bluuebunny/crossref_metadata_2025_split huggingface dataset:
Risk of drug use during pregnancy: master protocol for living systematic reviews and meta-analyses performed in the metaPreg project
Authors: Picot Cyndie , Ajiji Priscilla , Jurek Lucie , Nourredine Mikail , Massardier Jérôme , Peron Audrey , Cucherat Michel , Cottin Judith 
Published: December 2022

Abstract
Background Knowledge about the risks of drugs during pregnancy are continuously evolving due to the frequent publication of a large number of epidemiological studies. Systematic reviews and meta-analyses therefore need to be regularly updated to reflect these advances. To improve dissemination of this updated information we developed an initiative of real time full-scale living meta-analyses relying on an open online dissemination platform ( www.metapreg.org ).
Method All living meta-analysis performed in this project will be conducted in accordance with this master protocol after adaptation of the search strategy. A systematic literature search of Pubmed and Embase will be performed. All analytical studies (e.g., cohort, case control, randomized studies) reporting original empirical findings on the association between in-utero exposure to drugs and adverse pregnancy outcomes will be included. Study screening and data extraction will be performed in a semi-automation way supervised by a biocurator. Risk of bias will be assessed using the ROBINS-I tools. All clinically relevant pregnancy adverse outcomes (malformations, stillbirths, neuro-developmental disorders, pre-eclampsia, etc.) available in the included studies will be pooled through random-effects meta-analysis. Heterogeneity will be evaluated by I2 statistics.
Discussion Our living systematic reviews and subsequent updates will inform the medical, regulatory and health policy communities as the news results evolve to guide decisions on the proper use of drugs during the pregnancy.
Systematic review registration Open science framework (OSF) Registries ( https://osf.io/u4gva )
Enhancing ferromagnetic coupling in CrXY (X = O, S, Se; Y = Cl, Br, I) monolayers by turning the covalent character of Cr-X bonds
Authors: Zhu Haoran , Shao Bin , Zuo Xu 
Published: December 2022

Abstract
On the basis of first-principles calculations, we investigate the electronic and magnetic properties of 1T phase chromium sulfide halide CrXY (X = O, S, Se; Y = Cl, Br, I) monolayers in CrCl2 structure with the P3m1 space group. Except for the CrOI monolayer, all CrXY monolayers are stable and ferromagnetic semiconductors. Our results show that the ferromagnetic coupling is dominated by the kinetic exchange between the empty eg-orbital of Cr atoms and the p-orbital of anions under the three-fold rotational symmetry. In this context, the coupling strength allows for being greatly enhanced by turning the nature of Cr-X bonds, i.e., increasing the covalent contribution of the bonds by minimizing the energy difference of the coupled orbitals. As we illustrate for the example of CrOY, the Curie temperature (TC) is nearly tripled by substituting O by S/Se ion, eventually reaching the highest TC in CrSeI monolayer (334 K). The high stabilities and Curie temperature manifest these monolayer ferromagnetic materials feasible for synthesis and applicable to 2D spintronic devices.
Invitro detection of biofilm produced by microorganism isolated from patients of periodontitis.
Authors: Mistry Yogita , Modi Palak , Vinchurkar Urjita , Piludariya Anvi , Parmar Gunvant , mullan Summaiya 
Published: December 2022

AbstractPeriodontal infections, including gingivitis and periodontitis, form a major group among the most encountered chronic diseases with infective etiologies. Microorganisms present in gingival sulcus around teeth form microbial biofilm, which is most important cause of periodontal diseases. Biofilm, a three-dimensional (3D) microbial structure with cells enclosed within a self-produced extracellular matrix that may be attached to a substratum comprises the structure of a biofilm. This study aims to detect biofilm in microorganisms isolated from periodontal pockets and establishment of relation between biofilm with tobacco chewing and comorbidies. Total 100 Patients’ samples were collected using Bent swab from periodontal lesions. Samples were processed aerobically and identification of the isolates are done along with simultaneous demonstration of in vitro biofilm formation. Biofilm production was detected by using pre sterilized 96 well polystyrene micro titre plates. 71 samples were shown growth of microorganisms like Streptococcus viridians (36), Klebsiella pneumoniae (21), E. coli (6), Klebsiella oxytoca (4), Acinetobacter baumannii (1), Pseudomonas aeruginosa (1), Staphylococcus aureus (1), Coagulase negative staphylococcus (1). 19 isolates of Streptococcus viridians have formed biofilm out of 36 isolates. 16 isolates of Klebsiella pneumoniae have formed biofilm out of 21 isolates. 3 isolates of Klebsiella oxytoca have formed biofilm out of total 4 isolates. 2 isolates of E. coli have formed biofilm out of 6 isolates. One isolate, each of Acinetobacter baumannii, CONS and Pseudomonas aeroginosa have formed biofilm. Out of 43 positive oral biofilms, 21% were tobacco chewers and out of negative oral biofilm, 15% were tobacco chewers. Among positive oral biofilms, 19% had comorbidities and among negative oral biofilm, 15% had comorbidity. The oral colonization by biofilm producing strains can also increase the risk of their dissemination to various human tissues and organs. Apart from that, biofilms cause resistance to many antimicrobial agents.
Abnormal spectral and scale-free properties of resting-state EEG in girls with Rett Syndrome
Authors: Sysoeva Olga , Maximenko Vladimir , Kuc Alexander , Voinova Victoria , Martynova Olga , Hramov Alexander 
Published: December 2022

Abstract
Spontaneous EEG contains important information about neuronal network properties that is valuable for understanding different neurological and psychiatric conditions. Rett syndrome (RTT) is a rare neurodevelopmental disorder, caused by mutation in the MECP2 gene. RTT is characterized by severe motor impairments that prevent adequate assessment of cognitive functions. Here we probe EEG parameters obtained in no visual input condition from a 28-channels system in 23 patients with Rett Syndrome and 38 their typically developing peers aged 3–17 years old. Confirming previous results, RTT showed a fronto-central theta power (4-6.25 Hz) increase that correlates with a progression of the disease. Alpha power (6.75–11.75 Hz) across multiple regions was, on the contrary, decreased in RTT, also corresponding to general background slowing reported previously. Among novel results we found an increase in gamma power (31-39.5 Hz) across frontal, central and temporal electrodes, suggesting elevated excitation/inhibition ratio. Long-range temporal correlation measured by detrended fluctuation analysis within 6–13 Hz was also increased, pointing to a more predictable oscillation pattern in RTT. Overall measured EEG parameters allow to differentiate groups with high accuracy, ROC AUC value of 0.92 ± 0.08, indicating clinical relevance.
Fuzzy weighted multi-kernel subspace co-clustering based on structural-α entropy
Authors: Zhang Kexin 
Published: December 2022

Abstract
Co-clustering, which combines the rows and columns of data matrix, has achieved widespread success in many application fields. For further improving performance of clustering algorithm, we introduce the structural-α entropy of weighting vector of the co-clustering model, constructing a structural-α entropy weighting subspace clustering model, theoretically derived structural-α entropy weighting subspace two-way subspace clustering algorithm STWCC. This algorithm not only can discover clusters in different subspaces but also discover the relationship between samples and features of different subspaces in the data space, better revealing the relations between samples and features of data by maximizing the weighting entropy. On this basis, the fuzzy weighted kernel space joint clustering model of structural-α entropy is obtained by introducing fuzzy entropy of membership. By introducing the kernel method, the weighted kernel space joint clustering model of structural-α entropy is obtained. By introducing the autoencoder, the weighted subspace co-clustering model of structural-α entropy of auto-encoder is obtained, and the corresponding algorithm is derived. The proposed algorithm is experimented with synthetic datasets, and real datasets including UCI standard datasets, and is compared with some typical clustering algorithms. The results show that the proposed algorithm has a certain improvement in performance.
Therapeutic effect of clonazepam in BMS patients according to underlying medical condition; Do xerostomia, psychiatric problem and taste change affect treatment response?
Authors: Shin Hyun-Il , Bang Joo-In , Kim Geun-Jeon , Kim Mi-Ra , Sun Dong-Il , Kim Sang-Yeon 
Published: December 2022

Abstract
Background
Burning mouth syndrome (BMS) is frequently accompanied by dysgeusia and xerostomia. Clonazepam has been widely prescribed and is effective, but it is unclear whether clonazepam also affects the symptoms that accompany BMS, or whether such symptoms affect treatment outcomes. Here, we investigated the therapeutic outcomes in BMS patients with various comorbidities.
Materials and Methods
We retrospectively reviewed 41 patients diagnosed with BMS between June 2010 and June 2021 at a single institution. Patients were instructed to take clonazepam for 6 weeks. Before the first dose, burning pain intensity was measured using a visual analog scale (VAS); the unstimulated salivary flow rate (USFR), psychiatric characteristics, site(s) of pain, and any taste disturbance were evaluated. Burning pain intensity was measured again after 6 weeks.
Results
Thirty-one of the 41 patents (75.7%) exhibited a depressed mood, whereas more than 67.8% of the patients exhibited anxiety. Subjective xerostomia was reported by 10 patients (24.3%). The mean salivary flow rate was 0.69 mL/min and hyposalivation (an unstimulated salivary flow rate ≤ 0.5 mL/min) was apparent in 10 patients (24.3%). Dysgeusia was present in 20 patients (48.7%); a bitter taste (n = 15, 75%) was reported by the largest proportion of patients. Patients who reported a bitter taste responded best in terms of burning pain reduction after 6 weeks (n = 4, 26.6%). Overall, 32 patients (78%) reported decreased oral burning pain after clonazepam (mean VAS score changed from 6.56 to 5.34) use. Patients who reported taste disturbances exhibited a significantly greater decrease in burning pain, compared with other patients (mean VAS score changed from 6.41 to 4.58) (p = 0.02)
Conclusion
Clonazepam significantly improved burning pain in BMS patients who had taste disturbances.
OsSAPK3 improves drought resistance and grain yield in rice
Authors: Lou Dengji , Lu Suping , Chen Zhen , Lin Yi , Yu Diqiu , Yang Xiaoyan 
Published: December 2022

Abstract
Background: The sucrose non-fermenting 1-related kinases 2 (SnRK2s) are crucial for abiotic stress responses in rice. Therefore, it is necessary to clarify the special function of SnRK2s. As one of SnRK2II members in rice, the function of Osmotic stress/ABA–activated protein kinase 3 (OsSAPK3) is unclear.
Results: OsSAPK3 was induced by drought, NaCl, PEG and ABA. OsSAPK3 knockout seedings (sapk3-1and sapk3-2) decreased the hypersensitivity to exogenous ABA. In addition, sapk3-1and sapk3-2 showed decreased stress tolerance, including lower survival rates, higher water loss rate under drought stress, increased stomatal conductance and remarkably decreased expression of SLAC1 and SLAC7.Physiological and metabolic analyses showed that OsSAPK3 might play an important role in abiotic stress signaling pathway by influencing accumulation of compatible osmolytes, reactive oxygen species (ROS) detoxification and expression of dehydration-responsive genes. Agronomic traits analyses demonstrated that OsSAPK3 could improve rice yield by participating in the regulation of tiller numbers and grain size. The experimental of tiller bud development suggested that OsSAPK3 might regulate rice tiller numbers by affecting the growth of axillary buds via promoting expression of nitrate transporter genes.
Conclusion: OsSAPK3 may play an important role in both ABA-dependent and ABA-independent abiotic stresss signaling pathways. In addition, OsSAPK3could improve rice yield by participating in the regulation of tiller numbers and grain size. These findings provide new insight for functional analysis of SnRK2s and engineering of drought resistant rice.
Mitogenome of the Brazilian critically endangered pitviper Bothrops insularis – structural genomic characterization and evolutionary aspects
Authors: Salles-Oliveira I , Patané JSL , Nishiyama MY , Silva MJJ 
Published: December 2022

Abstract
Background: Analyses of mitogenome structure and its evolution have provided new insights of species evolution and helped to improve in situ and ex situ conservation strategies. Although the characterization of snakes mitogenomes have been improved, the access of neotropical species molecules is still scarce, such as the case of Bothrops insularis. B. insularis is a Brazilian critically endangered snake which genomic characterization could improve information related to its evolutionary history and conservation strategies delimitation. Here we characterize for the first time the mitogenome of B. insularis, compare it with other mitogenomes available for the genus Bothrops, and used those genomes to recover the putative phylogenetic context in which the species evolved. \
Results: B. insularis mitogenome is a circular molecule with 17,523 bp length, encompassing 13 protein-coding genes, 22 tRNA, two rRNA, two control regions, one region of the light strand origin replication, a duplicate tRNA-Phe, and a non-coding region. Within the genus Bothrops mitogenomes diverge due to the presence of tRNA duplications and non-coding regions. Despite the divergences found in the mitogenome nucleotide composition and structure, evidence of positive selection was not observed in B. insularis. Comparisons among 129 snake species allowed us to identify 18 mitotypes, which originated from rearrangement processes within three tRNA clusters: the WAN-Ol-CY; the CR regions and adjacent tRNA; and the S2D cluster. These processes might have occurred in the family (Mitogenome 3B and variants), subfamily (Mitogenome 3D and variants), and species-specific levels.
Conclusion: Our results provide the first description of B. insularis mitogenome, which reinforce its evolutionary significant unit status, in agreement with previous ecological, genetic, and evolutionary data. Moreover, we report a higher diversity of gene order and structure within snake mitogenomes which brings another question to be investigated: mitotypes could be correlated to habits or habitats?
Robust Weld Seam Tracking Method Based on Detection and Tracking of Laser Stripe
Authors: Wang Nianfeng , Yang Jialin , Zhong Kaifan , Zhang Xianmin , Gong Tao 
Published: December 2022

Abstract
In the automatic welding system based on structured light vision, the precision of detection of
the welding feature point in the weld image plays a critical role. Due to various interferences
captured in a complex welding environment, it is essential to extract the feature point accurately.
A practical and robust welding seam tracking algorithm by considering the welding
feature point detection problem as the detection and tracking of laser stripes is proposed in this
paper. In the initial image, the laser stripe candidates are detected by searching the peak of the
gray distribution and the actual laser stripe is extracted by the similarity between real image
and simulated image. The laser stripe is tracked based on the improved mean shift tracking
method with the patch-based representation in the sequent images. The real-time performance
and accuracy of the proposed algorithm are demonstrated by comparison with other methods
through experiments.
Shotgun Proteomics-based distinctive fingerprint of sperm-surface revealed over- representation of proteins driving spermatogenesis, motility, and fertility
Authors: Batra Vipul , Dagar Komal , Diwakar Maharana Pratap , Kumaresan Arumugam , Kumar Rakesh , Datta Tirtha Kumar 
Published: December 2022

AbstractBackground Numerous distinct secretagogues such as (glyco) proteins including the GPI-anchored proteins are added to the sperm surface during their transit through the male reproductive tract (MRT). This remodelling of the sperm surface is critical for sperm maturation, survival and function in the female reproductive tract (FRT). This study aimed to characterize the proteins present on the buffalo sperm surface. Results A buffalo sperm surface-specific proteomic fingerprint was generated using shotgun proteomics (LC-MS/MS). The protein informatics platform, Proteome Discoverer (v2.2) identified 1342, 678, and 982 distinct proteins and isoforms (P < 0.05, FDR < 0.01) in the salt-extracted, PI-PLC treated and capacitated samples, respectively. Overall, 1695 unique proteins (minimum 2 peptides) with ≥ 1 high-quality PSM/s and their isoforms (proteoforms) were identified. Descriptive statistical analysis indicated that these buffalo-specific proteoforms exhibit remarkable heterogeneity in their molecular weight, pI, distribution of expression from the genome and their functional roles in the MRT and the FRT. Subsequent analysis and a thorough literature search revealed that the fertility-related, reproduction-specific proteoforms constituted more than 50% (873) of the identified sperm-surface proteome (1695). Discussion These identified proteoforms are unique to buffalo since a buffalo-specific database, NCBI reference proteome (translated from the latest chromosome level genome assembly, (UOA_WB_1) was used as the search space. These proteoforms were mapped to 252 buffalo-specific proteins implicated in the regulation of various aspects of male reproductive physiology across multiple species. Besides, more than 200 orphan, buffalo-specific proteins and their isoforms (undefined locus, uncharacterized, P < 0.05, FDR < 0.01) were also identified using our computational strategy. This allowed us to consider these novel proteins for considered for mapping their ontology terms. This led to the elucidation of the biological functions of these hitherto unreported, buffalo-specific proteins by extrapolation of function from their sequence orthologs in more several ruminant and non-ruminant (e.g. Primates and Rodents) mammalian. These uncharacterized proteins constitute an extensive, yet unexplored, reproduction-specific sperm-surface proteome repertoire. Conclusions The proteomic signature driving the buffalo sperm production, maturation, survival and function discovered in this study is unparalleled vis-à-vis the depth identification of fertility-related and reproduction-specific cell-surface proteins. These results would facilitate advances in understanding the functional roles of proteins implicated in mammalian sperm function.
Update to the study protocol “Face Your Fears: Virtual reality-based cognitive behavioral therapy (VR-CBT) versus standard CBT for paranoid ideations in patients with schizophrenia spectrum disorders: A randomized clinical trial”
Authors: Jeppesen Ulrik Nykjaer , Due Anne Sofie , Mariegaard Lise , Pinkham Amy , Vos Maarten , Veling Wim , Nordentoft Merete , Glenthøj Louise Birkedal 
Published: December 2022

Abstract
We unfortunately need to make an update to our published study protocol that describes a significant change in the design of the study. The Committee on Health Research Ethics of the Capital Region Denmark recently rejected the approval of changing the primary outcome in the trial, on the invariable grounds that the trial has already commenced. It is therefore necessary to retain the Green Paranoid Thought Scale (GPTS) part B, ideas of persecution, as our primary outcome and GPTS part A, ideas of social reference, as a secondary outcome, which is described opposite in our published study protocol. The exchange of outcomes has not affected participation in our trial or the informed consent. Intervention in both groups and assessments are unchanged. The two outcomes together constitute the Green Paranoid Thought Scale (GPTS) and the unifying concept we attempt to treat, namely paranoid ideations. As this is a blinded, methodologically rigorous trial, we did not have - and still do not have - access to preliminary data, and therefore, we have no knowledge of the distribution of our two intervention groups nor the potential effect of the intervention. The power calculation remains unchanged irrespective of the selection of primary outcome. We have been fully transparent with the changes in primary and secondary outcomes on Clinicaltrials.gov throughout the trial. Due to the considerations mentioned above, we assumed that there would not be any ethical implications of the change of primary outcome. We sincerely apologize for the irregularity caused because of this assumption. Trial Registration ClinicalTrials.gov Identifier: NCT04902066. Initial release April 9th, 2021. https://www.clinicaltrials.gov/ct2/show/NCT04902066
Effects of once-weekly semaglutide in obese/overweight patients: A systematic review and meta-analysis
Authors: Wang Mengjun , Wang Ning , Zhang Haixiong , Liu Junliang , Chen Xi , Feng Yingqian , Nan Jing , Sun Bo 
Published: December 2022

Abstract
Background:
Pharmacological options for management of overweight or obesity in adults are limited, several large scale trials about semaglutide published recently require updated evidence synthesis.
Objective：
To investigate the safety and efficacy of once-weekly glucagon-like peptide-1 (GLP-1) receptor agonist semaglutide in patients with overweight or obesity.
Methods:
Database including PubMed, Embase, Cochrane Library, and Scopus were searched up until Jan 27, 2022. Randomised controlled trials with ≥12 weeks of treatment evaluating once-weekly semaglutide or placebo in obese/overweight adults. Primary outcome was change from baseline in weight. Secondary endpoints included proportion of patients achieving body weight targets and change from baseline in weight, body mass index (BMI), waist circumferences (WC), glucose, blood lipids and blood pressure levels, gastrointestinal adverse effects. Subgroup analysis was performed according to different dosages of semaglutide. Odds ratio (OR) and weighted mean difference (WMD) with 95% confidence intervals (CI) were used to evaluate the overall outcomes. Intertrial heterogeneity across studies was examined by I2 and Q statistics.
Results:
Finally, 9 studies comprising a total of 5324 patients were included in the meta-analysis. Compared with placebo, semaglutide was more effective in reducing body weight (WMD: 5.52 kg, 95% CI:-7.35kg, -5.78kg, P <0.00001) and percentage of body weight by 10.88% (95% CI:-12.98%, -8.79%). The proportion of patients achieving body weight targets was significantly higher in semaglutide-treated patients compared to placebo. Semaglutide also reduced BMI and WC, and benefited glycaemic, blood pressure and triglyceride regulation. And, semaglutide has a beneficial effect on health-related quality of life. However, the incidence of gastrointestinal side effects was significantly higher in patients treated with semaglutide.
Conclusions:
Once weekly semaglutide could be an optimal therapeutic choice for obesity or overweight patients.