus cramped-synchronized (CS) GMs using cosine similarity and autocorrelation of major joints. GMs were analyzed using 85 videos from 74 infants; gestational age at birth 28.9 ± 4.1 weeks and postmenstrual age (PMA) at time of video 35.9 ± 4.6 weeks The NICU-trained pose estimation model was more accurate (0.91 ± 0.008 OKS) than a generic model (0.83 ± 0.032 OKS, p < 0.001). Autocorrelation values in the lower limbs were significantly different between normal (5 videos) and CS GMs (5 videos, p < 0.05). These data indicate that automated pose estimation of anatomical key points is feasible in NICU patients and that a NICU-trained model can distinguish between normal and CS GMs. These preliminary data indicate that machine learning techniques may represent a promising tool for earlier CP risk assessment in the writhing stage and prior to hospital discharge.
Impact of motor task conditions on end-point kinematics and trunk movements during goal-directed arm reach
Authors: Kim Bokkyu , Girnis Jaimie , Sweet Vanessa , Nobiling Tobias , Agag Tarek , Neville Christopher
Published: February 2024

Task conditions significantly impact human motor control. We investigated how task type, difficulty, and constraints influence the kinematics of goal-directed arm reaching. Non-disabled young adults performed two distinct goal-directed arm reaching tasks: pointing and picking up an object with chopsticks. These tasks were carried out under various conditions, including constrained and unconstrained elbow extension and two different task difficulties. We collected kinematic data using a 3-D motion capture system and analyzed the effects of different task conditions on kinematic variables using linear mixed-effects regression analysis. Our findings revealed statistically significant differences in kinematics between the two tasks. Arm reaching during the picking-up task was slower and exhibited jerkier movements compared to the pointing task. Additionally, when arm reaching was performed with constrained elbow extension, it led to slower and jerkier movements, with an increased involvement of trunk movements compared to the unconstrained condition. These findings show that complex manipulative motor tasks requiring higher hand dexterity necessitate feedback-based control of arm reaching, but simple pointing tasks requiring less hand dexterity do not. In conclusion, our study sheds light on the influence of task conditions on goal-directed arm reaching kinematics and provides valuable insights into the motor control strategies involved in different tasks.
Transcriptomic changes in barley leaves induced by alcohol ethoxylates indicate potential pathways of surfactant detoxification
Authors: Baales Johanna , Zeisler-Diehl Viktoria V. , Kreszies Tino , Klaus Alina , Hochholdinger Frank , Schreiber Lukas
Published: February 2024

Hardly anything is known regarding the detoxification of surfactants in crop plants, although they are frequently treated with agrochemical formulations. Therefore, we studied transcriptomic changes in barley leaves induced in response to spraying leaf surfaces with two alcohol ethoxylates (AEs). As model surfactants, we selected the monodisperse tetraethylene glycol monododecyl (C12E4) ether and the polydisperse BrijL4. Barley plants were harvested 8 h after spraying with a 0.1% surfactant solution and changes in gene expression were analysed by RNA-sequencing (RNA-Seq). Gene expression was significantly altered in response to both surfactants. With BrijL4 more genes (9724) were differentially expressed compared to C12E4 (6197). Gene families showing pronounced up-regulation were cytochrome P450 enzymes, monooxygenases, ABC-transporters, acetyl- and methyl- transferases, glutathione-S-transferases and glycosyltransferases. These specific changes in gene expression and the postulated function of the corresponding enzymes allowed hypothesizing three potential metabolic pathways of AE detoxification in barley leaves. (i) Up-regulation of P450 cytochrome oxidoreductases suggested a degradation of the lipophilic alkyl residue (dodecyl chain) of the AEs by ω- and β- oxidation. (ii) Alternatively, the polar PEG-chain of AEs could be degraded. (iii) Instead of surfactant degradation, a further pathway of detoxification could be the sequestration of AEs into the vacuole or the apoplast (cell wall). Thus, our results show that AEs lead to pronounced changes in the expression of genes coding for proteins potentially being involved in the detoxification of surfactants.
Utilizing the sublingual form of squalene in COVID-19 patients: a randomized clinical trial
Authors: Ebrahimi Mahmoud , Farhadian Nafiseh , Soflaei Sara Saffar , Amiri Alireza , Tanbakuchi Davoud , Oskooee Rozita Khatamian , Karimi Mohammad
Published: February 2024

In this study, the efficacy of sublingual squalene in decreasing the mortality rate among patients with COVID-19 was investigated. Squalene was extracted from pumpkin seed oil with a novel method. Then, the microemulsion form of squalene was prepared for sublingual usage. In the clinical study, among 850 admitted patients, 602 eligible COVID-19 patients were divided in two groups of control (N = 301) and cases (N = 301) between Nov 2021 and Jan 2022. Groups were statistically the same in terms of age, sex, BMI, lymphocyte count on 1st admission day, hypertension, chronic kidney disease, chronic respiratory disease, immunosuppressive disease, and required standard treatments. The treatment group received five drops of sublingual squalene every 4 h for 5 days plus standard treatment, while the control group received only standard treatment. Patients were followed up for 30 days after discharge from the hospital. The sublingual form of squalene in the microemulsion form was associated with a significant decrease in the mortality rate (p < 0.001), in which 285 (94.7%) cases were alive after one month while 245 (81.4%) controls were alive after 1 month of discharge from the hospital. In addition, squalene appears to be effective in preventing re-hospitalization due to COVID-19 (p < 0.001), with 141 of controls (46.8%) versus 58 cases (19.3%). This study suggests sublingual squalene in the microemulsion as an effective drug for reducing mortality and re-hospitalization rates in COVID-19 patients.

Trial Registration Number: IRCT20200927048848N3.
Mosaic quadrivalent influenza vaccine single nanoparticle characterization
Authors: Yang Rong Sylvie , Traver Maria , Barefoot Nathan , Stephens Tyler , Alabanza Casper , Manzella-Lapeira Javier , Zou Guozhang , Wolff Jeremy , Li Yile , Resto Melissa , Shadrick William , Yang Yanhong , Ivleva Vera B. , Tsybovsky Yaroslav , Carlton Kevin , Brzostowski Joseph , Gall Jason G. , Lei Q. Paula
Published: February 2024

Recent work by our laboratory and others indicates that co-display of multiple antigens on protein-based nanoparticles may be key to induce cross-reactive antibodies that provide broad protection against disease. To reach the ultimate goal of a universal vaccine for seasonal influenza, a mosaic influenza nanoparticle vaccine (FluMos-v1) was developed for clinical trial (NCT04896086). FluMos-v1 is unique in that it is designed to co-display four recently circulating haemagglutinin (HA) strains; however, current vaccine analysis techniques are limited to nanoparticle population analysis, thus, are unable to determine the valency of an individual nanoparticle. For the first time, we demonstrate by total internal reflection fluorescence microscopy and supportive physical–chemical methods that the co-display of four antigens is indeed achieved in single nanoparticles. Additionally, we have determined percentages of multivalent (mosaic) nanoparticles with four, three, or two HA proteins. The integrated imaging and physicochemical methods we have developed for single nanoparticle multivalency will serve to further understand immunogenicity data from our current FluMos-v1 clinical trial.
A novel interpretable deep transfer learning combining diverse learnable parameters for improved T2D prediction based on single-cell gene regulatory networks
Authors: Alghamdi Sumaya , Turki Turki
Published: February 2024

Accurate deep learning (DL) models to predict type 2 diabetes (T2D) are concerned not only with targeting the discrimination task but also with learning useful feature representation. However, existing DL tools are far from perfect and do not provide appropriate interpretation as a guideline to explain and promote superior performance in the target task. Therefore, we provide an interpretable approach for our presented deep transfer learning (DTL) models to overcome such drawbacks, working as follows. We utilize several pre-trained models including SEResNet152, and SEResNeXT101. Then, we transfer knowledge from pre-trained models via keeping the weights in the convolutional base (i.e., feature extraction part) while modifying the classification part with the use of Adam optimizer to deal with classifying healthy controls and T2D based on single-cell gene regulatory network (SCGRN) images. Another DTL models work in a similar manner but just with keeping weights of the bottom layers in the feature extraction unaltered while updating weights of consecutive layers through training from scratch. Experimental results on the whole 224 SCGRN images using five-fold cross-validation show that our model (TFeSEResNeXT101) achieving the highest average balanced accuracy (BAC) of 0.97 and thereby significantly outperforming the baseline that resulted in an average BAC of 0.86. Moreover, the simulation study demonstrated that the superiority is attributed to the distributional conformance of model weight parameters obtained with Adam optimizer when coupled with weights from a pre-trained model.
Iterative pseudo balancing for stem cell microscopy image classification
Authors: Witmer Adam , Bhanu Bir
Published: February 2024

Many critical issues arise when training deep neural networks using limited biological datasets. These include overfitting, exploding/vanishing gradients and other inefficiencies which are exacerbated by class imbalances and can affect the overall accuracy of a model. There is a need to develop semi-supervised models that can reduce the need for large, balanced, manually annotated datasets so that researchers can easily employ neural networks for experimental analysis. In this work, Iterative Pseudo Balancing (IPB) is introduced to classify stem cell microscopy images while performing on the fly dataset balancing using a student-teacher meta-pseudo-label framework. In addition, multi-scale patches of multi-label images are incorporated into the network training to provide previously inaccessible image features with both local and global information for effective and efficient learning. The combination of these inputs is shown to increase the classification accuracy of the proposed deep neural network by 3$$\%$$
%
over baseline, which is determined to be statistically significant. This work represents a novel use of pseudo-labeling for data limited settings, which are common in biological image datasets, and highlights the importance of the exhaustive use of available image features for improving performance of semi-supervised networks. The proposed methods can be used to reduce the need for expensive manual dataset annotation and in turn accelerate the pace of scientific research involving non-invasive cellular imaging.
Automated vertical cup-to-disc ratio determination from fundus images for glaucoma detection
Authors: Gao Xiaoyi Raymond , Wu Fengze , Yuhas Phillip T. , Rasel Rafiul Karim , Chiariglione Marion
Published: February 2024

Glaucoma is the leading cause of irreversible blindness worldwide. Often asymptomatic for years, this disease can progress significantly before patients become aware of the loss of visual function. Critical examination of the optic nerve through ophthalmoscopy or using fundus images is a crucial component of glaucoma detection before the onset of vision loss. The vertical cup-to-disc ratio (VCDR) is a key structural indicator for glaucoma, as thinning of the superior and inferior neuroretinal rim is a hallmark of the disease. However, manual assessment of fundus images is both time-consuming and subject to variability based on clinician expertise and interpretation. In this study, we develop a robust and accurate automated system employing deep learning (DL) techniques, specifically the YOLOv7 architecture, for the detection of optic disc and optic cup in fundus images and the subsequent calculation of VCDR. We also address the often-overlooked issue of adapting a DL model, initially trained on a specific population (e.g., European), for VCDR estimation in a different population. Our model was initially trained on ten publicly available datasets and subsequently fine-tuned on the REFUGE dataset, which comprises images collected from Chinese patients. The DL-derived VCDR displayed exceptional accuracy, achieving a Pearson correlation coefficient of 0.91 (P = 4.12 × 10–412) and a mean absolute error (MAE) of 0.0347 when compared to assessments by human experts. Our models also surpassed existing approaches on the REFUGE dataset, demonstrating higher Dice similarity coefficients and lower MAEs. Moreover, we developed an optimization approach capable of calibrating DL results for new populations. Our novel approaches for detecting optic discs and optic cups and calculating VCDR, offers clinicians a promising tool that significantly reduces manual workload in image assessment while improving both speed and accuracy. Most importantly, this automated method effectively differentiates between glaucoma and non-glaucoma cases, making it a valuable asset for glaucoma detection.
Apigenin supplementation substantially improves rooster sperm freezability and post-thaw function
Authors: Najafi Abouzar , Mohammadi Hossein , Sharifi Seyed Davood , Rahimi Amin
Published: February 2024

This pioneering research investigated apigenin potential to augment rooster sperm cryosurvival in an extender model. Apigenin is a natural antioxidant flavonoid showing promise for improved post-thaw sperm function. However, its effects on avian semen cryopreservation remain unexplored. This first study supplemented rooster sperm Lake extender with 0, 50, 100, 200, 400 μmol/L apigenin to determine the optimal concentrations for post-thaw quality. Supplementation with 100 μmol/L apigenin resulted in significant enhancements in total motility (from 41.5% up to 71.5%), progressive motility (18.1% to 29.1%) (p < 0.05), membrane integrity (40% to 68%), mitochondrial function (p < 0.001), viability (37% to 62%) and total antioxidant capacity (p < 0.001) compared to the control. It also substantially reduced percentages of abnormal morphology, reactive oxygen species and apoptosis (p < 0.001). Although 200 μmol/L apigenin significantly enhanced some attributes, effects were markedly lower than 100 μmol/L. Higher doses did not improve cryoprotective parameters. This indicates 100 μmol/L as the optimal apigenin concentration. This represents the first report of apigenin protecting rooster sperm from cryodamage. The natural antioxidant improved post-thaw sperm quality, likely by suppressing oxidative stress and apoptosis. Apigenin shows promise for enhancing rooster sperm cryosurvival.
Optimized reamer geometry for controlled reaming of the proximal femur
Authors: Heinecke Markus , Layher Frank , Matziolis Georg
Published: February 2024

Preparation of the femoral proximal medullary cavity by reaming is essential for intramedullary nail osteosynthesis and hip revision arthroplasty. The use of reamers sometimes exerts high torsional forces on the bone. Design and direction of rotation of the reamer are potential influencing factors. The aim of this biomechanical study is to evaluate the best combination of a right- or left-cutting reamer with a clockwise- or counterclockwise-rotating insert in terms of preparation and safety. Right- and left-cutting reamers with conical design were each introduced into five synthetic femurs in both clockwise and counterclockwise rotation with constant feed force. A specially constructed test system was used for this series of tests, with which the respective intramedullary channel were reamed step by step. This was then used to determine the required torque. In addition, the feed rate measurement was analyzed using a modified digital caliper. The feed rates of the reamers with rotation in the same direction as the cutting direction were significantly increased compared to rotation in the opposite cutting direction (CCRLC vs. CCRRC 76.8 ± 9.0 mm/s vs. 25.2 ± 8.3 mm/s and CRRC vs. CRLC 54.3 ± 12.3 mm/s vs. 19.3 ± 0.6 mm/s; p < 0.01). In contrast, the mean torque during the reaming process was identical in all four groups. When preparing the proximal femoral medullary cavity, especially in cases with fragile bone structure, the available reamers should be introduced in opposite rotation to the cutting direction to achieve a more controllable feed of the reamer. Left-cutting reamers represent an alternative, using them in the usual clockwise-rotating technique to reduce the risk of complications during reaming.
Comparison of Cas12a and Cas9-mediated mutagenesis in tomato cells
Authors: Slaman Ellen , Kottenhagen Lisanne , de Martines William , Angenent Gerco C. , de Maagd Ruud A.
Published: February 2024

Cas12a is a promising addition to the CRISPR toolbox, offering versatility due to its TTTV-protospacer adjacent motif (PAM) and the fact that it induces double-stranded breaks (DSBs) with single-stranded overhangs. We characterized Cas12a-mediated genome editing in tomato using high-throughput amplicon sequencing on protoplasts. Of the three tested variants, Lachnospiraceae (Lb) Cas12a was the most efficient. Additionally, we developed an easy and effective Golden-Gate-based system for crRNA cloning. We compared LbCas12a to SpCas9 by investigating on-target efficacy and specificity at 35 overlapping target sites and 57 (LbCas12a) or 100 (SpCas9) predicted off-target sites. We found LbCas12a an efficient, robust addition to SpCas9, with similar overall though target-dependent efficiencies. LbCas12a induced more and larger deletions than SpCas9, which can be advantageous for specific genome editing applications. Off-target activity for LbCas12a was found at 10 out of 57 investigated sites. One or two mismatches were present distal from the PAM in all cases. We conclude that Cas12a-mediated genome editing is generally precise as long as such off-target sites can be avoided. In conclusion, we have determined the mutation pattern and efficacy of Cas12a-mediated CRISPR mutagenesis in tomato and developed a cloning system for the routine application of Cas12a for tomato genome editing.
High-voltage pulsed radiofrequency improves ultrastructure of DRG and enhances spinal microglial autophagy to ameliorate neuropathic pain induced by SNI
Authors: Chen Ri , Xu Xueru , Yu Youfen , Chen Yanqin , Lin Chun , Liu Rongguo
Published: February 2024

Neuropathic pain (NeP) is intractable for which many therapies are ineffective. High-voltage pulsed radiofrequency (HVPRF) on dorsal root ganglion (DRG) is considered an effective treatment for NeP. The aim of this study is to explore the therapeutic voltage for the optimal efficacy of PRF and the underlying mechanisms. The radiofrequency electrode was placed close to the L5 DRG of rats with spared nerve injury (SNI) and emitted current by the corresponding voltage in different groups. Four different voltages (45 V, 65 V, 85 V, and 100 V) of PRF on DRG significantly alleviated the SNI-induced NeP, reduced the levels of activating transcription factor 3 (ATF3) in DRG, improved the ultrastructure of DRG, and promoted autophagy in spinal microglia to varying degrees and partially reversed the increased expression of TNF-α and the reduced expression of IL-10 in spinal cord dorsal horn (SCDH). The beneficial effect of 85V-PRF was superior to those of other three PRF treatments. The underlying mechanisms may be related to repairing the DRG damage and improving the DRG ultrastructure while regulating spinal microglial autophagy and thereby alleviating neuroinflammation.
The unnecessary workups and admissions of adolescents and young adults with spontaneous pneumomediastinum
Authors: Wald Lindsay , Yergin Celeste , Petroze Robin , Larson Shawn , Islam Saleem
Published: February 2024

Spontaneous pneumomediastinum (SPM) is a rare condition in children and young adults that raises concern for esophageal perforation or extension of an air leak, resulting in admissions with multiple interventions performed. To assess our outcomes, and to evaluate our resource utilization, we reviewed our experience with SPM. We conducted a retrospective review of SPM cases in patients aged 5–25 years old occurring between 2011 and 2021 at a single academic tertiary care center. Clinical, demographic, and outcome variables were collected and analyzed, and cohorts were compared using Fischer’s Exact Test and Welch’s T Test. 166 SPM cases were identified—all of which were Emergency Department (ED) presentations. 84% of the cases were admitted. 70% had Computerized Tomography (CT) scans, with no defined criteria for imaging. Comparison of floor admissions with discharges from the ED showed no significant difference in presenting symptoms, demographics, or outcomes between the two groups. Recurrence was noted in 4 patients with a range of 5.9 months–4.9 years from the initial episode. In the largest SPM study in the pediatric and young adult population, we noted no significant difference in management or outcomes in admitted or ED discharge patients nor those with CT imaging. Our results suggest that a large number of SPM can be managed safely with discharge from the ED.
Comparative analysis of chloroplast and mitochondrial genomes of sweet potato provides evidence of gene transfer
Authors: Li GuoLiang , Zhang Hong , Lin Zhaomiao , Li Huawei , Xu Guochun , Xu Yongqing , Ji Rongchang , Luo Wenbin , Qiu Yongxiang , Qiu Sixin , Tang Hao
Published: February 2024

The increasing number of plant mitochondrial DNA genomes (mtDNA) sequenced reveals the extent of transfer from both chloroplast DNA genomes (cpDNA) and nuclear DNA genomes (nDNA). This study created a library and assembled the chloroplast and mitochondrial genomes of the leafy sweet potato better to understand the extent of mitochondrial and chloroplast gene transfer. The full-length chloroplast genome of the leafy sweet potato (OM808940) is 161,387 bp, with 132 genes annotated, including 87 protein-coding genes, 8 rRNA genes, and 37 tRNA genes. The mitochondrial genome (OM808941) was 269,578 bp in length and contained 69 functional genes, including 39 protein-coding genes, 6 rRNA genes, and 24 tRNA genes. 68 SSR loci were found in the leafy sweet potato organelle genome, including 54 in the chloroplast genome and 14 in the mitochondria genome. In the sweet potato mitochondrial genome, most genes have RNA editing sites, and the conversion ratio from hydrophilic amino acids to hydrophobic amino acids is the highest, reaching 47.12%. Horizontal transfer occurs in the sweet potato organelle genome and nuclear genome. 40 mitochondrial genome segments share high homology with 14 chloroplast genome segments, 33 of which may be derived from chloroplast genome horizontal transfer. 171 mitochondrial genome sequences come from the horizontal transfer of nuclear genome. The phylogenetic analysis of organelle genes revealed that the leafy sweet potato was closely related to the tetraploid wild species Ipomoea tabascana and the wild diploid species Ipomoea trifida.
A new pilot shared method for saving bandwidth cost of OFDM
Authors: Ali Shahid , Zheng Dongsheng , Jiao Bingli
Published: February 2024

The orthogonal frequency division multiplexing (OFDM) system applies coherent demodulation to achieve high spectral efficiency at a bandwidth cost by the pilot tones. Considering the statistical property of the down-link channels to the users, it can be found that there is an opportunity to reduce the pilot number in the conventional designs while maintaining the same signal demodulation performances. The design philosophy involves utilizing the difference of the channel coherent bandwidths (CCBs) by allocating data to appropriate positions upon the fact that different CCBs can tolerate different minimized pilot spacing. The proposed design allows each user’s equipment’s data not to exceed its CCB with the sparser pilots. The theoretical analysis is carried out based on the concept of channel frequency response using linear interpolation with channel estimation employing the least squares (LS) method. The gain of the proposed method is demonstrated in terms of the ergodic capacities and confirmed by the simulations.
Bioinformatics analysis for the identification of Sprouty-related EVH1 domain-containing protein 3 expression and its clinical significance in thyroid carcinoma
Authors: Zhang Xiaowei , Meng Xiangwei , Wang Pengyun , Luan Chong , Wang Haiming
Published: February 2024

The poorly differentiated thyroid carcinoma (THCA) subtype is associated with an aggressive disease course, a less favorable overall prognosis, and an increased risk of distant organ metastasis. In this study, our objective was to explore the potential utility of the Sprouty-related EVH1 domain-containing protein 3 (SPRED3) as a biomarker for early diagnosis and prognosis in THCA patients. The differentially expressed prognostic-related genes associated with THCA were identified by querying The Cancer Genome Atlas (TCGA) database. The difference in the expression of the SPRED3 gene between thyroid carcinoma (THCA) tissues and normal tissues was analyzed using data from The Cancer Genome Atlas (TCGA) and further validated through immunohistochemistry. Univariate and multivariate Cox regression models were used, along with clinical information from THCA patients, to analyze the prognostic value of the SPRED3 gene in THCA patients. Functional enrichment analysis was subsequently performed to elucidate the molecular mechanisms underlying the regulatory effects of the SPRED3 gene on thyroid carcinoma. Additionally, we calculated the percentage of infiltrating immune cells in THCA patients and evaluated their correlation with SPRED3 gene expression. Compared with those in noncancerous thyroid tissue, the gene and protein expression levels of SPRED3 were found to be elevated in thyroid carcinoma tissues. Furthermore, the expression of SPRED3 in thyroid carcinoma exhibited significant correlations with tumor location, histological grade, pathological stage, and tumor node metastasis classification (TNM) stage. Univariate and multivariate Cox proportional hazards (Cox) regression analyses demonstrated that SPRED3 could serve as an independent prognostic factor for predicting the overall survival of THCA patients. The results of functional enrichment analysis suggested the potential involvement of SPRED3 in the regulation of extracellular matrix organization, epidermal development, signaling receptor activator activity, skin development, receptor ligand activity, glycosaminoglycan binding, neuroactive ligand‒receptor interaction, the IL-17 signaling pathway, and the PI3K-Akt signaling pathway. Additionally, there were significant correlations between the expression level of the SPRED3 gene and the infiltration of various immune cells (eosinophils, central memory T cells, neutrophils, macrophages, and NK cells) within the thyroid tumor microenvironment. SPRED3 can be used as a prognostic biomarker in patients with THCA could potentially be therapeutic target for THCA.
Beam quality and the mystery behind the lower percentage depth dose in grid radiation therapy
Authors: Karimi Amir Hossein , Das Indra J. , Chegeni Nahid , Jabbari Iraj , Jafari Fatemeh , Geraily Ghazale
Published: February 2024

Grid therapy recently has been picking momentum due to favorable outcomes in bulky tumors. This is being termed as Spatially Fractionated Radiation Therapy (SFRT) and lattice therapy. SFRT can be performed with specially designed blocks made with brass or cerrobend with repeated holes or using multi-leaf collimators where dosimetry is uncertain. The dosimetric challenge in grid therapy is the mystery behind the lower percentage depth dose (PDD) in grid fields. The knowledge about the beam quality, indexed by TPR20/10 (Tissue Phantom Ratio), is also necessary for absolute dosimetry of grid fields. Since the grid may change the quality of the primary photons, a new $${\mathbf{k}}_{\mathbf{q},{\mathbf{q}}_{0}}$$

k

q
,

q
0

should be evaluated for absolute dosimetry of grid fields. A Monte Carlo (MC) approach is provided to resolving the dosimetric issues. Using 6 MV beam from a linear accelerator, MC simulation was performed using MCNPX code. Additionally, a commercial grid therapy device was used to simulate the grid fields. Beam parameters were validated with MC model for output factor, depth of maximum dose, PDDs, dose profiles, and TPR20/10. The electron and photon spectra were also compared between open and grid fields. The dmax is the same for open and grid fields. The PDD with grid is lower (~ 10%) than the open field. The difference in TPR20/10 of open and grid fields is observable (~ 5%). Accordingly, TPR20/10 is still a good index for the beam quality in grid fields and consequently choose the correct $${\mathbf{k}}_{\mathbf{q},{\mathbf{q}}_{0}}$$

k

q
,

q
0

in measurements. The output factors for grid fields are 0.2 lower compared to open fields. The lower depth dose with grid therapy is due to lower depth fluence with scatter radiation but it does not impact the dosimetry as the calibration parameters are insensitive to the effective beam energies. Thus, standard dosimetry in open beam based on international protocol could be used.
Novel antimicrobial peptides against Cutibacterium acnes designed by deep learning
Authors: Dong Qichang , Wang Shaohua , Miao Ying , Luo Heng , Weng Zuquan , Yu Lun
Published: February 2024

The increasing prevalence of antibiotic resistance in Cutibacterium acnes (C. acnes) requires the search for alternative therapeutic strategies. Antimicrobial peptides (AMPs) offer a promising avenue for the development of new treatments targeting C. acnes. In this study, to design peptides with the specific inhibitory activity against C. acnes, we employed a deep learning pipeline with generators and classifiers, using transfer learning and pretrained protein embeddings, trained on publicly available data. To enhance the training data specific to C. acnes inhibition, we constructed a phylogenetic tree. A panel of 42 novel generated linear peptides was then synthesized and experimentally evaluated for their antimicrobial selectivity and activity. Five of them demonstrated their high potency and selectivity against C. acnes with MIC of 2–4 µg/mL. Our findings highlight the potential of these designed peptides as promising candidates for anti-acne therapeutics and demonstrate the power of computational approaches for the rational design of targeted antimicrobial peptides.
YOLOFM: an improved fire and smoke object detection algorithm based on YOLOv5n
Authors: Geng Xin , Su Yixuan , Cao Xianghong , Li Huaizhou , Liu Linggong
Published: February 2024

To address the current difficulties in fire detection algorithms, including inadequate feature extraction, excessive computational complexity, limited deployment on devices with limited resources, missed detections, inaccurate detections, and low accuracy, we developed a highly accurate algorithm named YOLOFM. We utilized LabelImg software to manually label a dataset containing 18644 images, named FM-VOC Dataset18644. In addition, we constructed a FocalNext network, which utilized the FocalNextBlock module from the CFnet network. This improves the integration of multi-scale information and reduces model parameters. We also proposed QAHARep-FPN, an FPN network that integrates the structure of quantization awareness and hardware awareness. This design effectively reduces redundant calculations of the model. A brand-new compression decoupled head, named NADH, was also created to enhance the correlation between the decoupling head structure and the calculation logic of the loss function. Instead of using the CIoU loss for bounding box regression, we proposed a Focal-SIoU loss. This promotes the swift convergence of the network and enhances the precision of the regression. The experimental results showed that YOLOFM improved the baseline network’s accuracy, recall, F1, mAP50, and mAP50-95 by 3.1%, 3.9%, 3.0%, 2.2%, and 7.9%, respectively. It achieves an equilibrium that combines performance and speed, resulting in a more dependable and accurate solution for detection jobs.
Integrated visual transformer and flash attention for lip-to-speech generation GAN
Authors: Yang Qiong , Bai Yuxuan , Liu Feng , Zhang Wei
Published: February 2024

Lip-to-Speech (LTS) generation is an emerging technology that is highly visible, widely supported, and rapidly evolving. LTS has a wide range of promising applications, including assisting speech impairment and improving speech interaction in virtual assistants and robots. However, the technique faces the following challenges: (1) Chinese lip-to-speech generation is poorly recognized. (2) The wide range of variation in lip-speaking is poorly aligned with lip movements. Addressing these challenges will contribute to advancing Lip-to-Speech (LTS) technology, enhancing the communication abilities, and improving the quality of life for individuals with disabilities. Currently, lip-to-speech generation techniques usually employ the GAN architecture but suffer from the following problems: The primary issue lies in the insufficient joint modeling of local and global lip movements, resulting in visual ambiguities and inadequate image representations. To solve these problems, we design Flash Attention GAN (FA-GAN) with the following features: (1) Vision and audio are separately coded, and lip motion is jointly modelled to improve speech recognition accuracy. (2) A multilevel Swin-transformer is introduced to improve image representation. (3) A hierarchical iterative generator is introduced to improve speech generation. (4) A flash attention mechanism is introduced to improve computational efficiency. Many experiments have indicated that FA-GAN can recognize Chinese and English datasets better than existing architectures, especially the recognition error rate of Chinese, which is only 43.19%, the lowest among the same type.
Effectiveness and safety of XEN 63 in patients with primary-open-angle glaucoma
Authors: Martínez-de-la-Casa José María , Marcos-Parra María Teresa , Millá-Griñó Elena , Laborda Teresa , Giménez-Gomez Rafael , Larrosa José Manuel , Urcola Aritz , Teus Miguel Ángel , Perucho-Martínez Susana
Published: February 2024

This paper evaluates the effectiveness and safety of XEN63 stent, either standalone or in combination with phacoemulsification, in patients with primary open-angle glaucoma (POAG). Eighty eyes from 80 patients with medically uncontrolled POAG were assigned to undergo XEN63 implant. The primary outcome was the surgical success, defined as an intraocular pressure (IOP) lowering from preoperative values ≥ 20% and an IOP absolute value between 6 and 18 mmHg, with or without antiglaucoma medications. Forty-three (53.7%) eyes underwent XEN63-standalone and 37(46.2%) eyes a XEN63 + Phacoemulsification procedure. Success rate was 68.8% (55/80) eyes in the overall study sample, 69.8% (30/43) eyes in the XEN63-standalone group; and 67.6% (25/37) eyes in the XEN63 + Phaco group (p = 0.6133). Preoperative IOP was significantly lowered from 22.1 ± 4.9 mmHg and 19.8 ± 3.7 mmHg to 14.7 ± 5.3 mmHg and 13.8 ± 3.4 mmHg in the XEN63-standalone and XEN63 + Phaco groups, respectively (p < 0.0001 each, respectively); without significant differences between them at any of the time-points measured. Preoperative number of ocular-hypotensive drugs was significantly reduced from 2.3 ± 0.8 to 0.3 ± 0.7 drugs, from 2.5 ± 0.7 to 0.3 ± 0.7 drugs; and from 2.0 ± 0.8 to 0.3 ± 0.7 drugs, in the overall, XEN63-standalone, and XEN63 + Phaco groups, respectively. Regarding safety, 3(42.5%) eyes had transient hypotony at some point during the study, although only in one (1.2%) eye was clinically significant. Four (5.0%) eyes underwent a needling, 4 (5.0%) eyes underwent surgical-bleb-revision, 1 (1.2%) eye required a device replacement and 1 (1.2%) eye a device removal due to maculopathy. XEN63, either alone or in combination with phacoemulsification, significantly lowered IOP and reduced the number of ocular hypotensive medications. The rate of ocular hypotony was relatively high, although it was clinically relevant only in one eye.
Characterization of carbon fluxes, stock and nutrients in the sacred forest groves and invasive vegetation stands within the human dominated landscapes of a tropical semi-arid region
Authors: Akil Prasath R. V. , Mohanraj R. , Balaramdas K. R. , Jhony Kumar Tagore A. , Raja P. , Rajasekaran A.
Published: February 2024

In the semi-arid plains of Southern India, outside the protected area network, sacred groves forests and the barren lands invaded by Prosopis juliflora are reckoned to be the major greenery, but have homogenous and heterogeneous vegetation respectively. This study attempted to compare 50 Sacred Groves Stands (SGS) and 50 monodominant Prosopis juliflora Stands (PJS) for the functional diversity, evenness, floral diversity, carbon stock and dynamics, carbon-fixing traits, dendrochronology of trees, soil nutrient profiles, and soil erosion. Quadrat sample survey was adopted to record stand density, species richness, abundance, basal area and leaf area index; composite soil samples were collected at depths 0–30 cm for nutrient profiling (N, P, K, and OC). Photosynthesis rate (µmole co2 m2/sec), air temperature (°c), leaf intracellular co2 concentration (ppm), ambient photosynthetic active radiation (µmole m2/sec), transpiration rate (m. mole H2O m2/sec) were determined for the 51 tree species existed in SGS and PJS using Plant Photosynthesis system. Structural Equation Model (SEM) was applied to derive the carbon sequestering potential and photosynthetic efficiency of eight dominant tree species using vital input parameters, including eco-physiological, morphological, and biochemical characterization. The Revised Universal Soil Loss Equation (RUSLE) model, in conjunction with ArcGIS Pro and ArcGIS 10.3, was adopted to map soil loss. Carbon source/sink determinations inferred through Net Ecosystem Productivity (NEP) assessments showed that mature SGS potentially acted as a carbon sink (0.06 ± 0.01 g C/m2/day), while matured PJS acted as a carbon source (−0.34 ± 0.12 g C/m2/day). Soil erosion rates were significantly greater (29.5 ± 13.4 ton/ha/year) in SGS compared to PJS (7.52 ± 2.55 ton/ha/year). Of the eight selected tree species, SEM revealed that trees belonging to the family Fabaceae [Wrightia tinctoria (estimated coefficient: 1.28, p = 0.02) > Prosopis juliflora (1.22, p = 0.01) > Acacia nilotica (1.21, p = 0.03) > Albizia lebbeck (0.97, p = 0.01)] showed comparatively high carbon sequestering ability.
Detecting tail biters by monitoring pig screams in weaning pigs
Authors: Heseker Philipp , Bergmann Tjard , Scheumann Marina , Traulsen Imke , Kemper Nicole , Probst Jeanette
Published: February 2024

Early identification of tail biting and intervention are necessary to reduce tail lesions and their impact on animal health and welfare. Removal of biters has become an effective intervention strategy, but finding them can be difficult and time-consuming. The aim of this study was to investigate whether tail biting and, in particular, individual biters could be identified by detecting pig screams in audio recordings. The study included 288 undocked weaner pigs housed in six pens in two batches. Once a tail biter (n = 7) was identified by visual inspection in the stable and removed by the farm staff, the previous days of video and audio recordings were analyzed for pig screams (sudden increase in loudness with frequencies above 1 kHz) and tail biting events until no biting before the removal was observed anymore. In total, 2893 screams were detected in four pens where tail biting occurred. Of these screams, 52.9% were caused by tail biting in the observed pen, 25.6% originated from other pens, 8.8% were not assignable, and 12.7% occurred due to other reasons. In case of a tail biting event, screams were assigned individually to biter and victim pigs. Based on the audio analysis, biters were identified between one and nine days prior to their removal from the pen after visual inspection. Screams were detected earlier than the increase in hanging tails and could therefore be favored as an early warning indicator. Analyzing animal vocalization has potential for monitoring and early detection of tail biting events. In combination with individual marks and automatic analysis algorithms, biters could be identified and tail biting efficiently reduced. In this way, biters can be removed earlier to increase animal health and welfare.
Prevalence, types, and risk factors of functional gastrointestinal diseases in Hainan Province, China
Authors: Chen Chen , Zhang Da-ya , Chen Shiju , Huang Shimei , Zeng Fan , Li Da , Lv Yan-ting , Xiang Xiaohong , Chen Run-xiang , Zhang Xiaodong , Mao Fengjiao , Huang Xianfeng , Wang Jun , Bai Feihu
Published: February 2024

To investigate the prevalence, types, and risk factors of functional gastrointestinal diseases (FGIDs) in Hainan Province, China, in order to provide insights for future prevention and treatment strategies. A questionnaire survey was conducted from July 2022 to May 2023, using stratified sampling to sample local residents in five cities (20 townships) in Hainan Province. Out of 2057 local residents surveyed, 659 individuals (32.0%) reported experiencing at least one FGID. The most prevalent FGIDs were functional dyspepsia (FD) (10.7%), functional constipation (FC) (9.3%), irritable bowel syndrome (IBS) (6.8%), functional bloating (2.2%), belching disorder (2.2%), functional diarrhea (FDr) (1.5%), functional heartburn (1.5%), and fecal incontinence (0.98%). The study revealed significant associations between FGIDs and factors such as age, sleep quality, anxiety, smoking, alcohol consumption, and the consumption of pickled food (P < 0.05). Older age, poor sleep quality, anxiety, and the consumption of pickled food were identified as independent risk factors for the prevalence of FGIDs (P < 0.05). In Hainan Province, the overall prevalence of FGIDs was found to be 32.0%, with higher prevalences of FC and FD. Older age, poor sleep quality, anxiety, and the consumption of pickled food were identified as risk factors for FGIDs.