bluuebunny/crossref_metadata_2025_split huggingface dataset:
Hnrnpk is essential for embryonic limb bud development as a transcription activator and a collaborator of insulator protein Ctcf
Authors: Chen Yuyu , Zhou Taifeng , Liao Zhiheng , Gao Wenjie , Wu Jinna , Zhang Shun , Li Yongyong , Liu Hengyu , Zhou Hang , Xu Caixia , Su Peiqiang 
Published: August 2023

AbstractProper development of the limb bud relies on the concordance of various signals, but its molecular mechanisms have not yet been fully illustrated. Here we report that heterogeneous nuclear ribonucleoprotein K (hnRNPK) is essential for limb bud development. Its ablation in the limb bud results in limbless forelimbs and severe deformities of the hindlimbs. In terms of mechanism, hnRNPK functions as a transcription activator for the vital genes involved in the three regulatory axes of limb bud development. Simultaneously, for the first time we elucidate that hnRNPK binds to and coordinates with the insulator protein CCCTC binding factor (CTCF) to maintain a three-dimensional chromatin architecture. Ablation of hnRNPK weakens the binding strength of CTCF to topologically associating domain (TAD) boundaries, then leading to the loose TADs, and decreased interactions between promoters and enhancers, and further decreased transcription of developmental genes. Our study establishes a fundamental and novel role of hnRNPK in regulating limb bud development.
Gyrotactic microorganism hybrid nanofluid over a Riga plate subject to activation energy and heat source: numerical approach
Authors: Algehyne Ebrahem A. , Saeed Anwar , Arif Muhammad , Bilal Muhammad , Kumam Poom , Galal Ahmed M. 
Published: August 2023

AbstractThe current article aims to examine the magnetohydrodynamics (MHD) impact on the flow of MgO–Ag/water-based hybrid nanoliquid with motile microorganisms and the fluid is allowed to flow over a Riga plate subject to slip effects and activation energy. Furthermore, the presence of a uniform heat source/sink is also addressed in the energy equation. In addition to this, the thermophoresis effect is highlighted in the concentration equation. From the present proposed model, we get a non-linear system of the governing equations. The obtained system of partial differential equations (PDEs) is converted to the dimensionless system of ordinary differential equations (ODEs) using the similarity transformation. The obtained high non-linear system of equations has been solved numerically, using the parametric continuation method (PCM). In the present analysis, the main motivation is to highlight the heat transfer rate of MgO–Ag/water-based hybrid nanofluid flow over a Riga plate. The second motivation of the present research is to highlight the impact of slip conditions on the velocity, energy, and mass profiles. From the graphical analysis, it is depicted that the slip conditions reduce the velocity, energy, and mass outlines. From the present analysis, we concluded that volume friction reduced the flow profile while increasing the temperature of the fluid flow over a Riga plate. All the parameters of the present research are highlighted in velocity temperature and concertation of the fluid. In addition to this in all the figures we have compared the hybrid nanofluid with mono nanofluid and the also the comparison between slip and no-slip conditions have carried out through graphs for velocity, temperature, and concentration.
Global site-specific health impacts of fossil energy, steel mills, oil refineries and cement plants
Authors: Oberschelp Christopher , Pfister Stephan , Hellweg Stefanie 
Published: August 2023

AbstractClimate change and particulate matter air pollution present major threats to human well-being by causing impacts on human health. Both are connected to key air pollutants such as carbon dioxide (CO$$_\text {2}$$

2

), primary fine particulate matter (PM$$_\text {2.5}$$

2.5

), sulfur dioxide (SO$$_\text {2}$$

2

), nitrogen oxides (NO$$_\text {x}$$

x

) and ammonia (NH$$_\text {3}$$

3

), which are primarily emitted from energy-intensive industrial sectors. We present the first study to consistently link a broad range of emission measurements for these substances with site-specific technical data, emission models, and atmospheric fate and effect models to quantify health impacts caused by nearly all global fossil power plants, steel mills, oil refineries and cement plants. The resulting health impact patterns differ substantially from far less detailed earlier studies due to the high resolution of included data, highlighting in particular the key role of emission abatement at individual coal-consuming industrial sites in densely populated areas of Asia (Northern and North-Eastern India, Java in Indonesia, Eastern China), Western Europe (Germany, Belgium, Netherlands) as well as in the US. Of greatest health concern are the high SO$$_\text {2}$$

2

emissions in India, which stand out due to missing flue gas treatment and cause a particularly high share of local health impacts despite a limited number of emission sites. At the same time, the massive infrastructure and export capacity build-up in China in recent years is taking a substantial toll on regional and global health and requires more stringent regulation than in the rest of the world due to unfavorable environmental conditions and high population densities. The current phase-out of highly emitting industries in Europe is found not to have started with sites having the greatest health impacts. Our detailed site-specific emission and impact inventory is able to highlight more effective alternatives and to track future progress.
Evaluation of the anticancer activity of RIN-1, a Notch signaling modulator, in head and neck squamous cell carcinoma
Authors: Czerwonka Arkadiusz , Kałafut Joanna , Wang Shaoxia , Anameric Alinda , Przybyszewska-Podstawka Alicja , Mattsson Jesse , Karbasian Mahtab , Le Manach Doriane , Toriseva Mervi , Nees Matthias 
Published: August 2023

AbstractNotch signalling is one of the key molecular pathways involved in cell-to-cell signal transduction. Although the mechanisms of action of the NOTCH receptors are already relatively well known, their biological implications remain unclear, especially during the initiation and progression of head and neck squamous cell carcinoma (HNSCC). Here, we present the growth- and differentiation-modulating effects of various “next generation” small molecule Notch modulators represented by RIN-1, and CB-103, on HNSCC, compared to gamma secretase inhibitors as “conventional” NOTCH interfering compounds, like DAPT. These molecules were tested in different cell- and tissue culture conditions represented by 2D monolayer, non-adherent or spheroid culture, 3D organoid cultures, and zebrafish in vivo model. The most pronounced, pleiotropic effects were observed for the NOTCH modulator RIN-1. At the molecular level, RIN-1-dependent activation of Notch signalling led to characteristic changes in the expression of NOTCH-regulated targets, i.e., the transcriptional suppressors HES1 and HEY1, p21 (CDKN1A) cell cycle inhibitor, and pro-apoptotic BAX markers. These changes led to restriction of proliferation, growth, and reduced motility of HNSCC cells in 2D cultures. Consequently, cell cycle arrest in the G2-M phase and induction of apoptosis were observed. Similar anticancer effects were observed in 3D cultures and in the zebrafish model. In contrast, RIN-1 treatment resulted in inhibition of Notch signalling and the growth of HNSCC spheroids under non-adherent cell culture conditions. Our results suggest that modulation of Notch signalling could be used as a chemotherapeutic agent in selected patients with intact NOTCH signaling.
A hybrid-qudit representation of digital RGB images
Authors: Das Sreetama , Caruso Filippo 
Published: August 2023

AbstractQuantum image processing is an emerging topic in the field of quantum information and technology. In this paper, we propose a new quantum image representation of RGB images with deterministic image retrieval, which is an improvement over all the similar existing representations in terms of using minimum resource. We use two entangled quantum registers constituting of total 7 qutrits to encode the color channels and their intensities. Additionally, we generalize the existing encoding methods by using both qubits and qutrits to encode the pixel positions of a rectangular image. This hybrid-qudit approach aligns well with the current progress of NISQ devices in incorporating higher dimensional quantum systems than qubits. We then describe the image encoding method using higher-order qubit-qutrit gates, and demonstrate the decomposition of these gates in terms of simpler elementary gates. We use the Google Cirq’s quantum simulator to verify the image preparation in both the ideal noise-free scenario and in presence of realistic noise modelling. We show that the complexity of the image encoding process is linear in the number of pixels. Lastly, we discuss the image compression and some basic RGB image processing protocols using our representation.
Identifying COVID-19 cases and extracting patient reported symptoms from Reddit using natural language processing
Authors: Guo Muzhe , Ma Yong , Eworuke Efe , Khashei Melissa , Song Jaejoon , Zhao Yueqin , Jin Fang 
Published: August 2023

AbstractWe used social media data from “covid19positive” subreddit, from 03/2020 to 03/2022 to identify COVID-19 cases and extract their reported symptoms automatically using natural language processing (NLP). We trained a Bidirectional Encoder Representations from Transformers classification model with chunking to identify COVID-19 cases; also, we developed a novel QuadArm model, which incorporates Question-answering, dual-corpus expansion, Adaptive rotation clustering, and mapping, to extract symptoms. Our classification model achieved a 91.2% accuracy for the early period (03/2020-05/2020) and was applied to the Delta (07/2021–09/2021) and Omicron (12/2021–03/2022) periods for case identification. We identified 310, 8794, and 12,094 COVID-positive authors in the three periods, respectively. The top five common symptoms extracted in the early period were coughing (57%), fever (55%), loss of sense of smell (41%), headache (40%), and sore throat (40%). During the Delta period, these symptoms remained as the top five symptoms with percent authors reporting symptoms reduced to half or fewer than the early period. During the Omicron period, loss of sense of smell was reported less while sore throat was reported more. Our study demonstrated that NLP can be used to identify COVID-19 cases accurately and extracted symptoms efficiently.
Molecular tools prove little auks from Svalbard are extremely selective for Calanus glacialis even when exposed to Atlantification
Authors: Balazy Kaja , Trudnowska Emilia , Wojczulanis-Jakubas Katarzyna , Jakubas Dariusz , Præbel Kim , Choquet Marvin , Brandner Melissa M. , Schultz Mads , Bitz-Thorsen Julie , Boehnke Rafał , Szeligowska Marlena , Descamps Sébastien , Strøm Hallvard , Błachowiak-Samołyk Katarzyna 
Published: August 2023

AbstractTwo Calanus species, C. glacialis and C. finmarchicus, due to different life strategies and environmental preferences act as an ecological indicators of Arctic Atlantification. Their high lipid content makes them important food source for higher trophic levels of Arctic ecosystems including the most abundant Northern Hemisphere's seabird, the little auk (Alle alle). Recent studies indicate a critical need for the use of molecular methods to reliably identify these two sympatric Calanus species. We performed genetic and morphology-based identification of 2600 Calanus individuals collected in little auks foraging grounds and diet in summer seasons 2019–2021 in regions of Svalbard with varying levels of Atlantification. Genetic identification proved that 40% of Calanus individuals were wrongly classified as C. finmarchicus according to morphology-based identification in both types of samples. The diet of little auks consisted almost entirely of C. glacialis even in more Atlantified regions. Due to the substantial bias in morphology-based identification, we expect that the scale of the northern expansion of boreal C. finmarchicus may have been largely overestimated and that higher costs for birds exposed to Atlantification could be mostly driven by a decrease in the size of C. glacialis rather than by shift from C. glacialis to C. finmarchicus.
Impact of switching between reference biologics and biosimilars of tumour necrosis factor inhibitors for rheumatoid arthritis: a systematic review and network meta-analysis
Authors: de Oliveira Ascef Bruna , Almeida Matheus Oliveira , de Medeiros-Ribeiro Ana Cristina , de Oliveira Andrade Danieli Castro , de Oliveira Junior Haliton Alves , de Soárez Patrícia Coelho 
Published: August 2023

AbstractWhat is the impact of switching between biologics and biosimilars of adalimumab, etanercept, and infliximab on efficacy and safety for rheumatoid arthritis? A systematic review and network meta-analysis were performed to compare switching and non-switching groups of treatments. Pooled Risk Relative (RR) or standardised mean differences (SMD) with 95% credible intervals (95% CrIs) were obtained. Seventeen randomized trials with a switching phase involving 6,562 patients were included. Results showed that a single switch from biologics to biosimilars compared to continuing biologics had comparable effects for primary and co-primary outcomes, the American College of Rheumatology criteria with 20% response (ACR20) (7 trials, 1,926 patients, RR 0.98, 95% CrIs 0.93 to 1.03) and the Health Assessment Questionnaire—Disability Index (HAQ-DI) (5 trials, 1,609 patients, SMD − 0.07, 95% CrIs − 0.23 to 0.1), and within the equivalence margins: ACR20 [RR 0.94, 1.06] and HAQ-DI [SMD − 0.22, 0.22]. The risk of treatment-emergent adverse events, discontinuation, and positive anti-drug antibodies were comparable after switching. Safety results were imprecise, and the follow-up period might not be sufficient to evaluate long-term effects, especially malignancies. Overall, the practice of single switching between approved biologics and biosimilars of Tumour Necrosis Factor inhibitors is efficacious and safe for rheumatoid arthritis.
A framework for subsurface monitoring by integrating reservoir simulation with time-lapse seismic surveys
Authors: van IJsseldijk Johno , Hajibeygi Hadi , Wapenaar Kees 
Published: August 2023

AbstractReservoir simulations for subsurface processes play an important role in successful deployment of geoscience applications such as geothermal energy extraction and geo-storage of fluids. These simulations provide time-lapse dynamics of the coupled poromechanical processes within the reservoir and its over-, under-, and side-burden environments. For more reliable operations, it is crucial to connect these reservoir simulation results with the seismic surveys (i.e., observation data). However, despite being crucial, such integration is challenging due to the fact that the reservoir dynamics alters the seismic parameters. In this work, a coupled reservoir simulation and time-lapse seismic methodology is developed for multiphase flow operations in subsurface reservoirs. To this end, a poromechanical simulator is designed for multiphase flow and connected to a forward seismic modeller. This simulator is then used to assess a novel methodology of seismic monitoring by isolating the reservoir signal from the entire reflection response. This methodology is shown to be able to track the development of the fluid front over time, even in the presence of a highly reflective overburden with strong time-lapse variations. These results suggest that the proposed methodology can contribute to a better understanding of fluid flow in the subsurface. Ultimately, this will lead to improved monitoring of reservoirs for underground energy storage or production.
Water stress memory in wheat/maize intercropping regulated photosynthetic and antioxidative responses under rainfed conditions
Authors: Hussain Sadam , Wang JinJin , Asad Naseer Muhammad , Saqib Muhammad , Siddiqui Manzer H. , Ihsan Fahid , Xiaoli Chen , Xiaolong Ren , Hussain Saddam , Ramzan Hafiz Naveed 
Published: August 2023

AbstractDrought is a most prevalent environmental stress affecting the productivity of rainfed wheat and maize in the semiarid Loess Plateau of China. Sustainable agricultural practices such as intercropping are important for enhancing crop performance in terms of better physiological and biochemical characteristics under drought conditions. Enzymatic and non-enzymatic antioxidant enzyme activities are associated with improved abiotic tolerance in crop plants, however, its molecular mechanism remains obscure. A 2-year field study was conducted to evaluate the influence of intercropping treatment viz. wheat mono-crop (WMC), maize mono-crop (MMC), intercropping maize (IM) and wheat (IW) crops, and nitrogen (N) application rates viz. control and full-dose of N (basal application at 150 and 235 kg ha−1for wheat and maize, respectively) on chlorophyll fluorescence, gas exchange traits, lipid peroxidation, antioxidative properties and expression patterns of six tolerance genes in both crops under rainfed conditions. As compared with their respective monocropping treatments, IW and IM increased the Fo/Fm by 18.35 and 14.33%, PS-11 efficiency by 7.90 and 13.44%, photosynthesis by 14.31 and 23.97%, C-capacity by 32.05 and 12.92%, and stomatal conductance by 41.40 and 89.95% under without- and with-N application, respectively. The reductions in instantaneous- and intrinsic-water use efficiency and MDA content in the range of 8.76–26.30% were recorded for IW and IM treatments compared with WMC and MMC, respectively. Compared with the WMC and MMC, IW and IM also triggered better antioxidant activities under both N rates. Moreover, we also noted that intercropping and N addition regulated the transcript levels of six genes encoding non-enzymatic antioxidants cycle enzymes. The better performance of intercropping treatments i.e., IW and IM were also associated with improved osmolytes accumulation under rainfed conditions. As compared with control, N addition significantly improved the chlorophyll fluorescence, gas exchange traits, lipid peroxidation, and antioxidant enzyme activities under all intercropping treatments. Our results increase our understanding of the physiological, biochemical, and molecular mechanisms of intercropping-induced water stress tolerance in wheat and maize crops.
Predicting the molecular mechanism-driven progression of breast cancer through comprehensive network pharmacology and molecular docking approach
Authors: Vyas Bharti , Kumar Sunil , Bhowmik Ratul , Akhter Mymoona 
Published: August 2023

AbstractIdentification of key regulators is a critical step toward discovering biomarker that participate in BC. A gene expression dataset of breast cancer patients was used to construct a network identifying key regulators in breast cancer. Overexpressed genes were identified with BioXpress, and then curated genes were used to construct the BC interactome network. As a result of selecting the genes with the highest degree from the BC network and tracing them, three of them were identified as novel key regulators, since they were involved at all network levels, thus serving as the backbone. There is some evidence in the literature that these genes are associated with BC. In order to treat BC, drugs that can simultaneously interact with multiple targets are promising. When compared with single-target drugs, multi-target drugs have higher efficacy, improved safety profile, and are easier to administer. The haplotype and LD studies of the FN1 gene revealed that the identified variations rs6707530 and rs1250248 may both cause TB, and endometriosis respectively. Interethnic differences in SNP and haplotype frequencies might explain the unpredictability in association studies and may contribute to predicting the pharmacokinetics and pharmacodynamics of drugs using FN1.
Clinical value of sigmoid colon water exchange colonoscopy: a prospective randomized clinical trial
Authors: Jiao Tian-Xiao , Hu Yang , Guo Shi-Bin 
Published: August 2023

AbstractThis prospective randomized controlled trial investigated the clinical value of sigmoid colon water exchange (SWE) colonoscopy by comparing it with air insufflation (AI) colonoscopy in terms of the patient’s pain score, insertion time, and screening quality. Consecutive patients who underwent colonoscopy without sedation were randomized into an AI group (n = 267) or an SWE group (n = 255). Patient characteristics, history of abdominal or pelvic surgery, maximum pain score, insertion time, cecal intubation rate, polyp detection rate, and the need for maneuvers were recorded. There was no significant between-group difference in insertion time, cecal intubation rate, assisted maneuvers (abdominal pressure, changing patients’ position), or polyp detection rate (P > 0.05). The mean maximum pain score was significantly lower in the SWE group than in the AI group. (3.57 ± 2.01 vs. 4.69 ± 1.83, P < 0.001). For patients with a history of abdominal or pelvic surgery and those who were overweight (body mass index > 24), the maximum pain scores were lower in the SWE group than in the AI group (3.67 ± 1.95 vs. 4.88 ± 1.80, P < 0.001; 3.40 ± 1.96 vs. 4.79 ± 1.97, P < 0.001, respectively). SWE colonoscopy can significantly reduce abdominal pain with non-inferior screening quality and does not increase insertion time.Trial registration number: ChiCTR2200059057 (date April 23, 2022).
Influence of natural and non-natural diets on the fitness and rearing of Pectinophora gossypiella Saunders
Authors: Saeed Rabia , Hassan Muhammad Waqar Ul , Jaleel Waqar , Ikhlaq Muhammad , Ali Shah Syed Ishfaq , Niaz Safia , Azad Rashid , Akbar Rasheed , Mahmood Zahid , Mukhtar Adeel , Zaka Syed Muhammad , Rasool Khawaja G. , Husain Mureed , Hassan Montaser M. , Aldawood Abdulrahman S. , Shakeel Muhammad 
Published: August 2023

AbstractIn order to develop integrated management approaches for Pectinophora gossypiella, basic studies are crucial. The two-sex life table is the most important tool for describing the fitness and population parameters of both sexes (male and female) of an insect, while the traditional life table only explains the female sex of an insect. However, no study has reported on the biology of P. gossypiella using two-sex life table tools. Therefore, this study explains the rearing dynamics of P. gossypiella on a cotton seed-based artificial diet and a natural diet (mature cotton bolls). According to the results, the oviposition period of P. gossypiella was recorded to be longer on the artificial diet (9.07 ± 0.24) compared to the natural diet (7.40 ± 0.11). The total fecundity of P. gossypiella was greater on the artificial diet (125.94 ± 3.06) in comparison to the natural diet (60.37 ± 1.10). The population parameters, including intrinsic rate of increase, finite rate of increase, gross reproductive rate, and net reproductive rate of P. gossypiella were highest on the artificial diet in comparison to the natural diet. This study concluded that the cotton seed-based artificial diet was most suitable for the rearing of P. gossypiella. In the future, P. gossypiella may be studied in depth in light of the findings in this study.