bluuebunny/crossref_metadata_2025_split huggingface dataset:
The Effectiveness of the Introduction of the Water-Alternated-Gas Injection on the example of a Carbonate Field in Kazakhstan
Authors: Askarova Ingkar A. , Uteyev Rakhim N. , Mardanov Altynbek S. , Jaxylykov Talgat S. , Junusbayeva Ainura U. 
Published: July 2023

Background: Water-Alternated-Gas Injection (hereinafter referred to as WAG) is considered to be a suitable analogue of gas injection and waterflooding, which increase the efficiency of displacement. With continuous gas injection, the displacement front is unstable due to the low viscosity of the gas, which leads to the formation of gas tongues due to a significant difference in the mobility of gas and oil. Alternate injection of water and gas is considered a suitable option in eliminating this problem and in stabilizing the displacement front.
Aim: The purpose of this work was to generalize the main factors affecting the efficiency of the process, based on the world experience in applying the WAG technology. The effectiveness of this technology application in a carbonate field was also considered.
Materials and methods: This article analyzes the efficiency of oil displacement using the WAG method in a carbonate field in Kazakhstan. In order to study the proposed oil production technology, the alternate injection of water and gas into the reservoir was simulated on the ECLIPSE 100 simulator. First of all, the process of optimizing the parameters was carried out based on two injection wells. As a result, it was found that for the studied field, the duration of water and gas cycles of 3 months and the sequence of "gas water" are the optimal conditions for observing the greatest effect from WAG. Further, based on the selected parameters, WAG was scaled to the entire field, for the implementation of which several options were developed with 3, 5, 6 and 12 injection wells.
Results: As a result of the research, the optimal oil displacement option was selected, which involves 5 injection wells with high injectivity and a large volume of injected gas.
Conclusion: Due to the hydrophilicity of the reservoir, the effect of alternating WAG turned out to be not as significant as it could be expected, due to the effect of hysteresis of relative phase permeabilities, which can be a topic for future research.
New Potential to Reduce Uncertainty in Regional Climate Projections by Combining Physical and Socio‐Economic Constraints
Authors: Lehner Flavio , Hawkins Ed , Sutton Rowan , Pendergrass Angeline G. , Moore Frances C. 
Published: July 2023

AbstractCombining new constraints on future socio‐economic trajectories and the climate system's response to emissions can substantially reduce the projection uncertainty currently clouding regional climate adaptation decisions—more than either constraint individually.
Blue light emitting piezoelectric few-layered borophene nanosheets for flexible nanogenerators
Authors: Sharma Charu , Gupta Manoj Kumar , Badatya Simadri , Srivastava Avanish Kumar , Sathish N. 
Published: July 2023

AbstractPiezoelectric response from two-dimensional layered materials with semiconducting properties is important for developing nanogenerators, piezotronics, and piezophototronics devices. However, experimental observation of piezoelectricity and semiconductor properties in monoatomic borophene has been a key challenge for the fabrication of nanogenerator devices. Here, we discover the non-centrosymmetric blue light emitting piezoelectric properties of few layered monoatomic borophene nanosheets. We develop the flexible piezoelectric nanogenerator using few layered borophene nanosheets in polydimethylsiloxane polymer, producing an output voltage of 8 V without electrical poling. The material exhibits a high piezoelectric charge coefficient (d33) of 86 pm V−1 and shows band gap opening with a high band gap of 2.32 eV. Surprisingly, the borophene nanosheets exhibit blue light emission under UV light illumination. Under UV light illumination, the device dramatically improves output performance. We find that the material exhibits a high dielectric constant of about 125 at low frequency.
RGB‐guided hyperspectral image super‐resolution with deep progressive learning
Authors: Zhang Tao , Fu Ying , Huang Liwei , Li Siyuan , You Shaodi , Yan Chenggang 
Published: July 2023

AbstractDue to hardware limitations, existing hyperspectral (HS) camera often suffer from low spatial/temporal resolution. Recently, it has been prevalent to super‐resolve a low resolution (LR) HS image into a high resolution (HR) HS image with a HR RGB (or multispectral) image guidance. Previous approaches for this guided super‐resolution task often model the intrinsic characteristic of the desired HR HS image using hand‐crafted priors. Recently, researchers pay more attention to deep learning methods with direct supervised or unsupervised learning, which exploit deep prior only from training dataset or testing data. In this article, an efficient convolutional neural network‐based method is presented to progressively super‐resolve HS image with RGB image guidance. Specifically, a progressive HS image super‐resolution network is proposed, which progressively super‐resolve the LR HS image with pixel shuffled HR RGB image guidance. Then, the super‐resolution network is progressively trained with supervised pre‐training and unsupervised adaption, where supervised pre‐training learns the general prior on training data and unsupervised adaptation generalises the general prior to specific prior for variant testing scenes. The proposed method can effectively exploit prior from training dataset and testing HS and RGB images with spectral‐spatial constraint. It has a good generalisation capability, especially for blind HS image super‐resolution. Comprehensive experimental results show that the proposed deep progressive learning method outperforms the existing state‐of‐the‐art methods for HS image super‐resolution in non‐blind and blind cases.
A novel registration method for long-serial section images of EM with a serial split technique based on unsupervised optical flow network
Authors: Xin Tong , Lv Yanan , Chen Haoran , Li Linlin , Shen Lijun , Shan Guangcun , Chen Xi , Han Hua 
Published: July 2023

Abstract

Motivation
The registration of serial section electron microscope images is a critical step in reconstructing biological tissue volumes, and it aims to eliminate complex nonlinear deformations from sectioning and replicate the correct neurite structure. However, due to the inherent properties of biological structures and the challenges posed by section preparation of biological tissues, achieving an accurate registration of serial sections remains a significant challenge. Conventional nonlinear registration techniques, which are effective in eliminating nonlinear deformation, can also eliminate the natural morphological variation of neurites across sections. Additionally, accumulation of registration errors alters the neurite structure.

Results
This article proposes a novel method for serial section registration that utilizes an unsupervised optical flow network to measure feature similarity rather than pixel similarity to eliminate nonlinear deformation and achieve pairwise registration between sections. The optical flow network is then employed to estimate and compensate for cumulative registration error, thereby allowing for the reconstruction of the structure of biological tissues. Based on the novel serial section registration method, a serial split technique is proposed for long-serial sections. Experimental results demonstrate that the state-of-the-art method proposed here effectively improves the spatial continuity of serial sections, leading to more accurate registration and improved reconstruction of the structure of biological tissues.

Availability and implementation
The source code and data are available at https://github.com/TongXin-CASIA/EFSR.
cellCounts: an R function for quantifying 10x Chromium single-cell RNA sequencing data
Authors: Liao Yang , Raghu Dinesh , Pal Bhupinder , Mielke Lisa A , Shi Wei 
Published: July 2023

Abstract

Summary
The 10x Genomics Chromium single-cell RNA sequencing technology is a powerful gene expression profiling platform, which is capable of profiling expression of thousands of genes in tens of thousands of cells simultaneously. This platform can produce hundreds of million reads in a single experiment, making it a very challenging task to quantify expression of genes in individual cells due to the massive data volume. Here, we present cellCounts, a new tool for efficient and accurate quantification of Chromium data. cellCounts employs the seed-and-vote strategy to align reads to a reference genome, collapses reads to Unique Molecular Identifiers (UMIs) and then assigns UMIs to genes based on the featureCounts program. Using both simulation and real datasets for evaluation, cellCounts was found to compare favourably to cellRanger and STARsolo. cellCounts is implemented in R, making it easily integrated with other R programs for analysing Chromium data.

Availability and implementation
cellCounts was implemented as a function in R package Rsubread that can be downloaded from http://bioconductor.org/packages/release/bioc/html/Rsubread.html. Data and analysis code used in this study can be freely accessed via La Trobe University’s Institutional Repository at https://doi.org/10.26181/21588276.
Mid-term clinical and echocardiographic results of the INSPIRIS RESILIA aortic valve: a retrospective comparison to the Magna Ease
Authors: Bernard Jérémy , Georges Gabriel , Hecht Sébastien , Pibarot Philippe , Clavel Marie-Annick , Babaki Shervin , Kalavrouziotis Dimitri , Mohammadi Siamak 
Published: July 2023

Abstract

OBJECTIVES
The INSPIRIS aortic valve combines the RESILIA proprietary tissue preservation process and an expandable stent frame to benefit future transcatheter valve-in-valve procedures. As the INSPIRIS valve became commercially available in 2017, mid-term outcome reports are scarce. We aimed to evaluate mid-term safety and echocardiographic performance of the INSPIRIS valve in comparison to its predecessor, the Carpentier Edwards Perimount Magna Ease (ME).

METHODS
This study was a retrospective single-centre study. Clinical results included early postoperative outcomes, mid-term mortality and readmission for cardiovascular cause or stroke. Echocardiographic follow-up (FU) was performed at discharge and 1–3, 6, 12 and 24 months. Clinical end point analyses were accomplished with a propensity score matching analysis and FU echocardiographic data comparisons using pairwise analyses and linear mixed-effect models.

RESULTS
We included 953 patients who received an INSPIRIS (n = 488) or ME (n = 463) bioprosthesis between January 2018 and July 2021. In the matched population (n = 217 per group), no significant difference in short-term outcomes was observed, survival was similar at 30 months (INSPIRIS: 94% vs ME: 91%, P = 0.89), but freedom from readmission was higher in the INSPIRIS group (94% vs 86%, P = 0.014). INSPIRIS valves had a lower gradient at discharge (∼10 vs 14 mmHg, P &lt; 0.001), 1–3 months (∼10 vs 12 mmHg, P &lt; 0.001) and 24 months (∼11 vs 17 mmHg, P &lt; 0.001) in paired analyses and significantly lower evolution of mean transvalvular gradients compared to ME.

CONCLUSIONS
This study represents the largest comparative evaluation of the INSPIRIS to the ME valves, which demonstrated safe clinical outcomes and favourable haemodynamic performance at 2 years. Long-term FU is underway.
Development of a versatile algorithm for 2D DC resistivity modelling in the space domain
Authors: Suryavanshi Deepak , Dehiya Rahul 
Published: July 2023

Abstract
2D direct-current resistivity modelling is generally done in the wavenumber domain to efficiently accommodate the 3D character of the source. For faster computation, the wavenumber domain solutions are calculated at around half a dozen wavenumbers. However, the collection of wavenumbers and associated weights that are selected has a significant impact on the accuracy of the solution that is thus obtained in the space domain. It has been shown in numerous forward modelling studies that selecting effective wavenumbers is difficult, particularly for complex models, including topography, anisotropy, and high resistivity contrasts. In this study, we develop an optimized strategy to omit the dependence of the 2D modelling problem on the wavenumbers. Instead of using the wavenumbers domain approach, the problem is solved in the space domain using a new boundary condition derived in this study. It requires only a few grids in the direction perpendicular to the profile. Several numerical experiments are conducted to conclusively demonstrate that the developed algorithm is robust and versatile concerning subsurface and survey parameters.
Determining clinical predictors to identify non‐specific abdominal pain and the added value of laboratory examinations: A prospective derivation study in a paediatric emergency department
Authors: Bouënel Manon , Lefebvre Victoire , Trouillet Camille , Diesnis Remy , Pouessel Guillaume , Karaca‐Altintas Yasemin 
Published: July 2023

AbstractAimTo develop a model to discriminate non‐specific abdominal pain (NSAP) from organic pain in the paediatric emergency department (PED) and evaluate the added value of laboratory markers.MethodsProspective cohort study in an urban French PED including all patients aged ≥4 years with abdominal pain between November 2020 and May 2021. The outcome was the discrimination between NSAP (patients coded to have only “pain” or “constipation”) and organic pain (all other diagnoses) using stepwise backward multivariate logistic regression method with bootstrap resampling.ResultsThe study enrolled 246 patients. Overall, 163 patients (66.2%) had NSAP. Four variables associated with organic pain: pain in the epigastric region (OR 0.48 [0.23–0.99]), worsening pain (0.57 [0.32–0.99]), pain migration (0.42 [0.17–0.99]) and vomiting (0.47 [0.26–0.84]) were integrated in a clinical model. To discriminate NSAP with a probability of 65%, model sensitivity was 71.8% (64.9–78.7), specificity was 53.0% (42.3–63.7), and the Net Benefit (NB) was 15.4%. White Blood Count and C‐reactive protein results improved discriminative capacity of the model (AUC 0.708 [0.643–0.773] vs. 0.654 [0.585–0.723], p = 0.01) with a supplementary NB of 12%. Patient follow‐up showed 95% diagnostic accuracy.ConclusionThis study reveals a four‐clinical predictor model with a NB of 15% in predicting NSAP. Validation studies are necessary.
Effectiveness, safety and quality‐of‐life effects of guselkumab and ustekinumab in patients with psoriasis: Week 104 results from the non‐interventional, prospective, German multicentre PERSIST study
Authors: Gerdes S. , Hoffmann M. , Asadullah K. , Korge B. , Mortazawi D. , Krüger N. , Personke Y. , Tabori S. , Gomez M. , Wegner S. , Kreimendahl F. , Taut F. , Sticherling M. 
Published: July 2023

AbstractBackgroundPERSIST was a prospective, non‐interventional, real‐world study of guselkumab and ustekinumab in adult patients with moderate‐to‐severe plaque psoriasis in Germany.ObjectivesTo examine effectiveness, safety and quality‐of‐life (QoL) outcomes to Week (W) 104 of treatment with guselkumab and ustekinumab in patients with moderate‐to‐severe plaque psoriasis.MethodsPatients (≥18 years of age) received guselkumab or ustekinumab as per routine clinical practice. Outcomes to W104 were examined separately in guselkumab and ustekinumab recipients. An ad hoc exploratory analysis of outcomes with guselkumab versus ustekinumab was also performed following propensity score matching.ResultsOverall, 302 and 313 patients received guselkumab and ustekinumab, respectively. Patients in both cohorts experienced improvements in disease activity and QoL that were maintained to W104, with 64.7% and 63.6% of guselkumab‐ and 54.6% and 64.4% of ustekinumab‐treated patients achieving a Psoriasis Area and Severity Index (PASI) 90 response and a Dermatology Life Quality Index (DLQI) 0/1 score, respectively. Propensity score matching yielded well‐balanced baseline characteristics except for prior biologic use, which was higher in guselkumab versus ustekinumab recipients (51.7% vs. 32.0%). Achievement of PASI ≤1 at W104 was more common in guselkumab versus ustekinumab recipients (58.7% vs. 49.7%). The W104 PASI90 response rate was 65.6% with guselkumab and 56.0% with ustekinumab; corresponding rates for PASI100 were 44.3% and 28.5%. In guselkumab recipients, response rates were higher in biologic‐naïve versus biologic‐experienced patients (PASI90, 77.1% vs. 53.4%; PASI100, 55.0% vs. 33.0%). A high level of response for QoL outcomes was observed for both treatments.ConclusionsUstekinumab and guselkumab led to improvements in physician‐assessed and patient‐reported outcomes that were sustained for up to 2 years, with no new safety signals identified. Following propensity score matching, greater improvements in PASI outcomes were observed with guselkumab versus ustekinumab. Improvements with guselkumab were highest in biologic‐naïve patients, highlighting the value of early treatment.
A Subset of Thoracic SMARCA4-Deficient Undifferentiated Tumors Express GATA3
Authors: Coconubo Daniel Martinez , Wangsiricharoen Sintawat , Pettus Jason R. , Linos Konstantinos , Pinto Andre , Wang Wei-Lien , Kerr Darcy A. , Cloutier Jeffrey M. 
Published: July 2023

Thoracic SMARCA4-deficient undifferentiated tumor (SMARCA4-UT) is a rare and highly aggressive malignant neoplasm characterized by high-grade undifferentiated morphologic features and recurrent inactivating mutations of SMARCA4. These tumors consistently exhibit loss of SMARCA4 (BRG1) while displaying variable expression of other nonspecific markers. Recently, we encountered a SMARCA4-UT demonstrating immunoreactivity for GATA3, and we sought to characterize this phenomenon in a larger series. A total of nine SMARCA4-UTs were examined from 3 large academic institutions. The clinicopathologic and molecular characteristics were studied and GATA3 immunohistochemistry was performed. The cohort included 5 male and 4 female patients, with a median age of 54 years and a median smoking history of 37 pack-years. At initial diagnosis, mediastinal lymph node involvement was observed in 5 patients (56%) while distant metastases were present in 7 patients (78%). The median survival was 6 months. Histologically, the tumors were characterized by sheets of undifferentiated epithelioid and/or rhabdoid cells, accompanied by frequent mitotic figures and necrosis. Immunohistochemically, all tumors displayed a complete loss of BRG1 expression. Notably, 4 of 9 tumors (44%) were positive for GATA3 expression, including one tumor that exhibited strong and diffuse immunoreactivity. GATA3 expression in SMARCA4-UT may pose diagnostic challenges, requiring differentiation from other GATA3-positive tumors. This distinction is crucial for accurate prognostication and treatment decisions.
Adolescence Onset Primary Coenzyme Q10 Deficiency With Rare CoQ8A Gene Mutation: A Case Report and Review of Literature
Authors: Hojabri Mahsa , Gilani Abolfazl , Irilouzadian Rana , Nejad biglari Habibe , Sarmadian Roham 
Published: July 2023

Background: Primary deficiency of coenzyme Q10 deficiency-4 (CoQ10D4) is a heterogeneous disorder affecting different age groups. The main clinical manifestation consists of cerebellar ataxia, exercise intolerance, and dystonia. Case report: We provide a case of adolescence-onset ataxia, head tremor, and proximal muscle weakness accompanied by psychiatric features and abnormal serum urea (49.4 mg/dL), lactate (7.5 mmol/L), and CoQ10 level (0.4 µg/mL). Brain-MRI demonstrated cerebellar atrophy, thinning of the corpus callosum, and loss of white matter. Whole exome sequencing showed a homozygous missense mutation (c.911C>T; p.A304V) in CoQ8A gene which is a rare mutation and responsible variant of CoQ10D4. After supplementary treatment with CoQ10 50 mg/twice a day for 2 months the clinical symptoms improved. Conclusion: These observations highlight the significance of the early diagnosis of potentially treatable CoQ8A mutation as well as patient education and follow-up. Our findings widen the spectrum of CoQ8A phenotypic features so that clinicians be familiar with the disease not only in severe childhood-onset ataxia but also in adolescence with accompanying psychiatric problems.
Phylogenetic and comparative analyses of Hydnora abyssinica plastomes provide evidence for hidden diversity within Hydnoraceae
Authors: Mkala Elijah Mbandi , Jost Matthias , Dong Xiang , Mwachala Geoffrey , Musili Paul Mutuku , Wanke Stefan , Hu Guang-Wan , Wang Qing-Feng 
Published: July 2023

Abstract
Background
To date, plastid genomes have been published for all but two holoparasitic angiosperm families. However, only a single or a few plastomes represent most of these families. Of the approximately 40 genera of holoparasitic angiosperms, a complete plastid genome sequence is available for only about half. In addition, less than 15 species are currently represented with more than one published plastid genome, most of which belong to the Orobanchaceae. Therefore, a significant portion of the holoparasitic plant plastome diversity remains unexplored. This limited information could hinder potential evolutionary pattern recognition as well as the exploration of inter- and intra-species plastid genome diversity in the most extreme holoparasitic angiosperms.

Results
Here, we report the first plastomes of Kenyan Hydnora abyssinica accessions. The plastomes have a typical quadripartite structure and encode 24 unique genes. Phylogenetic tree reconstruction recovers the Kenyan accessions as monophyletic and together in a clade with the Namibian H. abyssinica accession and the recently published H. arabica from Oman. Hydnora abyssinica as a whole however is recovered as non-monophyletic, with H. arabica nested within. This result is supported by distinct structural plastome synapomorphies as well as pairwise distance estimates that reveal hidden diversity within the Hydnora species in Africa.

Conclusion
We propose to increase efforts to sample widespread holoparasitic species for their plastid genomes, as is the case with H. abyssinica, which is widely distributed in Africa. Morphological reinvestigation and further molecular data are needed to fully investigate the diversity of H. abyssinica along the entire range of distribution, as well as the diversity of currently synonymized taxa.