bluuebunny/crossref_metadata_2025_split huggingface dataset:
An invasive zone in human liver cancer identified by Stereo-seq promotes hepatocyte–tumor cell crosstalk, local immunosuppression and tumor progression
Authors: Wu Liang , Yan Jiayan , Bai Yinqi , Chen Feiyu , Zou Xuanxuan , Xu Jiangshan , Huang Ao , Hou Liangzhen , Zhong Yu , Jing Zehua , Yu Qichao , Zhou Xiaorui , Jiang Zhifeng , Wang Chunqing , Cheng Mengnan , Ji Yuan , Hou Yingyong , Luo Rongkui , Li Qinqin , Wu Liang , Cheng Jianwen , Wang Pengxiang , Guo Dezhen , Huang Waidong , Lei Junjie , Liu Shang , Yan Yizhen , Chen Yiling , Liao Sha , Li Yuxiang , Sun Haixiang , Yao Na , Zhang Xiangyu , Zhang Shiyu , Chen Xi , Yu Yang , Li Yao , Liu Fengming , Wang Zheng , Zhou Shaolai , Yang Huanming , Yang Shuang , Xu Xun , Liu Longqi , Gao Qiang , Tang Zhaoyou , Wang Xiangdong , Wang Jian , Fan Jia , Liu Shiping , Yang Xinrong , Chen Ao , Zhou Jian 
Published: June 2023

AbstractDissecting and understanding the cancer ecosystem, especially that around the tumor margins, which have strong implications for tumor cell infiltration and invasion, are essential for exploring the mechanisms of tumor metastasis and developing effective new treatments. Using a novel tumor border scanning and digitization model enabled by nanoscale resolution-SpaTial Enhanced REsolution Omics-sequencing (Stereo-seq), we identified a 500 µm-wide zone centered around the tumor border in patients with liver cancer, referred to as “the invasive zone”. We detected strong immunosuppression, metabolic reprogramming, and severely damaged hepatocytes in this zone. We also identified a subpopulation of damaged hepatocytes with increased expression of serum amyloid A1 and A2 (referred to collectively as SAAs) located close to the border on the paratumor side. Overexpression of CXCL6 in adjacent malignant cells could induce activation of the JAK-STAT3 pathway in nearby hepatocytes, which subsequently caused SAAs’ overexpression in these hepatocytes. Furthermore, overexpression and secretion of SAAs by hepatocytes in the invasive zone could lead to the recruitment of macrophages and M2 polarization, further promoting local immunosuppression, potentially resulting in tumor progression. Clinical association analysis in additional five independent cohorts of patients with primary and secondary liver cancer (n = 423) showed that patients with overexpression of SAAs in the invasive zone had a worse prognosis. Further in vivo experiments using mouse liver tumor models in situ confirmed that the knockdown of genes encoding SAAs in hepatocytes decreased macrophage accumulation around the tumor border and delayed tumor growth. The identification and characterization of a novel invasive zone in human cancer patients not only add an important layer of understanding regarding the mechanisms of tumor invasion and metastasis, but may also pave the way for developing novel therapeutic strategies for advanced liver cancer and other solid tumors.
Printable Poly(N-acryloyl glycinamide) Nanocomposite Hydrogel Formulations
Authors: Majstorović Nikola , Zahedtalaban Mohamed , Agarwal Seema 
Published: June 2023

AbstractPrintable synthetic polymer formulations leading to hydrogels with high strengths, swelling resistance, and bioactivities are required to control the mechanical and functional characteristics of biological scaffolds. Here, we present nanocomposite hydrogels prepared with the upper critical solution (UCST)-type polymer ink poly(N-acryloyl glycinamide) (PNAGA) and different concentrations of carbon nanotubes (CNTs). Nanofiller CNTs are recommended for increasing the bioactivities of hydrogel scaffolds. Printing methods were established in which the CNTs were included before and after the fabrication of the ink. The methods were compared to each other and their temperatures and shear-thinning properties were determined from the rheologies. A self-thickening method was utilized for 3D printing of nanocomposite constructs, and the printabilities varied with the CNT content and preparation method. After photopolymerization of the printed constructs, the nanocomposite hydrogel exhibited a slightly higher mechanical strength (15,500 Pa, Emod = 0.697 ± 0.222 MPa), great elasticity (elongation ~500%) and an electrical conductivity (5.2‧10−4 ± 1.5‧10−4 S‧m−1) comparable to that of the neat PNAGA hydrogel. Since high-strength constructs can be 3D printed with good resolution and low cytotoxicity, these nanocomposite hydrogel scaffolds could be used in biological and tissue engineering applications.
Antibacterial and antibiofilm activities of ZIF-67
Authors: Gallegos-Monterrosa Ramses , Mendiola Rodrigo Orozco , Nuñez Yoselin , Auvynet Constance , Kumar Kesarla Mohan , Tang Bin , Ruiz-Ortega Leonardo I. , Bustamante Víctor H. 
Published: June 2023

AbstractCurrently, antibiotic-resistant bacteria represent a serious threat to public health worldwide. Biofilm formation potentiates both virulence and antibiotic resistance of bacteria. Therefore, the discovery of new antibacterial and antibiofilm compounds is an issue of paramount importance to combat and prevent hard-to-treat bacterial infections. Zeolitic-imidazolate-frameworks (ZIFs) are metallo-organic compounds known to have various interesting chemical and biological applications, including antibacterial properties. In this study, we synthesized ZIF-67 nanoparticles, formed by imidazolate anions and cobalt cations, and found that they inhibit the growth of Acinetobacter baumannii, Pseudomonas aeruginosa, and Staphylococcus aureus. Sub-inhibitory concentrations of ZIF-67 were also able to significantly reduce the biomass of pre-established biofilms of these pathogenic bacteria. On the other hand, the ZIF-67 nanoparticles had null or low cytotoxicity in mammalian cells at those concentrations showing antibacterial or antibiofilm activities. Thus, our results reveal the potential of ZIF-67 nanoparticles to be used against pathogenic bacteria.
CP2 skyrmions and skyrmion crystals in realistic quantum magnets
Authors: Zhang Hao , Wang Zhentao , Dahlbom David , Barros Kipton , Batista Cristian D. 
Published: June 2023

AbstractMagnetic skyrmions are nanoscale topological textures that have been recently observed in different families of quantum magnets. These objects are called CP1 skyrmions because they are built from dipoles—the target manifold is the 1D complex projective space, CP1 ≅ S2. Here we report the emergence of magnetic CP2 skyrmions in a realistic spin-1 model, which includes both dipole and quadrupole moments. Unlike CP1 skyrmions, CP2 skyrmions can also arise as metastable textures of quantum paramagnets, opening a new road to discover emergent topological solitons in non-magnetic materials. The quantum phase diagram of the spin-1 model also includes magnetic field-induced CP2 skyrmion crystals that can be detected with regular momentum- (diffraction) and real-space (Lorentz transmission electron microscopy) experimental techniques.
Simultaneous single-qubit driving of semiconductor spin qubits at the fault-tolerant threshold
Authors: Lawrie W. I. L. , Rimbach-Russ M. , Riggelen F. van , Hendrickx N. W. , Snoo S. L. de , Sammak A. , Scappucci G. , Helsen J. , Veldhorst M. 
Published: June 2023

AbstractPractical Quantum computing hinges on the ability to control large numbers of qubits with high fidelity. Quantum dots define a promising platform due to their compatibility with semiconductor manufacturing. Moreover, high-fidelity operations above 99.9% have been realized with individual qubits, though their performance has been limited to 98.67% when driving two qubits simultaneously. Here we present single-qubit randomized benchmarking in a two-dimensional array of spin qubits, finding native gate fidelities as high as 99.992(1)%. Furthermore, we benchmark single qubit gate performance while simultaneously driving two and four qubits, utilizing a novel benchmarking technique called N-copy randomized benchmarking, designed for simple experimental implementation and accurate simultaneous gate fidelity estimation. We find two- and four-copy randomized benchmarking fidelities of 99.905(8)% and 99.34(4)% respectively, and that next-nearest neighbor pairs are highly robust to cross-talk errors. These characterizations of single-qubit gate quality are crucial for scaling up quantum information technology.
Activating hidden signals by mimicking cryptic sites in a synthetic extracellular matrix
Authors: Zhu Yumeng , Shmidov Yulia , Harris Elizabeth A. , Theus Michelle H. , Bitton Ronit , Matson John B. 
Published: June 2023

AbstractCryptic sites are short signaling peptides buried within the native extracellular matrix (ECM). Enzymatic cleavage of an ECM protein reveals these hidden peptide sequences, which interact with surface receptors to control cell behavior. Materials that mimic this dynamic interplay between cells and their surroundings via cryptic sites could enable application of this endogenous signaling phenomenon in synthetic ECM hydrogels. We demonstrate that depsipeptides (“switch peptides”) can undergo enzyme-triggered changes in their primary sequence, with proof-of-principle studies showing how trypsin-triggered primary sequence rearrangement forms the bioadhesive pentapeptide YIGSR. We then engineered cryptic site-mimetic synthetic ECM hydrogels that experienced a cell-initiated gain of bioactivity. Responding to the endothelial cell surface enzyme aminopeptidase N, the inert matrix transformed into an adhesive synthetic ECM capable of supporting endothelial cell growth. This modular system enables dynamic reciprocity in synthetic ECMs, reproducing the natural symbiosis between cells and their matrix through inclusion of tunable hidden signals.
Fe/Cu diatomic catalysts for electrochemical nitrate reduction to ammonia
Authors: Zhang Shuo , Wu Jianghua , Zheng Mengting , Jin Xin , Shen Zihan , Li Zhonghua , Wang Yanjun , Wang Quan , Wang Xuebin , Wei Hui , Zhang Jiangwei , Wang Peng , Zhang Shanqing , Yu Liyan , Dong Lifeng , Zhu Qingshan , Zhang Huigang , Lu Jun 
Published: June 2023

AbstractElectrochemical conversion of nitrate to ammonia offers an efficient approach to reducing nitrate pollutants and a potential technology for low-temperature and low-pressure ammonia synthesis. However, the process is limited by multiple competing reactions and NO3− adsorption on cathode surfaces. Here, we report a Fe/Cu diatomic catalyst on holey nitrogen-doped graphene which exhibits high catalytic activities and selectivity for ammonia production. The catalyst enables a maximum ammonia Faradaic efficiency of 92.51% (−0.3 V(RHE)) and a high NH3 yield rate of 1.08 mmol h−1 mg−1 (at − 0.5 V(RHE)). Computational and theoretical analysis reveals that a relatively strong interaction between NO3− and Fe/Cu promotes the adsorption and discharge of NO3− anions. Nitrogen-oxygen bonds are also shown to be weakened due to the existence of hetero-atomic dual sites which lowers the overall reaction barriers. The dual-site and hetero-atom strategy in this work provides a flexible design for further catalyst development and expands the electrocatalytic techniques for nitrate reduction and ammonia synthesis.
Emergent and robust ferromagnetic-insulating state in highly strained ferroelastic LaCoO3 thin films
Authors: Li Dong , Wang Hongguang , Li Kaifeng , Zhu Bonan , Jiang Kai , Backes Dirk , Veiga Larissa S. I. , Shi Jueli , Roy Pinku , Xiao Ming , Chen Aiping , Jia Quanxi , Lee Tien-Lin , Dhesi Sarnjeet S. , Scanlon David O. , MacManus-Driscoll Judith L. , van Aken Peter A. , Zhang Kelvin H. L. , Li Weiwei 
Published: June 2023

AbstractTransition metal oxides are promising candidates for the next generation of spintronic devices due to their fascinating properties that can be effectively engineered by strain, defects, and microstructure. An excellent example can be found in ferroelastic LaCoO3 with paramagnetism in bulk. In contrast, unexpected ferromagnetism is observed in tensile-strained LaCoO3 films, however, its origin remains controversial. Here we simultaneously reveal the formation of ordered oxygen vacancies and previously unreported long-range suppression of CoO6 octahedral rotations throughout LaCoO3 films. Supported by density functional theory calculations, we find that the strong modification of Co 3d-O 2p hybridization associated with the increase of both Co-O-Co bond angle and Co-O bond length weakens the crystal-field splitting and facilitates an ordered high-spin state of Co ions, inducing an emergent ferromagnetic-insulating state. Our work provides unique insights into underlying mechanisms driving the ferromagnetic-insulating state in tensile-strained ferroelastic LaCoO3 films while suggesting potential applications toward low-power spintronic devices.
Field-induced partial disorder in a Shastry-Sutherland lattice
Authors: Marshall Madalynn , Billingsley Brianna R. , Bai Xiaojian , Ma Qianli , Kong Tai , Cao Huibo 
Published: June 2023

AbstractA 2-Q antiferromagnetic order of the ferromagnetic dimers was found below TN = 2.9 K in the Shastry-Sutherland lattice BaNd2ZnS5 by single crystal neutron diffraction. The magnetic order can be understood by the orthogonal arrangement of local Ising Nd spins, identified by polarized neutrons. A field was applied along [1 -1 0] to probe the observed metamagnetic transition in the magnetization measurement. The field decouples two magnetic sublattices corresponding to the propagation vectors q1 = (½, ½, 0) and q2 = (−½, ½, 0), respectively. Each sublattice shows a “stripe” order with a Néel-type arrangement in each single layer. The “stripe” order with q1 remains nearly intact up to 6 T, while the other one with q2 is suppressed at a critical field Hc ~1.7 T, indicating a partial disorder. The Hc varies with temperature and is manifested in the H-T phase diagram constructed by measuring the magnetization in BaNd2ZnS5.
Multiplex-GAM: genome-wide identification of chromatin contacts yields insights overlooked by Hi-C
Authors: Beagrie Robert A. , Thieme Christoph J. , Annunziatella Carlo , Baugher Catherine , Zhang Yingnan , Schueler Markus , Kukalev Alexander , Kempfer Rieke , Chiariello Andrea M. , Bianco Simona , Li Yichao , Davis Trenton , Scialdone Antonio , Welch Lonnie R. , Nicodemi Mario , Pombo Ana 
Published: June 2023

AbstractTechnology for measuring 3D genome topology is increasingly important for studying gene regulation, for genome assembly and for mapping of genome rearrangements. Hi-C and other ligation-based methods have become routine but have specific biases. Here, we develop multiplex-GAM, a faster and more affordable version of genome architecture mapping (GAM), a ligation-free technique that maps chromatin contacts genome-wide. We perform a detailed comparison of multiplex-GAM and Hi-C using mouse embryonic stem cells. When examining the strongest contacts detected by either method, we find that only one-third of these are shared. The strongest contacts specifically found in GAM often involve ‘active’ regions, including many transcribed genes and super-enhancers, whereas in Hi-C they more often contain ‘inactive’ regions. Our work shows that active genomic regions are involved in extensive complex contacts that are currently underestimated in ligation-based approaches, and highlights the need for orthogonal advances in genome-wide contact mapping technologies.
Chemically engineered unzipped multiwalled carbon nanotube and rGO nanohybrid for ultrasensitive picloram detection in rice water and soil samples
Authors: Dkhar Daphika S. , Kumari Rohini , Chandra Pranjal 
Published: June 2023

AbstractPicloram (4-Amino-3,5,6-trichloro pyridine-2-carboxylic acid) is a chlorinated herbicide that has been discovered to be tenacious and relatively durable in both soil and water. It is known to have adverse and unpleasant effects on humans causing several health complications. Therefore, the determination of picloram is profoundly effective because of its bio-accumulative and persistent nature. Because of this, a sensitive, rapid, and robust detection system is essential to detect traces of this molecule. In this study, we have constructed a novel nanohybrid system comprising of an UZMWCNT and rGO decorated on AuNPs modified glassy carbon electrode (UZMWCNT + rGO/AuNPs/GCE). The synthesized nanomaterials and the developed system were characterized using techniques such as SEM, XRD, SWV, LSV, EIS, and chronoamperometry. The engineered sensor surface showed a broad linear range of 5 × 10–2 nM to 6 × 105 nM , a low limit of detection (LOD) of 2.31 ± 0.02 (RSD < 4.1%) pM and a limit of quantification (LOQ) of 7.63 ± 0.03 pM. The response time was recorded to be 0.2 s, and the efficacy of the proposed sensor system was studied using rice water and soil samples collected from the agricultural field post filtration. The calculated recovery % for picloram in rice water was found to be 88.58%—96.70% (RSD < 3.5%, n = 3) and for soil it was found to be 89.57%—93.24% (RSD < 3.5%, n = 3). In addition, the SWV responses of both the real samples have been performed and a linear plot have been obtained with a correlation coefficient of 0.97 and 0.96 for rice and soil samples, respectively. The interference studies due to the coexisting molecules that may be present in the samples have been found to be negligible. Also, the designed sensor has been evaluated for stability and found to be highly reproducible and stable towards picloram detection.
A closer association between blood urea nitrogen and the probability of diabetic retinopathy in patients with shorter type 2 diabetes duration
Authors: Zhong Jian-Bo , Yao Yu-Feng , Zeng Guo-Qiang , Zhang Yi , Ye Bai-Kang , Dou Xiao-Yan , Cai Li 
Published: June 2023

AbstractBlood urea nitrogen (BUN) is an indicator of renal function and catabolic status in human body. Diabetic retinopathy (DR) is a major microvascular complication of diabetes mellitus (DM) and a serious threat to the vision of diabetic patients. We included 426 type 2 diabetic patients who visited the endocrinology department of Guangdong Provincial People’s Hospital and received an ophthalmology consultation from December 2017 to November 2018. The outcome was the probability of DR in participants. Multivariable logistics analysis was used to confirm the relationship between BUN and the probability of DR. And interaction tests were conducted to find the effects of DM duration on their association. A total of 167 of 426 patients with type 2 diabetes had DR, with a probability of 39.20%. After adjusting for potential confounders, a positive association between BUN and the probability of DR (OR = 1.12; 95% CI 1.03–1.21; P = 0.0107). And a test for interaction between DM duration and BUN on the probability of DR was significant (P = 0.0295). We suggested that in patients with type 2 diabetes, BUN was positively associated with the probability of DR and the association was influenced by DM duration.
Characteristics of persistent arthritis with refractory Kawasaki disease: a single-center retrospective study
Authors: Hattori Seira , Nozawa Tomo , Nishimura Kenichi , Hara Ryoki , Murase Ayako , Ohara Asami , Ohnishi Ai , Ohya Takashi , Ito Shuichi 
Published: June 2023

AbstractArthritis is one complication of Kawasaki disease (KD); however, the clinical features of arthritis in KD have not been well clarified. We retrospectively investigated the characteristics of persistent arthritis beyond the subacute phase of KD. In this cohort, 49 of 243 patients (20%) developed arthritis, with 33 patients (14%) experiencing persistent arthritis. Among these 33 patients, 31 (94%) had complete KD. Thirty (91%) were resistant to first intravenous immunoglobulin, and 15 (45%) required additional infliximab. Five patients (15%) developed coronary artery lesions, and 24 (73%) had oligoarthritis, mainly in large lower-extremity joints. Twenty-four patients (73%) complained of arthralgia. At arthritis onset, 16 patients (48%) presented with fever, including recurrent fever in 10 patients. Serum C-reactive protein concentration in patients with active arthritis significantly increased compared with after acute KD treatment (2.4 vs. 0.7 mg/dL, p < 0.001). Serum matrix metalloproteinase-3, a biomarker of arthritis, was significantly higher in patients with active arthritis than in remission (93.7 vs. 20.3 ng/mL, p < 0.001). Thirty (91%) and 14 (42%) patients, respectively, were treated with non-steroidal anti-inflammatory drugs and prednisolone, and they completely recovered. To summarize, persistent arthritis is a common complication in refractory KD, and adequate diagnosis and treatment are necessary.
Successful targeting in situ of an oncogenic nuclear antigen by hapten induced tumor associated autoantibodies (iTAA)
Authors: Yu Baofa , Zhang Jian , Fu Qiang , Han Yan , Zhang Jie , Gao Feng , Jing Peng , Zhang Peicheng , Zheng Guoqin 
Published: June 2023

AbstractThe abscopal is a hypothesis for treating of non-irradiated tumors after localized radiation therapy. It is associated with the products of tumor-associated gene as autoantibodies (aTAAs) in reaction to the tumor-associated antigens (TAAs), with increasing of anti-MAGEA3 and an relationship between the abscopal effect and immune response. The hapten enhanced local chemotherapy (HELC) was studied to kills tumor and release tumor TAAs, then hapten modify the TAAs to neu-TAAs, to produce tumor autologous antibodies, called induced tumor-associated autoantibodies (iTAAs) that is different from natural TAAs. Since the iTAAs and complement (C) are associated with cancer therapy Immunofluorescence (IF) was applied to evaluate the expression of the iTAAs and C3, C5, C9. Traces resulted in a partial staining of the nucleus in C3’s perinuclear reaction. The iTTAs of Survivin, C-MYC, and IMP1 increased significantly in the tumor cells' intranuclear regions (P = 0.02, P = 0.00, P < 0.0001). Koc, zeta, RalA, and p53 had a similar trend in the perinuclear regions (P < 0.0001, P = 0.004, P < 0.0001, P = 0.003). Therefore, we can propose that tumor antigens inside the cancer cells’ nuclei are targeted by the iTAAs since the iTAAs binding levels are higher after HELC. The iTAA tagging oncogenic nuclear antigens may play a distinctive role in regulating tumor cell growth.
Repurposing of neprilysin inhibitor ‘sacubitrilat’ as an anti-cancer drug by modulating epigenetic and apoptotic regulators
Authors: Kumbhar Navanath , Nimal Snehal , Patil Deeksha , Kaiser V. Florian , Haupt Joachim , Gacche Rajesh N. 
Published: June 2023

AbstractModifications in the epigenetic landscape have been considered a hallmark of cancer. Histone deacetylation is one of the crucial epigenetic modulations associated with the aggressive progression of various cancer subtypes. Herein, we have repurposed the neprilysin inhibitor sacubitrilat as a potent anticancer agent using in-silico protein–ligand interaction profiler (PLIP) analysis, molecular docking, and in vitro studies. The screening of PLIP profiles between vorinostat/panobinostat and HDACs/LTA4H followed by molecular docking resulted in five (Sacubitrilat, B65, BDS, BIR, and NPV) FDA-approved, experimental and investigational drugs. Sacubitrilat has demonstrated promising anticancer activity against colorectal cancer (SW-480) and triple-negative breast cancer (MDA-MB-231) cells, with IC50values of 14.07 μg/mL and 23.02 μg/mL, respectively. FACS analysis revealed that sacubitrilat arrests the cell cycle at the G0/G1 phase and induces apoptotic-mediated cell death in SW-480 cells. In addition, sacubitrilat inhibited HDAC isoforms at the transcriptomic level by 0.7–0.9 fold and at the proteomic level by 0.5–0.6 fold as compared to the control. Sacubitrilat increased the protein expression of tumor-suppressor (p53) and pro-apoptotic makers (Bax and Bid) by 0.2–2.5 fold while decreasing the expression of anti-apoptotic Bcl2 and Nrf2 proteins by 0.2–0.5 fold with respect to control. The observed cleaved PARP product indicates that sacubitrilat induces apoptotic-mediated cell death. This study may pave the way to identify the anticancer potential of sacubitrilat and can be explored in human clinical trials.