bluuebunny/crossref_metadata_2025_split huggingface dataset:
Comparison of the tumor immune microenvironment of primary hormone receptor-negative HER2-positive and triple negative breast cancer
Authors: Vos Hanne , Lambein Kathleen , Richard François , Mariën Bram , Nevelsteen Ines , Punie Kevin , Wildiers Hans , Berben Lieze , Laenen Annouschka , Floris Giuseppe , Desmedt Christine , Smeets Ann 
Published: September 2021

AbstractThe vast majority of studies investigating immune checkpoint inhibition (ICI) in patients with breast cancer have focused on triple-negative breast cancer (TNBC). In this study, we compared the tumor immune microenvironment (TIME) between TNBC and hormone receptor-negative HER2-positive breast cancer based on a selection of immune markers at the protein level in an institutional retrospective series. Additionally, we performed a similar comparison using publicly available transcriptomics data. Altogether, the results show a comparable TIME in both groups, with possible implications for the use of ICI in patients with hormone receptor-negative HER2-positive breast tumors.
High CYP27A1 expression is a biomarker of favorable prognosis in premenopausal patients with estrogen receptor positive primary breast cancer
Authors: Inasu Maria , Bendahl Pär-Ola , Fernö Mårten , Malmström Per , Borgquist Signe , Kimbung Siker 
Published: September 2021

Abstract27-hydroxycholesterol (27HC), synthesized from cholesterol by the enzyme CYP27A1, differentially impacts estrogen receptor positive (ER+) breast cancer (BC) cell growth depending on estrogen levels. This study examined the association between CYP27A1 expression and prognosis in a cohort of 193 premenopausal patients with lymph node-negative primary BC with limited exposure to adjuvant systemic cancer treatments. In multivariable analyses among patients with ER+ tumors, high CYP27A1 protein and mRNA expressions were associated with four- and eight-fold reductions in the incidence of distant recurrence-free survival events: HRadj = 0.26, 95% CI = 0.07–0.93 and HRadj = 0.13, 95% CI = 0.03–0.60, respectively. In vitro studies revealed that 27HC treatment potently inhibited ER+ BC cell proliferation under lipid-depleted conditions regardless of estradiol levels, transcriptionally mediated through the downregulation of ER signaling with a concomitant upregulation of cholesterol export. Importantly, if validated, these results may have implications for adjuvant treatment decisions in premenopausal patients, especially when de-escalation of therapy is being considered.
Quantum efficiency, purity and stability of a tunable, narrowband microwave single-photon source
Authors: Lu Yong , Bengtsson Andreas , Burnett Jonathan J. , Suri Baladitya , Sathyamoorthy Sankar Raman , Nilsson Hampus Renberg , Scigliuzzo Marco , Bylander Jonas , Johansson Göran , Delsing Per 
Published: September 2021

AbstractWe demonstrate an on-demand source of microwave single photons with 71–99% intrinsic quantum efficiency. The source is narrowband (300 kHz) and tuneable over a 600 MHz range around 5.2 GHz. Such a device is an important element in numerous quantum technologies and applications. The device consists of a superconducting transmon qubit coupled to the open end of a transmission line. A π-pulse excites the qubit, which subsequently rapidly emits a single photon into the transmission line. A cancellation pulse then suppresses the reflected π-pulse by 33.5 dB, resulting in 0.005 photons leaking into the photon emission channel. We verify strong antibunching of the emitted photon field and determine its Wigner function. Non-radiative decay and 1/f flux noise both affect the quantum efficiency. We also study the device stability over time and identify uncorrelated discrete jumps of the pure dephasing rate at different qubit frequencies on a time scale of hours, which we attribute to independent two-level system defects in the device dielectrics, dispersively coupled to the qubit. Our single-photon source with only one input port is more compact and scalable compared to standard implementations.
Lake Ohrid’s tephrochronological dataset reveals 1.36 Ma of Mediterranean explosive volcanic activity
Authors: Leicher Niklas , Giaccio Biagio , Zanchetta Giovanni , Sulpizio Roberto , Albert Paul G. , Tomlinson Emma L. , Lagos Markus , Francke Alexander , Wagner Bernd 
Published: September 2021

AbstractTephrochronology relies on the availability of the stratigraphical, geochemical and geochronological datasets of volcanic deposits, three preconditions which are both often only fragmentary accessible. This study presents the tephrochronological dataset from the Lake Ohrid (Balkans) sediment succession continuously reaching back to 1.36 Ma. 57 tephra layers were investigated for their morphological appearance, geochemical fingerprint, and (chrono-)stratigraphic position. Glass fragments of tephra layers were analyzed for their major element composition using Energy-Dispersive-Spectroscopy and Wavelength-Dispersive Spectroscopy and for their trace element composition by Laser Ablation-Inductively Coupled Plasma-Mass Spectrometry. Radiometric dated equivalents of 16 tephra layers and orbital tuning of geochemical proxy data provided the basis for the age-depth model of the Lake Ohrid sediment succession. The age-depth model, in turn, provides ages for unknown or undated tephra layers. This dataset forms the basis for a regional stratigraphic framework and provides insights into the central Mediterranean explosive volcanic activity during the last 1.36 Ma.
Cydrasil 3, a curated 16S rRNA gene reference package and web app for cyanobacterial phylogenetic placement
Authors: Roush Daniel , Giraldo-Silva Ana , Garcia-Pichel Ferran 
Published: September 2021

AbstractCyanobacteria are a widespread and important bacterial phylum, responsible for a significant portion of global carbon and nitrogen fixation. Unfortunately, reliable and accurate automated classification of cyanobacterial 16S rRNA gene sequences is muddled by conflicting systematic frameworks, inconsistent taxonomic definitions (including the phylum itself), and database errors. To address this, we introduce Cydrasil 3 (https://www.cydrasil.org), a curated 16S rRNA gene reference package, database, and web application designed to provide a full phylogenetic perspective for cyanobacterial systematics and routine identification. Cydrasil 3 contains over 1300 manually curated sequences longer than 1100 base pairs and can be used for phylogenetic placement or as a reference sequence set for de novo phylogenetic reconstructions. The web application (utilizing PaPaRA and EPA-ng) can place thousands of sequences into the reference tree and has detailed instructions on how to analyze results. While the Cydrasil web application offers no taxonomic assignments, it instead provides phylogenetic placement, as well as a searchable database with curation notes and metadata, and a mechanism for community feedback.
A database of travel-related behaviors and attitudes before, during, and after COVID-19 in the United States
Authors: Chauhan Rishabh Singh , Bhagat-Conway Matthew Wigginton , Capasso da Silva Denise , Salon Deborah , Shamshiripour Ali , Rahimi Ehsan , Khoeini Sara , Mohammadian Abolfazl , Derrible Sybil , Pendyala Ram 
Published: September 2021

AbstractThe COVID-19 pandemic has impacted billions of people around the world. To capture some of these impacts in the United States, we are conducting a nationwide longitudinal survey collecting information about activity and travel-related behaviors and attitudes before, during, and after the COVID-19 pandemic. The survey questions cover a wide range of topics including commuting, daily travel, air travel, working from home, online learning, shopping, and risk perception, along with attitudinal, socioeconomic, and demographic information. The survey is deployed over multiple waves to the same respondents to monitor how behaviors and attitudes evolve over time. Version 1.0 of the survey contains 8,723 responses that are publicly available. This article details the methodology adopted for the collection, cleaning, and processing of the data. In addition, the data are weighted to be representative of national and regional demographics. This survey dataset can aid researchers, policymakers, businesses, and government agencies in understanding both the extent of behavioral shifts and the likelihood that changes in behaviors will persist after COVID-19.
Similarity of gaze patterns across physical and virtual versions of an installation artwork
Authors: Gulhan Doga , Durant Szonya , Zanker Johannes M. 
Published: September 2021

AbstractAn experiment was conducted to compare museum visitors’ gaze patterns using mobile eye-trackers, whilst they were engaging with a physical and a virtual reality (VR) installation of Piet Mondrian’s Neo-plasticist room design. Visitors’ eye movements produced approximately 25,000 fixations and were analysed using linear mixed-effects models. Absolute and area-normalized dwell time analyses yielded mostly non-significant main effects of the environment, indicating similarity of visual exploration patterns between physical and VR settings. One major difference observed was the decrease of average fixation duration in VR, where visitors tended to more rapidly switch focus in this environment with shorter bursts of attentional focus. The experiment demonstrated the ability to compare gaze data between physical and virtual environments as a proxy to measure the similarity of aesthetic experience. Similarity of viewing patterns along with questionnaire results suggested that virtual galleries can be treated as ecologically valid environments that are parallel to physical art galleries.
Protein disulphide isomerase (PDI) is protective against amyotrophic lateral sclerosis (ALS)-related mutant Fused in Sarcoma (FUS) in in vitro models
Authors: Parakh S. , Perri E. R. , Vidal M. , Sultana J. , Shadfar S. , Mehta P. , Konopka A. , Thomas C. J. , Spencer D. M. , Atkin J. D. 
Published: September 2021

AbstractMutations in Fused in Sarcoma (FUS) are present in familial and sporadic cases of amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD). FUS is localised in the nucleus where it has important functions in DNA repair. However, in ALS/FTD, mutant FUS mislocalises from the nucleus to the cytoplasm where it forms inclusions, a key pathological hallmark of neurodegeneration. Mutant FUS also inhibits protein import into the nucleus, resulting in defects in nucleocytoplasmic transport. Fragmentation of the neuronal Golgi apparatus, induction of endoplasmic reticulum (ER) stress, and inhibition of ER-Golgi trafficking are also associated with mutant FUS misfolding in ALS. Protein disulphide isomerase (PDI) is an ER chaperone previously shown to be protective against misfolding associated with mutant superoxide dismutase 1 (SOD1) and TAR DNA-binding protein-43 (TDP-43) in cellular and zebrafish models. However, a protective role against mutant FUS in ALS has not been previously described. In this study, we demonstrate that PDI is protective against mutant FUS. In neuronal cell line and primary cultures, PDI restores defects in nuclear import, prevents the formation of mutant FUS inclusions, inhibits Golgi fragmentation, ER stress, ER-Golgi transport defects, and apoptosis. These findings imply that PDI is a new therapeutic target in FUS-associated ALS.
The impact of anthropogenic noise on individual identification via female song in Black-capped chickadees (Poecile atricapillus)
Authors: Montenegro Carolina , Service William D. , Scully Erin N. , Mischler Shannon K. , Sahu Prateek K. , Benowicz Thomas J. , Fox Katelyn V. R. , Sturdy Christopher B. 
Published: September 2021

AbstractWhen anthropogenic noise occurs simultaneously with an acoustic signal or cue, it can be difficult for an animal to interpret the information encoded within vocalizations. However, limited research has focused on how anthropogenic noise affects the identification of acoustic communication signals. In songbirds, research has also shown that black-capped chickadees (Poecile atricapillus) will shift the pitch and change the frequency at which they sing in the presence of anthropogenic, and experimental noise. Black-capped chickadees produce several vocalizations; their fee-bee song is used for mate attraction and territorial defence, and contains information about dominance hierarchy and native geographic location. Previously, we demonstrated that black-capped chickadees can discriminate between individual female chickadees via their fee-bee songs. Here we used an operant discrimination go/no-go paradigm to discern whether the ability to discriminate between individual female chickadees by their song would be impacted by differing levels of anthropogenic noise. Following discrimination training, two levels of anthropogenic noise (low: 40 dB SPL; high: 75 dB SPL) were played with stimuli to determine how anthropogenic noise would impact discrimination. Results showed that even with low-level noise (40 dB SPL) performance decreased and high-level (75 dB SPL) noise was increasingly detrimental to discrimination. We learned that perception of fee-bee songs does change in the presence of anthropogenic noise such that birds take significantly longer to learn to discriminate between females, but birds were able to generalize responding after learning the discrimination. These results add to the growing literature underscoring the impact of human-made noise on avian wildlife, specifically the impact on perception of auditory signals.
Drastic change of magnetic anisotropy in Fe3GeTe2 and Fe4GeTe2 monolayers under electric field studied by density functional theory
Authors: Kim Dongwook , Lee Changhoon , Jang Bo Gyu , Kim Kyoo , Shim Ji Hoon 
Published: September 2021

AbstractMagnetic anisotropy energy (MAE) is one of the most important properties in two-dimensional magnetism since the magnetization in two dimension is vulnerable to the spin rotational fluctuations. Using density functional theory calculation, we show that perpendicular electric field dramatically enhances the in-plane and out-of-plane magnetic anisotropies in Fe3GeTe2 and Fe4GeTe2 monolayers, respectively, allowing the change of easy axis in both systems. The changes of the MAE under the electric field are understood as the result of charge redistribution inside the layer, which is available due to the three-dimensional (3D) network of Fe atoms in the monolayers. As a result, we suggest that due to the unique structure of FenGeTe2 compounds composed by peculiar 3D networks of metal atoms, the MAE can be dramatically changed by the external perpendicular electric field.
5G-enabled contactless multi-user presence and activity detection for independent assisted living
Authors: Ashleibta Aboajeila Milad , Taha Ahmad , Khan Muhammad Aurangzeb , Taylor William , Tahir Ahsen , Zoha Ahmed , Abbasi Qammer H. , Imran Muhammad Ali 
Published: September 2021

AbstractWireless sensing is the state-of-the-art technique for next generation health activity monitoring. Smart homes and healthcare centres have a demand for multi-subject health activity monitoring to cater for future requirements. 5G-sensing coupled with deep learning models has enabled smart health monitoring systems, which have the potential to classify multiple activities based on variations in channel state information (CSI) of wireless signals. Proposed is the first 5G-enabled system operating at 3.75 GHz for multi-subject, in-home health activity monitoring, to the best of the authors’ knowledge. Classified are activities of daily life performed by up to 4 subjects, in 16 categories. The proposed system combines subject count and activities performed in different classes together, resulting in simultaneous identification of occupancy count and activities performed. The CSI amplitudes obtained from 51 subcarriers of the wireless signal are processed and combined to capture variations due to simultaneous multi-subject movements. A deep learning convolutional neural network is engineered and trained on the CSI data to differentiate multi-subject activities. The proposed system provides a high average accuracy of 91.25% for single subject movements and an overall high multi-class accuracy of 83% for 4 subjects and 16 classification categories. The proposed system can potentially fulfill the needs of future in-home health activity monitoring and is a viable alternative for monitoring public health and well being.
A new long-term sampling approach to viruses on surfaces
Authors: Sommer Julia , Bobal Martin , Bromberger Birgit , Mester Patrick-Julian , Rossmanith Peter 
Published: September 2021

AbstractThe importance of virus disease outbreaks and its prevention is of growing public concern but our understanding of virus transmission routes is limited by adequate sampling strategies. While conventional swabbing methods provide merely a microbial snapshot, an ideal sampling strategy would allow reliable collection of viral genomic data over longer time periods. This study has evaluated a new, paper-based sticker approach for collection of reliable viral genomic data over longer time periods up to 14 days and after implementation of different hygiene measures. In contrast to swabbing methods, which sample viral load present on a surface at a given time, the paper-based stickers are attached to the surface area of interest and collect viruses that would have otherwise been transferred onto that surface. The major advantage of one-side adhesive stickers is that they are permanently attachable to a variety of surfaces. Initial results demonstrate that stickers permit stable recovery characteristics, even at low virus titers. Stickers also allow reliable virus detection after implementation of routine hygiene measures and over longer periods up to 14 days. Overall, results for this new sticker approach for virus genomic data collection are encouraging, but further studies are required to confirm anticipated benefits over a range of virus types.
Asymmetrical activation and asymmetrical weakness as two different mechanisms of adolescent idiopathic scoliosis
Authors: Park Yulhyun , Ko Jin Young , Jang Joon Young , Lee Seungeun , Beom Jaewon , Ryu Ju Seok 
Published: September 2021

AbstractThere have been many studies on adolescent idiopathic scoliosis related abnormal muscle contractions of the spine. However, previous studies using surface electromyography to investigate paraspinal muscle asymmetry are controversial, lacking in clarity of results, and hindered by methodological limitations. The purpose of this study was to investigate the relationship between imbalance factors including surface electromyography activity according to the scoliosis curve type and leg length discrepancy and adolescent idiopathic scoliosis curve types. Seventy-nine patients with scoliosis were prospectively enrolled and were divided into five types: single thoracic, thoracolumbar, lumbar, double thoracic, and double major. Cobb angle and structural variables were measured. Surface electromyography examinations were conducted at the 7th, 12th thoracic erector spinae, 3rd lumbar erector spinae, and multifidus muscles during the superman position keeping prone spinal extension to lift the arms and legs off the floor. Whole spine radiographs were obtained to measure the Cobb angle, coronal imbalance, pelvic height and angle, and femoral head height. In the double major, thoracolumbar, and lumbar types, the mean root mean squared (RMS) EMG amplitudes were significantly higher on the convex side than the concave side (P < 0.005). In the DM type, the mean RMS EMG amplitudes of EST7 and ESL3 where the apex was located were significantly higher at the convex side than those of the concave side (P < 0.005, effect size (Cohen’s d) for EST7/ESL3: 0.517/0.573). The TL and L types showed a similar pattern. The mean RMS EMG amplitudes of the EST12 concave side and MuL3 and ESL3 concave sides were significantly lower than those of the convex side in the TL and L types, respectively (P < 0.008, effect size (Cohen’s d) for EST12/MuL3/ESL3: 0.960/0.264/0.448). Conversely, there were no significant differences in the single thoracic and double thoracic types. All structural variables (coronal imbalance, pelvic height and angle, and femur head height) were higher in the lumbar type, but only coronal imbalance was significantly different (P < 0.05). Different patterns of asymmetry of paraspinal muscles and structural variables were described based on the curvature of the spine. L type showed that EMG activity was asymmetric in the paraspinalis muscles where the apex was located and that structural asymmetry, such as coronal imbalance was significantly greater than other types. DM type showed similar paraspinalis asymmetry pattern to the ST type but there was no structural asymmetry in DM and ST types. TL type has the features of both thoracic and lumbar origins. Understanding these could contribute to the management in correcting scoliosis.
Flight performance and the factors affecting the flight behaviour of Philaenus spumarius the main vector of Xylella fastidiosa in Europe
Authors: Lago Clara , Garzo Elisa , Moreno Aránzazu , Barrios Laura , Martí-Campoy Antonio , Rodríguez-Ballester Francisco , Fereres Alberto 
Published: September 2021

AbstractThe recent emergence of Xylella fastidiosa in Europe is a major threat to agriculture, including olive, almond and grape. Philaenus spumarius is the predominant vector of X. fastidiosa in Europe. Understanding vector movement is critical for developing effective control measures against bacterial spread. In this study, our goal was to set up a flight-mill protocol to assess P. spumarius flight potential and to analyse how different variables may affect its flight behaviour. We found that P. spumarius was able to fly ≈ 500 m in 30 min with a maximum single flight of 5.5 km in 5.4 h. Based on the observations, the flight potential of the females was higher in spring and autumn than in summer, and that of the males was highest in autumn. Moreover, we found that P. spumarius had a higher flight potential during the morning and the night than during the afternoon. Our results revealed that P. spumarius is likely to disperse much further than the established sizes of the infected and buffer zones designated by the EU. This knowledge on the flight potential of P. spumarius will be critical for improving management actions against P. spumarius and the spread of X. fastidiosa in Europe.
Factors influencing surgical outcomes in orbital trapdoor fracture
Authors: Chen Yi-Hua , Tsai Yueh-Ju , Tzeng I-Shiang 
Published: September 2021

AbstractThis study is aimed to determine the appropriate timing of performing surgical reduction on trapdoor fractures for bringing out better visual outcomes and the factors influencing surgical outcomes in this special subgroup of fracture victims. Data for 72 patients of orbital trapdoor fracture were analyzed retrospectively. Post-operative diplopia is the main posttreatment outcome of orbital bone fracture reduction. The receiver-operating characteristic (ROC) analysis indicated the cut-off point of surgical reduction timing at day 10 post-fracture. The rate of postoperative diplopia showed a significant difference between patients who underwent surgical reduction within 10 days and those who did after 10 days of injury (5.3% vs. 38.2%). Multivariate analysis revealed that preoperative infra-duction limitation (p = 0.02), muscle incarceration (p = 0.01), duration from injury to surgical reduction (p = 0.004), and postoperative supra-duction limitation (p = 0.004) were independent factors for poor surgical outcomes. In younger patients with head injury, the diagnosis of orbital trapdoor fracture should be kept in mind. Timely recognition and surgical reduction, especially within 10 days, can result in better visual outcomes without the occurrence of postoperative diplopia.