bluuebunny/crossref_metadata_2025_split huggingface dataset:
Extreme intratumour heterogeneity and driver evolution in mismatch repair deficient gastro-oesophageal cancer
Authors: von Loga Katharina , Woolston Andrew , Punta Marco , Barber Louise J. , Griffiths Beatrice , Semiannikova Maria , Spain Georgia , Challoner Benjamin , Fenwick Kerry , Simon Ronald , Marx Andreas , Sauter Guido , Lise Stefano , Matthews Nik , Gerlinger Marco 
Published: January 2020

AbstractMismatch repair deficient (dMMR) gastro-oesophageal adenocarcinomas (GOAs) show better outcomes than their MMR-proficient counterparts and high immunotherapy sensitivity. The hypermutator-phenotype of dMMR tumours theoretically enables high evolvability but their evolution has not been investigated. Here we apply multi-region exome sequencing (MSeq) to four treatment-naive dMMR GOAs. This reveals extreme intratumour heterogeneity (ITH), exceeding ITH in other cancer types >20-fold, but also long phylogenetic trunks which may explain the exquisite immunotherapy sensitivity of dMMR tumours. Subclonal driver mutations are common and parallel evolution occurs inRAS,PIK3CA, SWI/SNF-complex genes and in immune evasion regulators. MSeq data and evolution analysis of single region-data from 64 MSI GOAs show that chromosome 8 gains are early genetic events and that the hypermutator-phenotype remains active during progression. MSeq may be necessary for biomarker development in these heterogeneous cancers. Comparison with other MSeq-analysed tumour types reveals mutation rates and their timing to determine phylogenetic tree morphologies.
Interaction variability shapes succession of synthetic microbial ecosystems
Authors: Liu Feng , Mao Junwen , Kong Wentao , Hua Qiang , Feng Youjun , Bashir Rashid , Lu Ting 
Published: January 2020

AbstractCellular interactions are a major driver for the assembly and functioning of microbial communities. Their strengths are shown to be highly variable in nature; however, it is unclear how such variations regulate community behaviors. Here we construct synthetic Lactococcus lactis consortia and mathematical models to elucidate the role of interaction variability in ecosystem succession and to further determine if casting variability into modeling empowers bottom-up predictions. For a consortium of bacteriocin-mediated cooperation and competition, we find increasing the variations of cooperation, from either altered labor partition or random sampling, drives the community into distinct structures. When the cooperation and competition are additionally modulated by pH, ecosystem succession becomes jointly controlled by the variations of both interactions and yields more diversified dynamics. Mathematical models incorporating variability successfully capture all of these experimental observations. Our study demonstrates interaction variability as a key regulator of community dynamics, providing insights into bottom-up predictions of microbial ecosystems.
Cu2O photocathodes with band-tail states assisted hole transport for standalone solar water splitting
Authors: Pan Linfeng , Liu Yuhang , Yao Liang , Dan Ren  , Sivula Kevin , Grätzel Michael , Hagfeldt Anders 
Published: January 2020

AbstractPhotoelectrochemical water splitting provides a promising solution for harvesting and storing solar energy. As the best-performing oxide photocathode, the Cu2O photocathode holds the performance rivaling that of many photovoltaic semiconductor-based photocathodes through continuous research and development. However, the state-of-the-art Cu2O photocathode employs gold as the back contact which can lead to considerable electron-hole recombination. Here, we present a Cu2O photocathode with overall improved performance, enabled by using solution-processed CuSCN as hole transport material. Two types of CuSCN with different structures are synthesized and carefully compared. Furthermore, detailed characterizations reveal that hole transport between Cu2O and CuSCN is assisted by band-tail states. Owing to the multiple advantages of applying CuSCN as the hole transport layer, a standalone solar water splitting tandem cell is built, delivering a solar-to-hydrogen efficiency of 4.55%. Finally, approaches towards more efficient dual-absorber tandems are discussed.
Word contexts enhance the neural representation of individual letters in early visual cortex
Authors: Heilbron Micha , Richter David , Ekman Matthias , Hagoort Peter , de Lange Floris P. 
Published: January 2020

AbstractVisual context facilitates perception, but how this is neurally implemented remains unclear. One example of contextual facilitation is found in reading, where letters are more easily identified when embedded in a word. Bottom-up models explain this word advantage as a post-perceptual decision bias, while top-down models propose that word contexts enhance perception itself. Here, we arbitrate between these accounts by presenting words and nonwords and probing the representational fidelity of individual letters using functional magnetic resonance imaging. In line with top-down models, we find that word contexts enhance letter representations in early visual cortex. Moreover, we observe increased coupling between letter information in visual cortex and brain activity in key areas of the reading network, suggesting these areas may be the source of the enhancement. Our results provide evidence for top-down representational enhancement in word recognition, demonstrating that word contexts can modulate perceptual processing already at the earliest visual regions.
Coherent master equation for laser modelocking
Authors: Perego Auro M. , Garbin Bruno , Gustave François , Barland Stephane , Prati Franco , de Valcárcel Germán J. 
Published: January 2020

AbstractModelocked lasers constitute the fundamental source of optically-coherent ultrashort-pulsed radiation, with huge impact in science and technology. Their modeling largely rests on the master equation (ME) approach introduced in 1975 by Hermann A. Haus. However, that description fails when the medium dynamics is fast and, ultimately, when light-matter quantum coherence is relevant. Here we set a rigorous and general ME framework, the coherent ME (CME), that overcomes both limitations. The CME predicts strong deviations from Haus ME, which we substantiate through an amplitude-modulated semiconductor laser experiment. Accounting for coherent effects, like the Risken-Nummedal-Graham-Haken multimode instability, we envisage the usefulness of the CME for describing self-modelocking and spontaneous frequency comb formation in quantum-cascade and quantum-dot lasers. Furthermore, the CME paves the way for exploiting the rich phenomenology of coherent effects in laser design, which has been hampered so far by the lack of a coherent ME formalism.
Trapped ion mobility spectrometry and PASEF enable in-depth lipidomics from minimal sample amounts
Authors: Vasilopoulou Catherine G. , Sulek Karolina , Brunner Andreas-David , Meitei Ningombam Sanjib , Schweiger-Hufnagel Ulrike , Meyer Sven W. , Barsch Aiko , Mann Matthias , Meier Florian 
Published: January 2020

AbstractA comprehensive characterization of the lipidome from limited starting material remains very challenging. Here we report a high-sensitivity lipidomics workflow based on nanoflow liquid chromatography and trapped ion mobility spectrometry (TIMS). Taking advantage of parallel accumulation–serial fragmentation (PASEF), we fragment on average 15 precursors in each of 100 ms TIMS scans, while maintaining the full mobility resolution of co-eluting isomers. The acquisition speed of over 100 Hz allows us to obtain MS/MS spectra of the vast majority of isotope patterns. Analyzing 1 µL of human plasma, PASEF increases the number of identified lipids more than three times over standard TIMS-MS/MS, achieving attomole sensitivity. Building on high intra- and inter-laboratory precision and accuracy of TIMS collisional cross sections (CCS), we compile 1856 lipid CCS values from plasma, liver and cancer cells. Our study establishes PASEF in lipid analysis and paves the way for sensitive, ion mobility-enhanced lipidomics in four dimensions.
Circular photogalvanic spectroscopy of Rashba splitting in 2D hybrid organic–inorganic perovskite multiple quantum wells
Authors: Liu Xiaojie , Chanana Ashish , Huynh Uyen , Xue Fei , Haney Paul , Blair Steve , Jiang Xiaomei , Vardeny Z. V. 
Published: January 2020

AbstractThe two-dimensional (2D) Ruddlesden−Popper organic-inorganic halide perovskites such as (2D)-phenethylammonium lead iodide (2D-PEPI) have layered structure that resembles multiple quantum wells (MQW). The heavy atoms in 2D-PEPI contribute a large spin-orbit coupling that influences the electronic band structure. Upon breaking the inversion symmetry, a spin splitting (‘Rashba splitting’) occurs in the electronic bands. We have studied the spin splitting in 2D-PEPI single crystals using the circular photogalvanic effect (CPGE). We confirm the existence of Rashba splitting at the electronic band extrema of 35±10 meV, and identify the main inversion symmetry breaking direction perpendicular to the MQW planes. The CPGE action spectrum above the bandgap reveals spin-polarized photocurrent generated by ultrafast relaxation of excited photocarriers separated in momentum space. Whereas the helicity dependent photocurrent with below-gap excitation is due to spin-galvanic effect of the ionized spin-polarized excitons, where spin polarization occurs in the spin-split bands due to asymmetric spin-flip.
Improved estimates on global carbon stock and carbon pools in tidal wetlands
Authors: Ouyang Xiaoguang , Lee Shing Yip 
Published: January 2020

AbstractTidal wetlands are global hotspots of carbon storage but errors exist with current estimates on their carbon density due to the use of factors estimated from other habitats for converting loss-on-ignition (LOI) to organic carbon (OC); and the omission of certain significant carbon pools. Here we show that the widely used conversion factor (LOI/OC = 1.724) is significantly lower than our measurements for saltmarsh sediments (1.92 ± 0.01) and oversimplifies the polynomial relationship between sediment OC and LOI for mangrove forests. Global mangrove OC stock in the top-meter sediment reaches 1.93 Pg when corrected for this bias, and is 20% lower than the previous estimates. Ecosystem carbon stock (living and dead biomass, sediment OC and inorganic carbon) is estimated at 3.7–6.2 Pg. Mangrove deforestation leads to carbon emission rates at 23.5–38.7 Tg yr−1 after 2000. Mangrove sediment OC stock has previously been over-estimated while ecosystem carbon stock underestimated.
Two-way tuning of structural order in metallic glasses
Authors: Lou Hongbo , Zeng Zhidan , Zhang Fei , Chen Songyi , Luo Peng , Chen Xiehang , Ren Yang , Prakapenka Vitali B. , Prescher Clemens , Zuo Xiaobing , Li Tao , Wen Jianguo , Wang Wei-Hua , Sheng Hongwei , Zeng Qiaoshi 
Published: January 2020

AbstractMetallic glasses are expected to have quite tunable structures in their configuration space, without the strict constraints of a well-defined crystalline symmetry and large energy barriers separating different states in crystals. However, effectively modulating the structure of metallic glasses is rather difficult. Here, using complementary in situ synchrotron x-ray techniques, we reveal thermal-driven structural ordering in a Ce65Al10Co25 metallic glass, and a reverse disordering process via a pressure-induced rejuvenation between two states with distinct structural order characteristics. Studies on other metallic glass samples with different compositions also show similar phenomena. Our findings demonstrate the feasibility of two-way structural tuning states in terms of their dramatic ordering and disordering far beyond the nearest-neighbor shells with the combination of temperature and pressure, extending accessible states of metallic glasses to unexplored configuration spaces.
Oil-in-water emulsion adjuvants for pediatric influenza vaccines: a systematic review and meta-analysis
Authors: Lin Yu-Ju , Wen Chiao-Ni , Lin Ying-Ying , Hsieh Wen-Chi , Chang Chia-Chen , Chen Yi-Hsuan , Hsu Chian-Hui , Shih Yun-Jui , Chen Chang-Hsun , Fang Chi-Tai 
Published: January 2020

AbstractStandard inactivated influenza vaccines are poorly immunogenic in immunologically naive healthy young children, who are particularly vulnerable to complications from influenza. For them, there is an unmet need for better influenza vaccines. Oil-in-water emulsion-adjuvanted influenza vaccines are promising candidates, but clinical trials yielded inconsistent results. Here, we meta-analyze randomized controlled trials with efficacy data (3 trials, n = 15,310) and immunogenicity data (17 trials, n = 9062). Compared with non-adjuvanted counterparts, adjuvanted influenza vaccines provide a significantly better protection (weighted estimate for risk ratio of RT-PCR-confirmed influenza: 0.26) and are significantly more immunogenic (weighted estimates for seroprotection rate ratio: 4.6 to 7.9) in healthy immunologically naive young children. Nevertheless, in immunologically non-naive children, adjuvanted and non-adjuvanted vaccines provide similar protection and are similarly immunogenic. These results indicate that oil-in-water emulsion adjuvant improves the efficacy of inactivated influenza vaccines in healthy young children at the first-time seasonal influenza vaccination.
Strain-controlled power devices as inspired by human reflex
Authors: Zhang Shuo , Ma Bei , Zhou Xingyu , Hua Qilin , Gong Jian , Liu Ting , Cui Xiao , Zhu Jiyuan , Guo Wenbin , Jing Liang , Hu Weiguo , Wang Zhong Lin 
Published: January 2020

AbstractBioinspired electronics are rapidly promoting advances in artificial intelligence. Emerging AI applications, e.g., autopilot and robotics, increasingly spur the development of power devices with new forms. Here, we present a strain-controlled power device that can directly modulate the output power responses to external strain at a rapid speed, as inspired by human reflex. By using the cantilever-structured AlGaN/AlN/GaN-based high electron mobility transistor, the device can control significant output power modulation (2.30–2.72 × 103 W cm−2) with weak mechanical stimuli (0–16 mN) at a gate bias of 1 V. We further demonstrate the acceleration-feedback-controlled power application, and prove that the output power can be effectively adjusted at real-time in response to acceleration changes, i.e., ▵P of 72.78–132.89 W cm−2 at an acceleration of 1–5 G at a supply voltage of 15 V. Looking forward, the device will have great significance in a wide range of AI applications, including autopilot, robotics, and human-machine interfaces.
The impact of adjusting for baseline in pharmacogenomic genome-wide association studies of quantitative change
Authors: Oni-Orisan Akinyemi , Haldar Tanushree , Ranatunga Dilrini K. , Medina Marisa W. , Schaefer Catherine , Krauss Ronald M. , Iribarren Carlos , Risch Neil , Hoffmann Thomas J. 
Published: January 2020

AbstractIn pharmacogenomic studies of quantitative change, any association between genetic variants and the pretreatment (baseline) measurement can bias the estimate of effect between those variants and drug response. A putative solution is to adjust for baseline. We conducted a series of genome-wide association studies (GWASs) for low-density lipoprotein cholesterol (LDL-C) response to statin therapy in 34,874 participants of the Genetic Epidemiology Research on Adult Health and Aging (GERA) cohort as a case study to investigate the impact of baseline adjustment on results generated from pharmacogenomic studies of quantitative change. Across phenotypes of statin-induced LDL-C change, baseline adjustment identified variants from six loci meeting genome-wide significance (SORT/CELSR2/PSRC1, LPA, SLCO1B1, APOE, APOB, and SMARCA4/LDLR). In contrast, baseline-unadjusted analyses yielded variants from three loci meeting the criteria for genome-wide significance (LPA, APOE, and SLCO1B1). A genome-wide heterogeneity test of baseline versus statin on-treatment LDL-C levels was performed as the definitive test for the true effect of genetic variants on statin-induced LDL-C change. These findings were generally consistent with the models not adjusting for baseline signifying that genome-wide significant hits generated only from baseline-adjusted analyses (SORT/CELSR2/PSRC1, APOB, SMARCA4/LDLR) were likely biased. We then comprehensively reviewed published GWASs of drug-induced quantitative change and discovered that more than half (59%) inappropriately adjusted for baseline. Altogether, we demonstrate that (1) baseline adjustment introduces bias in pharmacogenomic studies of quantitative change and (2) this erroneous methodology is highly prevalent. We conclude that it is critical to avoid this common statistical approach in future pharmacogenomic studies of quantitative change.
A Silurian ancestral scorpion with fossilised internal anatomy illustrating a pathway to arachnid terrestrialisation
Authors: Wendruff Andrew J. , Babcock Loren E. , Wirkner Christian S. , Kluessendorf Joanne , Mikulic Donald G. 
Published: January 2020

AbstractScorpions are among the first animals to have become fully terrestrialised. Their early fossil record is limited, and fundamental questions, including how and when they adapted to life on land, have been difficult to answer. Here we describe a new exceptionally preserved fossil scorpion from the Waukesha Biota (early Silurian, ca. 437.5–436.5 Ma) of Wisconsin, USA. This is the earliest scorpion yet reported, and it shows a combination of primitive marine chelicerate and derived arachnid characteristics. Elements of the circulatory, respiratory, and digestive systems are preserved, and they are essentially indistinguishable from those of present-day scorpions but share similarities with marine relatives. At this early point in arachnid evolution, physiological changes concomitant with the marine-to-terrestrial transition must have occurred but, remarkably, structural change in the circulatory or respiratory systems appear negligible. Whereas there is no unambiguous evidence that this early scorpion was terrestrial, this evidence suggests that ancestral scorpions were likely capable of forays onto land, a behavior similar to that of extant horseshoe crabs.
Individual and interpersonal correlates of cardiorespiratory fitness in adults – Findings from the German Health Interview and Examination Survey
Authors: Zeiher Johannes , Manz Kristin , Kuntz Benjamin , Perumal Nita , Keil Thomas , Mensink Gert B. M. , Finger Jonas D. 
Published: January 2020

AbstractCardiorespiratory fitness (CRF) is an established predictor of adverse health outcomes. The aim of this study is to investigate potential behavioral, interpersonal and socioeconomic correlates of CRF among men and women living in Germany using data from a population-based nationwide cross-sectional study. 1,439 men and 1,486 women aged 18–64 participated in the German Health Interview and Examination Survey (2008–2011) and completed a standardized sub-maximal cycle ergometer test. Maximal oxygen consumption ($$\dot{V}{O}_{2}max$$

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) in ml·min−1·kg−1 was estimated. Mean values of VO2max for various anthropometric, behavioral, interpersonal, and sociodemographic variables were estimated. Linear regression analyses using multiple imputations technique for missing values was performed to analyze the influence of potential correlates on CRF. Women with high alcohol consumption had higher $$\dot{V}{O}_{2}max$$

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, (β = 2.20; 95% CI 0.98 to 3.42) than women with low alcohol consumption and women with high occupational status had higher $$\dot{V}{O}_{2}max$$

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(β = 1.83; 95% CI 0.21 to 3.44) in comparison to women with low occupational status. Among men, high fruit intake (β = 1.52; 95% CI 0.63 to 2.40), compared to low or medium fruit intake and performing at least 2.5 hours of total PA per week (β = 2.19; 95% CI 1.11 to 3.28), compared to less than 2.5 hours was associated with higher $$\dot{V}{O}_{2}max$$

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. Among both men and women, lower body mass index, lower waist circumference and higher levels of physical exercise were considerably associated with higher $$\dot{V}{O}_{2}max$$

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. Among women, those in higher age groups showed a considerably lower level of $$\dot{V}{O}_{2}max$$

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compared with those aged 18–24. Furthermore, mean estimated $$\dot{V}{O}_{2}max$$

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was higher among men (36.5; 95% CI 36.0 to 37.0) than among women (30.3; 95% CI 29.8 to 30.7). Despite the cross-sectional nature of the current study, we conclude that several behavioral, anthropometric, and sociodemographic factors are associated with CRF in the general adult population in Germany. These results can provide evidence to tailor prevention measures according to the needs of specific subgroups.
Electronics without bridging components
Authors: García-Suárez V. M. 
Published: January 2020

AbstractWe propose a new paradigm of electronic devices based only on two electrodes separated by a gap, i.e. without any functional element bridging them. We use a tight-binding model to show that, depending on the type of material of the electrodes and its structure, several electronic functionalities can be achieved: ohmic behaviour, rectification, negative differential resistance, spin-filtering and magnetoresistance. In particular, we show that it is possible to deliver a given functionality by changing the coupling between the surface and bulk states and between the surface states across the gap, which dramatically changes the current-voltage characteristics. These results prove that it is possible to have functional electronic and spintronic elements on the nanoscale without having physical components bridging the electrodes.
Predicting dissolution and transformation of inhaled nanoparticles in the lung using abiotic flow cells: The case of barium sulfate
Authors: Keller Johannes G. , Graham Uschi M. , Koltermann-Jülly Johanna , Gelein Robert , Ma-Hock Lan , Landsiedel Robert , Wiemann Martin , Oberdörster Günter , Elder Alison , Wohlleben Wendel 
Published: January 2020

AbstractBarium sulfate (BaSO4) was considered to be poorly-soluble and of low toxicity, but BaSO4NM-220 showed a surprisingly short retention after intratracheal instillation in rat lungs, and incorporation of Ba within the bones. Here we show that static abiotic dissolution cannot rationalize this result, whereas two dynamic abiotic dissolution systems (one flow-through and one flow-by) indicated 50% dissolution after 5 to 6 days at non-saturating conditions regardless of flow orientation, which is close to thein vivohalf-time of 9.6 days. Non-equilibrium conditions were thus essential to simulatein vivobiodissolution. Instead of shrinking from 32 nm to 23 nm (to match the mass loss to ions), TEM scans of particles retrieved from flow-cells showed an increase to 40 nm. Such transformation suggested either material transport through interfacial contact or Ostwald ripening at super-saturating conditions and was also observedin vivoinside macrophages by high-resolution TEM following 12 months inhalation exposure. The abiotic flow cells thus adequately predicted the overall pulmonary biopersistence of the particles that was mediated by non-equilibrium dissolution and recrystallization. The present methodology for dissolution and transformation fills a high priority gap in nanomaterial hazard assessment and is proposed for the implementation of grouping and read-across by dissolution rates.