bluuebunny/crossref_metadata_2025_split huggingface dataset:
Breaking the resolution-bandwidth limit of chip-scale spectrometry by harnessing a dispersion-engineered photonic molecule
Authors: Xu Hongnan , Qin Yue , Hu Gaolei , Tsang Hon Ki 
Published: March 2023

AbstractThe chip-scale integration of optical spectrometers may offer new opportunities for in situ bio-chemical analysis, remote sensing, and intelligent health care. The miniaturization of integrated spectrometers faces the challenge of an inherent trade-off between spectral resolutions and working bandwidths. Typically, a high resolution requires long optical paths, which in turn reduces the free-spectral range (FSR). In this paper, we propose and demonstrate a ground-breaking spectrometer design beyond the resolution-bandwidth limit. We tailor the dispersion of mode splitting in a photonic molecule to identify the spectral information at different FSRs. When tuning over a single FSR, each wavelength channel is encoded with a unique scanning trace, which enables the decorrelation over the whole bandwidth spanning multiple FSRs. Fourier analysis reveals that each left singular vector of the transmission matrix is mapped to a unique frequency component of the recorded output signal with a high sideband suppression ratio. Thus, unknown input spectra can be retrieved by solving a linear inverse problem with iterative optimizations. Experimental results demonstrate that this approach can resolve any arbitrary spectra with discrete, continuous, or hybrid features. An ultrahigh resolution of <40 pm is achieved throughout an ultrabroad bandwidth of >100 nm far exceeding the narrow FSR. An ultralarge wavelength-channel capacity of 2501 is supported by a single spatial channel within an ultrasmall footprint (≈60 × 60 μm2), which represents, to the best of our knowledge, the highest channel-to-footprint ratio (≈0.69 μm−2) and spectral-to-spatial ratio (>2501) ever demonstrated to date.
Erianin suppresses constitutive activation of MAPK signaling pathway by inhibition of CRAF and MEK1/2
Authors: Wang Penglei , Jia Xuechao , Lu Bingbing , Huang Han , Liu Jialin , Liu Xuejiao , Wu Qiong , Hu Yamei , Li Pan , Wei Huifang , Liu Tingting , Zhao Dengyun , Zhang Lingwei , Tian Xueli , Jiang Yanan , Qiao Yan , Nie Wenna , Ma Xinli , Bai Ruihua , Peng Cong , Dong Zigang , Liu Kangdong 
Published: March 2023

AbstractConstitutive activation of RAS-RAF-MEK-ERK signaling pathway (MAPK pathway) frequently occurs in many cancers harboring RAS or RAF oncogenic mutations. Because of the paradoxical activation induced by a single use of BRAF or MEK inhibitors, dual-target RAF and MEK treatment is thought to be a promising strategy. In this work, we evaluated erianin is a novel inhibitor of CRAF and MEK1/2 kinases, thus suppressing constitutive activation of the MAPK signaling pathway induced by BRAF V600E or RAS mutations. KinaseProfiler enzyme profiling, surface plasmon resonance (SPR), isothermal titration calorimetry (ITC), cellular thermal shift assay, computational docking, and molecular dynamics simulations were utilized to screen and identify erianin binding to CRAF and MEK1/2. Kinase assay, luminescent ADP detection assay, and enzyme kinetics assay were investigated to identify the efficiency of erianin in CRAF and MEK1/2 kinase activity. Notably, erianin suppressed BRAF V600E or RAS mutant melanoma and colorectal cancer cell by inhibiting MEK1/2 and CRAF but not BRAF kinase activity. Moreover, erianin attenuated melanoma and colorectal cancer in vivo. Overall, we provide a promising leading compound for BRAF V600E or RAS mutant melanoma and colorectal cancer through dual targeting of CRAF and MEK1/2.
ACx-projecting cholinergic neurons in the NB influence the BLA ensembles to modulate the discrimination of auditory fear memory
Authors: Yan Yan , Song Da , Jin Yue , Deng Yujun , Wang Chunjian , Huang Tao , Tang Yuanhong , Yang Yu , Zhang Yun , Wang Zhe , Dong Zhifang , Wang Yuetian , Zhao Juan , Ni Junjun , Li Hui , Zhang Jun , Lang Yiran , Wu Yili , Qing Hong , Quan Zhenzhen 
Published: March 2023

AbstractAnimals need discriminating auditory fear memory (DAFM) to survive, but the related neural circuits of DAFM remain largely unknown. Our study shows that DAFM depends on acetylcholine (ACh) signal in the auditory cortex (ACx), which is projected from the nucleus basalis (NB). At the encoding stage, optogenetic inhibition of cholinergic projections of NB-ACx obfuscates distinct tone-responsive neurons of ACx recognizing from fear-paired tone to fear-unpaired tone signals, while simultaneously regulating the neuronal activity and reactivation of basal lateral amygdala (BLA) engram cells at the retrieval stage. This NBACh-ACx-BLA neural circuit for the modulation of DAFM is especially dependent on the nicotinic ACh receptor (nAChR). A nAChR antagonist reduces DAFM and diminishes the increased magnitude of ACx tone-responsive neuronal activity during the encoding stage. Our data suggest a critical role of NBACh-ACx-BLA neural circuit in DAFM: manipulation of the NB cholinergic projection to the ACx via nAChR during the encoding stage affects the activation of ACx tone-responsive neuron clusters and the BLA engram cells during the retrieval stage, thus modulating the DAFM.
TUBB2B facilitates progression of hepatocellular carcinoma by regulating cholesterol metabolism through targeting HNF4A/CYP27A1
Authors: Wang Xiaobo , Shi Jiawei , Huang Mingming , Chen Jiehong , Dan Jia , Tang Yunhua , Guo Zhiyong , He Xiaoshun , Zhao Qiang 
Published: March 2023

AbstractCholesterol metabolism plays a critical role in the progression of hepatocellular carcinoma (HCC), but it is not clear how cholesterol metabolism is regulated. The tubulin beta class I genes (TUBBs) are associated with the prognosis of many different cancers. To confirm the function of TUBBs in HCC, the Kaplan–Meier method and Cox analyses were performed using TCGA and GSE14520 datasets. A higher expression of TUBB2B is an independent prognostic factor for shorter over survival in HCC patients. Deletion of TUBB2B in hepatocytes inhibits proliferation and promotes tumor cell apoptosis, while over-expression of TUBB2B has the opposite function. This result was confirmed in a mouse xenograft tumor model. Mechanistically, TUBB2B induces the expression of CYP27A1, an enzyme responsible for the conversion of cholesterol to 27-hydroxycholesterol, which leads to the up-regulation of cholesterol and the progression of HCC. In addition, TUBB2B regulates CYP27A1 via human hepatocyte nuclear factor 4alpha (HNF4A). These findings indicated that TUBB2B functions as an oncogene in HCC, and plays a role in promoting cell proliferation and anti-apoptosis through targeting HNF4A/CYP27A1/cholesterol.
Tunable hybrid zeolites prepared by partial interconversion
Authors: Mendoza-Castro Monica J. , Qie Zhipeng , Fan Xiaolei , Linares Noemi , García-Martínez Javier 
Published: March 2023

AbstractZeolite interconversion is a widely used strategy due to its unique advantages in the synthesis of some zeolites. By using a long-chain quaternary amine as both a structure-directing agent and porogen, we have produced superior catalysts, which we named Hybrid Zeolites, as their structures are made of building units of different zeolite types. The properties of these materials can be conveniently tuned, and their catalytic performance can be optimized simply by stopping the interconversion at different times. For cracking the 1,3,5-triisopropylbenzene, Hybrid Zeolites made of FAU and MFI units show a 5-fold increase in selectivity towards the desired product, that is, 1,3-diisopropylbenzene, compared to the commercial FAU, and a 7-fold increase in conversion at constant selectivity compared to MFI zeolite.
Mucociliary Wnt signaling promotes cilia biogenesis and beating
Authors: Seidl Carina , Da Silva Fabio , Zhang Kaiqing , Wohlgemuth Kai , Omran Heymut , Niehrs Christof 
Published: March 2023

AbstractIt is widely thought that Wnt/Lrp6 signaling proceeds through the cytoplasm and that motile cilia are signaling-inert nanomotors. Contrasting both views, we here show in the mucociliary epidermis ofX. tropicalisembryos that motile cilia transduce a ciliary Wnt signal that is distinct from canonical β-catenin signaling. Instead, it engages a Wnt-Gsk3-Ppp1r11-Pp1 signaling axis. Mucociliary Wnt signaling is essential for ciliogenesis and it engages Lrp6 co-receptors that localize to cilia via a VxP ciliary targeting sequence. Live-cell imaging using a ciliary Gsk3 biosensor reveals an immediate response of motile cilia to Wnt ligand. Wnt treatment stimulates ciliary beating inX. tropicalisembryos and primary human airway mucociliary epithelia. Moreover, Wnt treatment improves ciliary function inX. tropicalisciliopathy models of male infertility and primary ciliary dyskinesia (ccdc108,gas2l2). We conclude thatX. tropicalismotile cilia are Wnt signaling organelles that transduce a distinct Wnt-Pp1 response.
Ultrafast motion in a third generation photomolecular motor
Authors: Roy Palas , Browne Wesley R. , Feringa Ben L. , Meech Stephen R. 
Published: March 2023

AbstractControlling molecular translation at the nanoscale is a key objective for development of synthetic molecular machines. Recently developed third generation photochemically driven molecular motors (3GMs), comprising pairs of overcrowded alkenes capable of cooperative unidirectional rotation offer the possibility of converting light energy into translational motion. Further development of 3GMs demands detailed understanding of their excited state dynamics. Here we use time-resolved absorption and emission to track population and coherence dynamics in a 3GM. Femtosecond stimulated Raman reveals real-time structural dynamics as the excited state evolves from a Franck-Condon bright-state through weakly-emissive dark-state to the metastable product, yielding new insight into the reaction coordinate. Solvent polarity modifies the photoconversion efficiency suggesting charge transfer character in the dark-state. The enhanced quantum yield correlates with suppression of a low-frequency flapping motion in the excited state. This detailed characterization facilitates development of 3GMs, suggesting exploitation of medium and substituent effects to modulate motor efficiency.
Localizing strain via micro-cage structure for stretchable pressure sensor arrays with ultralow spatial crosstalk
Authors: Zhang Yufei , Lu Qiuchun , He Jiang , Huo Zhihao , Zhou Runhui , Han Xun , Jia Mengmeng , Pan Caofeng , Wang Zhong Lin , Zhai Junyi 
Published: March 2023

AbstractTactile sensors with high spatial resolution are crucial to manufacture large scale flexible electronics, and low crosstalk sensor array combined with advanced data analysis is beneficial to improve detection accuracy. Here, we demonstrated the photo-reticulated strain localization films (prslPDMS) to prepare the ultralow crosstalk sensor array, which form a micro-cage structure to reduce the pixel deformation overflow by 90.3% compared to that of conventional flexible electronics. It is worth noting that prslPDMS acts as an adhesion layer and provide spacer for pressure sensing. Hence, the sensor achieves the sufficient pressure resolution to detect 1 g weight even in bending condition, and it could monitor human pulse under different states or analyze the grasping postures. Experiments show that the sensor array acquires clear pressure imaging and ultralow crosstalk (33.41 dB) without complicated data processing, indicating that it has a broad application prospect in precise tactile detection.
High-throughput Pore-C reveals the single-allele topology and cell type-specificity of 3D genome folding
Authors: Zhong Jia-Yong , Niu Longjian , Lin Zhuo-Bin , Bai Xin , Chen Ying , Luo Feng , Hou Chunhui , Xiao Chuan-Le 
Published: March 2023

AbstractCanonical three-dimensional (3D) genome structures represent the ensemble average of pairwise chromatin interactions but not the single-allele topologies in populations of cells. Recently developed Pore-C can capture multiway chromatin contacts that reflect regional topologies of single chromosomes. By carrying out high-throughput Pore-C, we reveal extensive but regionally restricted clusters of single-allele topologies that aggregate into canonical 3D genome structures in two human cell types. We show that fragments in multi-contact reads generally coexist in the same TAD. In contrast, a concurrent significant proportion of multi-contact reads span multiple compartments of the same chromatin type over megabase distances. Synergistic chromatin looping between multiple sites in multi-contact reads is rare compared to pairwise interactions. Interestingly, the single-allele topology clusters are cell type-specific even inside highly conserved TADs in different types of cells. In summary, HiPore-C enables global characterization of single-allele topologies at an unprecedented depth to reveal elusive genome folding principles.
Minimal non-abelian nodal braiding in ideal metamaterials
Authors: Qiu Huahui , Zhang Qicheng , Liu Tingzhi , Fan Xiying , Zhang Fan , Qiu Chunyin 
Published: March 2023

AbstractExploring new topological phases and phenomena has become a vital topic in condensed matter physics and materials sciences. Recent studies reveal that a braided colliding nodal pair can be stabilized in a multi-gap system with $$PT$$
P
T
or $${C}_{2z}T$$

C

2
z

T
symmetry. This exemplifies non-abelian topological charges beyond the scope of conventional single-gap abelian band topology. Here, we construct ideal acoustic metamaterials to realize non-abelian braiding with the fewest band nodes. By emulating the time with a sequence of acoustic samples, we experimentally observe an elegant but nontrivial nodal braiding process, including nodes creation, braiding, collision, and repulsion (i.e., impossible to annihilate), and measure the mirror eigenvalues to elucidate the braiding consequence. The latter, at the level of wavefunctions, is of prime importance since essentially braiding physics aims to entangle multi-band wavefunctions. Furthermore, we experimentally unveil the highly intricate correlation between the multi-gap edge responses and the bulk non-abelian charges. Our findings pave the way for developing non-abelian topological physics that is still in its infancy.
ctDNA and residual cancer burden are prognostic in triple-negative breast cancer patients with residual disease
Authors: Stecklein Shane R. , Kimler Bruce F. , Yoder Rachel , Schwensen Kelsey , Staley Joshua M. , Khan Qamar J. , O’Dea Anne P. , Nye Lauren E. , Elia Manana , Heldstab Jaimie , Home Trisha , Hyter Stephen , Isakova Kamilla , Pathak Harsh B. , Godwin Andrew K. , Sharma Priyanka 
Published: March 2023

AbstractTriple-negative breast cancer (TNBC) patients with residual disease (RD) after neoadjuvant systemic therapy (NAST) are at high risk for recurrence. Biomarkers to risk-stratify patients with RD could help individualize adjuvant therapy and inform future adjuvant therapy trials. We aim to investigate the impact of circulating tumor DNA (ctDNA) status and residual cancer burden (RCB) class on outcomes in TNBC patients with RD. We analyze end-of-treatment ctDNA status in 80 TNBC patients with residual disease who are enrolled in a prospective multisite registry. Among 80 patients, 33% are ctDNA positive (ctDNA+) and RCB class distribution is RCB-I = 26%, RCB-II = 49%, RCB-III = 18% and 7% unknown. ctDNA status is associated with RCB status, with 14%, 31%, and 57% of patients within RCB-I, -II, and -III classes demonstrating ctDNA+ status (P = 0.028). ctDNA+ status is associated with inferior 3-year EFS (48% vs. 82%, P < 0.001) and OS (50% vs. 86%, P = 0.002). ctDNA+ status predicts inferior 3-year EFS among RCB-II patients (65% vs. 87%, P = 0.044) and shows a trend for inferior EFS among RCB-III patients (13% vs. 40%, P = 0.081). On multivariate analysis accounting for T stage and nodal status, RCB class and ctDNA status independently predict EFS (HR = 5.16, P = 0.016 for RCB class; HR = 3.71, P = 0.020 for ctDNA status). End-of-treatment ctDNA is detectable in one-third of TNBC patients with residual disease after NAST. ctDNA status and RCB are independently prognostic in this setting.
Uncertainty-aware molecular dynamics from Bayesian active learning for phase transformations and thermal transport in SiC
Authors: Xie Yu , Vandermause Jonathan , Ramakers Senja , Protik Nakib H. , Johansson Anders , Kozinsky Boris 
Published: March 2023

AbstractMachine learning interatomic force fields are promising for combining high computational efficiency and accuracy in modeling quantum interactions and simulating atomistic dynamics. Active learning methods have been recently developed to train force fields efficiently and automatically. Among them, Bayesian active learning utilizes principled uncertainty quantification to make data acquisition decisions. In this work, we present a general Bayesian active learning workflow, where the force field is constructed from a sparse Gaussian process regression model based on atomic cluster expansion descriptors. To circumvent the high computational cost of the sparse Gaussian process uncertainty calculation, we formulate a high-performance approximate mapping of the uncertainty and demonstrate a speedup of several orders of magnitude. We demonstrate the autonomous active learning workflow by training a Bayesian force field model for silicon carbide (SiC) polymorphs in only a few days of computer time and show that pressure-induced phase transformations are accurately captured. The resulting model exhibits close agreement with both ab initio calculations and experimental measurements, and outperforms existing empirical models on vibrational and thermal properties. The active learning workflow readily generalizes to a wide range of material systems and accelerates their computational understanding.
ATM signaling modulates cohesin behavior in meiotic prophase and proliferating cells
Authors: Yu Zhouliang , Kim Hyung Jun , Dernburg Abby F. 
Published: March 2023

AbstractCohesins are ancient and ubiquitous regulators of chromosome architecture and function, but their diverse roles and regulation remain poorly understood. During meiosis, chromosomes are reorganized as linear arrays of chromatin loops around a cohesin axis. This unique organization underlies homolog pairing, synapsis, double-stranded break induction, and recombination. We report that axis assembly inCaenorhabditiselegansis promoted by DNA-damage response (DDR) kinases that are activated at meiotic entry, even in the absence of DNA breaks. Downregulation of the cohesin-destabilizing factor WAPL-1 by ATM-1 promotes axis association of cohesins containing the meiotic kleisins COH-3 and COH-4. ECO-1 and PDS-5 also contribute to stabilizing axis-associated meiotic cohesins. Further, our data suggest that cohesin-enriched domains that promote DNA repair in mammalian cells also depend on WAPL inhibition by ATM. Thus, DDR and Wapl seem to play conserved roles in cohesin regulation in meiotic prophase and proliferating cells.
Antigenotoxic properties of the halophyte Polygonum maritimum L. highlight its potential to mitigate oxidative stress-related damage
Authors: Oliveira Daniela , Dias Maria Inês , Barros Lillian , Custódio Luísa , Oliveira Rui 
Published: March 2023

AbstractLong-term exposure to dietary xenobiotics can induce oxidative stress in the gastrointestinal tract, possibly causing DNA damage and contributing to the initiation of carcinogenesis. Halophytes are exposed to constant abiotic stresses, which are believed to promote the accumulation of antioxidant metabolites like polyphenols. The aim of this study was to evaluate the antioxidant and antigenotoxic properties of the ethanol extract of the aerial part of the halophyte Polygonum maritimum L. (PME), which can represent a dietary source of bioactive compounds with potential to attenuate oxidative stress-related damage. The PME exhibited a high antioxidant potential, revealed by the in vitro capacity to scavenge the free radical DPPH (IC50 = 2.29 ± 0.10 μg/mL) and the improved viability of the yeast Saccharomyces cerevisiae under oxidative stress (p < 0.001, 10 min). An antigenotoxic effect of PME against H2O2-induced oxidative stress was found in S. cerevisiae (p < 0.05) with the dominant deletion assay. In vitro colorimetric assays and LC-DAD-ESI/MSn analysis showed that PME is a polyphenol-rich extract composed of catechin, (epi)catechin dimer and trimers, quercetin and myricetin glycosides. Hence, P. maritimum is a source of antioxidant and antigenotoxic metabolites for application in industries that develop products to provide health benefits.
Artificial intelligence-aided method to detect uterine fibroids in ultrasound images: a retrospective study
Authors: Huo Tongtong , Li Lixin , Chen Xiting , Wang Ziyi , Zhang Xiaojun , Liu Songxiang , Huang Jinfa , Zhang Jiayao , Yang Qian , Wu Wei , Xie Yi , Wang Honglin , Ye Zhewei , Deng Kaixian 
Published: March 2023

Abstract
We explored a new artificial intelligence-assisted method to assist junior ultrasonographers in improving the diagnostic performance of uterine fibroids and further compared it with senior ultrasonographers to confirm the effectiveness and feasibility of the artificial intelligence method. In this retrospective study, we collected a total of 3870 ultrasound images from 667 patients with a mean age of 42.45 years ± 6.23 [SD] for those who received a pathologically confirmed diagnosis of uterine fibroids and 570 women with a mean age of 39.24 years ± 5.32 [SD] without uterine lesions from Shunde Hospital of Southern Medical University between 2015 and 2020. The DCNN model was trained and developed on the training dataset (2706 images) and internal validation dataset (676 images). To evaluate the performance of the model on the external validation dataset (488 images), we assessed the diagnostic performance of the DCNN with ultrasonographers possessing different levels of seniority. The DCNN model aided the junior ultrasonographers (Averaged) in diagnosing uterine fibroids with higher accuracy (94.72% vs. 86.63%, P < 0.001), sensitivity (92.82% vs. 83.21%, P = 0.001), specificity (97.05% vs. 90.80%, P = 0.009), positive predictive value (97.45% vs. 91.68%, P = 0.007), and negative predictive value (91.73% vs. 81.61%, P = 0.001) than they achieved alone. Their ability was comparable to that of senior ultrasonographers (Averaged) in terms of accuracy (94.72% vs. 95.24%, P = 0.66), sensitivity (92.82% vs. 93.66%, P = 0.73), specificity (97.05% vs. 97.16%, P = 0.79), positive predictive value (97.45% vs. 97.57%, P = 0.77), and negative predictive value (91.73% vs. 92.63%, P = 0.75). The DCNN-assisted strategy can considerably improve the uterine fibroid diagnosis performance of junior ultrasonographers to make them more comparable to senior ultrasonographers.