bluuebunny/crossref_metadata_2025_split huggingface dataset:
Decoding defect statistics from diffractograms via machine learning
Authors: Kunka Cody , Shanker Apaar , Chen Elton Y. , Kalidindi Surya R. , Dingreville Rémi 
Published: May 2021

AbstractDiffraction techniques can powerfully and nondestructively probe materials while maintaining high resolution in both space and time. Unfortunately, these characterizations have been limited and sometimes even erroneous due to the difficulty of decoding the desired material information from features of the diffractograms. Currently, these features are identified non-comprehensively via human intuition, so the resulting models can only predict a subset of the available structural information. In the present work we show (i) how to compute machine-identified features that fully summarize a diffractogram and (ii) how to employ machine learning to reliably connect these features to an expanded set of structural statistics. To exemplify this framework, we assessed virtual electron diffractograms generated from atomistic simulations of irradiated copper. When based on machine-identified features rather than human-identified features, our machine-learning model not only predicted one-point statistics (i.e. density) but also a two-point statistic (i.e. spatial distribution) of the defect population. Hence, this work demonstrates that machine-learning models that input machine-identified features significantly advance the state of the art for accurately and robustly decoding diffractograms.
Maternal and perinatal factors are associated with risk of pediatric central nervous system tumors and poorer survival after diagnosis
Authors: Adel Fahmideh Maral , Peckham-Gregory Erin C. , Schraw Jeremy M. , Chintagumpala Murali , Mack Stephen C. , Lupo Philip J. , Scheurer Michael E. 
Published: May 2021

AbstractCentral nervous system (CNS) tumors are the most common solid tumors in children. Findings on the role of maternal and perinatal factors on the susceptibility or outcome of these tumors are inconclusive. Therefore, we investigated the association between these early-life factors, risk, and survival of pediatric CNS tumors, using data from one of the world’s largest and most diverse cancer registries. Information on pediatric CNS tumor cases (n = 1950) for the period 1995–2011 was obtained from the Texas Cancer Registry. Birth certificate controls were frequency-matched on birth year at a ratio of 10:1 for the same period. Evaluated maternal and perinatal variables were obtained from birth records. Unconditional logistic regression was used to generate adjusted odds ratios (ORs) and 95% confidence intervals (CIs) for etiological factors. Additionally, Cox proportional hazards regression was employed to assess adjusted hazard ratios (HRs) and 95% CIs for survival factors. The results indicated that Hispanic and non-Hispanic black mothers were less likely to have children with CNS tumors compared to non-Hispanic white mothers (OR 0.88 [95% CI 0.78–0.98] P-value = 0.019; OR 0.79 [95% CI 0.67–0.93 P-value = 0.004], respectively). Infants born large for gestational age (OR 1.26 [95% CI 1.07–1.47] P-value = 0.004) and those delivered pre-term (OR 1.19 [95% CI 1.04–1.38] P-value = 0.013) showed an increased risk of CNS tumors. Infants born by vaginal forceps or vacuum delivery had a higher risk of CNS tumors compared to those born by spontaneous vaginal delivery (OR 1.35 [95% CI 1.12–1.62] P-value = 0.002). Additionally, offspring of Hispanic and non-Hispanic black mothers showed a higher risk of death (HR 1.45 [95% CI 1.16–1.80] P-value = 0.001; HR 1.53 [95% CI 1.12–2.09] P-value = 0.008, respectively). Infants born by cesarean had a higher risk of death compared to those delivered vaginally (HR 1.28 [95% CI 1.05–1.57] P-value = 0.016). These findings indicate the important role of maternal and perinatal characteristics in the etiology and survival of these clinically significant malignancies.
Association of antidiabetic medication and statins with survival from ductal and lobular breast carcinoma in women with type 2 diabetes
Authors: Hosio Mayu , Urpilainen Elina , Hautakoski Ari , Marttila Mikko , Arffman Martti , Sund Reijo , Ahtikoski Anne , Puistola Ulla , Läärä Esa , Karihtala Peeter , Jukkola Arja 
Published: May 2021

AbstractWe investigated the survival of female patients with pre-existing type 2 diabetes (T2D) diagnosed with invasive ductal carcinoma (IDC) and invasive lobular carcinoma (ILC) of breast, in relation to the use of metformin, other antidiabetic medication (ADM) and statins. The study cohort consisted of 3,165 women (2,604 with IDC and 561 with ILC). The cumulative mortality from breast cancer (BC) and from other causes was calculated using the Aalen-Johansen estimator. The cause-specific mortality rates were analysed by Cox models, and adjusted hazard ratios (HRs) were estimated for the use of different medications. No evidence of an association of metformin use with BC mortality was observed in either IDC (HR 0.92, 95% confidence interval [CI] 0.64–1.31) or ILC (HR 0.68, 95% CI 0.32–1.46) patients, when compared to other oral ADMs. The mortality from other causes was found to be lower amongst the IDC patients using metformin (HR 0.64, 95% CI 0.45–0.89), but amongst ILC patients the evidence was inconclusive (HR 1.22, 95% CI 0.64–2.32). Statin use was consistently associated with reduced mortality from BC in IDC patients (HR 0.77, 95% CI 0.62–0.96) and ILC patients (HR 0.59, 95% CI 0.37–0.96), and also mortality from other causes in IDC patients (HR 0.81, 95% CI 0.67–0.96) and in ILC patients (HR 0.66, 95% CI 0.43–1.01). We found no sufficient evidence for the possible effects of metformin and statins on the prognosis of BC being different in the two histological subtypes.
Misalignment between perceptual boundaries and weight categories reflects a new normal for body size perception
Authors: Chan Annie W. Y. , Noles Danielle L. , Utkov Nathan , Akbilgic Oguz , Smith Webb 
Published: May 2021

AbstractCombatting the current global epidemic of obesity requires that people have a realistic understanding of what a healthy body size looks like. This is a particular issue in different population sub-groups, where there may be increased susceptibility to obesity-related diseases. Prior research has been unable to systematically assess body size judgement due to a lack of attention to gender and race; our study aimed to identify the contribution of these factors. Using a data-driven multi-variate decision tree approach, we varied the gender and race of image stimuli used, and included the same diversity among participants. We adopted a condition-rich categorization visual task and presented participants with 120 unique body images. We show that gender and weight categories of the stimuli affect accuracy of body size perception. The decision pattern reveals biases for male bodies, in which participants showed an increasing number of errors from leaner to bigger bodies, particularly under-estimation errors. Participants consistently mis-categorized overweight male bodies as normal weight, while accurately categorizing normal weight. Overweight male bodies are now perceived as part of an expanded normal: the perceptual boundary of normal weight has become wider than the recognized BMI category. For female bodies, another intriguing pattern emerged, in which participants consistently mis-categorized underweight bodies as normal, whilst still accurately categorizing normal female bodies. Underweight female bodies are now in an expanded normal, in opposite direction to that of males. Furthermore, an impact of race type and gender of participants was also observed. Our results demonstrate that perceptual weight categorization is multi-dimensional, such that categorization decisions can be driven by ultiple factors.
Using shear wave elastography to assess uterine tonicity after vaginal delivery
Authors: Sichitiu Joanna , Meuwly Jean-Yves , Baud David , Desseauve David 
Published: May 2021

AbstractThis study aims to evaluate the feasibility and clinical interest of shear wave elastography, by quantitatively estimating the baseline stiffness of the myometrium before and after placental expulsion. We conducted a prospective cohort study of women at term, without known risk factors for postpartum hemorrhage, who gave birth via spontaneous labor in our tertiary center. Myometrium tonicity was evaluated based on measurements of shear wave speed (SWS) in the anterior uterine corpus. All data points were collected by a single operator. Measurements were carried out at three different time points: after fetal delivery (T1), after placental delivery (T2) and 30 min after placental delivery (T3). Our primary objective was to assess the feasibility of this new imaging technique. Ten valid SWS measurements obtained at each of the three different time points were considered as a positive primary outcome. Our secondary objectives were to evaluate the difference in median myometrial shear wave velocity between each time point, as well as to determine the correlation between myometrial shear wave velocity and patients’ characteristics. 38 women were recruited during the study period, of whom 34 met the study criteria. 1017 SWS measurements were obtained. The median time to perform measurements was 16 s for one value, and 2 min 56 s for ten. For 11 women (32%) it was not possible to achieve ten SWS at T1 as placental expulsion immediately followed the birth of the newborn. One patient experienced placental retention and only measurements at T1 were performed. For all other patients, we were successfully able to obtain all measures as intended. There was no difference in the mean shear wave speed between the three time points. After adjustments for confounders, we observed a significant correlation for total blood loss (correlation coefficient = − 0.26, p < 0.001, units of oxytocin (correlation coefficient = − 0.34, p = 0.03), and newborn weight (correlation coefficient = − 0.08, p = 0.001). It is feasible to assess uterine tonicity by shear wave imaging, after placental expulsion. We did not observe a variance in uterine tonicity between the three time points. Women who had higher blood loss, received more units of oxytocin and/or those with newborns of a higher weight exhibited lower shear wave speed measures.
Serum biomarker profile orchestrating the seroconversion status of patients with autoimmune diseases upon planned primary 17DD Yellow fever vaccination
Authors: da Costa-Rocha Ismael Artur , Machado Ketty Lysie Libardi Lira , Campi-Azevedo Ana Carolina , Teixeira-Carvalho Andréa , Peruhype-Magalhães Vanessa , de Lima Sheila Maria Barbosa , Miranda Emily Hime , Trindade Gisela Freitas , Casagrande Thays Zanon , Miyamoto Samira Tatiyama , Deotti Sávio Carvalho , Barbosa Rafaela Villa Real , Rocha Priscila Costa Martins , Serrano Erica Vieira , Dinis Valquiria Garcia , Gouvêa Sônia Alves , Gavi Maria Bernadete Renoldi de Oliveira , da Silva Lidia Balarini , Duque Ruben Horst , Gianordoli Ana Paula Espíndula , Bissoli Maria de Fatima , Gouvea Maria da Penha Gomes , Pinto-Neto Lauro Ferreira da Silva , Burian Ana Paula Neves , Fantinato Francieli Fontana Sutile Tardetti , Pileggi Gecilmara Salviato , da Mota Licia Maria Henrique , Valim Valéria , Martins-Filho Olindo Assis 
Published: May 2021

AbstractThe present study aimed to investigate whether the serum biomarkers of immune response orchestrate the seroconversion status in patients with autoimmune diseases (AID) upon planned primary 17DD-YF vaccination. For this purpose a total of 161 individuals were enrolled in a prospective study, including patients with Rheumatoid Arthritis (RA = 38), Spondyloarthritis (SpA = 51), Systemic Lupus Erythematosus (SLE = 21) and Sjögren’s Syndrome (SS = 30) along with a group of healthy controls (HC = 21). Analysis of plaque reduction neutralization test (PRNT) titers and seropositivity rates along with the 17DD-YF viremia and serum biomarkers were carried out at distinct time points (D0/D3–4/D5–6/D7/D14–28). The results demonstrated an overall lower PRNT titer and seropositivity rate (170 vs. 448; 77 vs. 95%) in AID as compared to HC, especially in SpA and SLE subgroups. No significant differences were observed in the viremia levels amongst groups. In general, a more prominent serum biomarker response was observed in AID as compared to HC, throughout the timeline kinetics. Remarkably, AID/PRNT(−) exhibited higher levels of several biomarkers at baseline as compared to AID/PRNT+. Moreover, while AID/PRNT(+) exhibited earlier increase in serum biomarkers at D3–4/D5–6, the AID/PRNT(−) displayed higher response at later time points (D7/D14–D28). Of note, a synchronic increase of IFN-γ at the peak of viremia (D5–6) was observed in HC and AID/PRNT(+) groups, whereas a later asynchronous IFN-γ response was reported for AID/PRNT(−) at D7. The biomarker profile tends to deflate at post-vaccination timeline, highlighting a putative immunomodulatory effect of live attenuated 17DD-YF vaccine in AID/PRNT(+), but not in AID/PRNT(−). Altogether these data suggested that inflammatory status prior vaccination, low IFN-γ at viremia peak and the occurrence of asynchronous biomarker storm after 17DD-YF vaccination may orchestrate the lack of neutralizing antibody response γ.
Procedure via cross-Kerr nonlinearities for encoding single logical qubit information onto four-photon decoherence-free states
Authors: Heo Jino , Choi Seong-Gon 
Published: May 2021

AbstractWe propose a photonic procedure using cross-Kerr nonlinearities (XKNLs) to encode single logical qubit information onto four-photon decoherence-free states. In quantum information processing, a decoherence-free subspace can secure quantum information against collective decoherence. Therefore, we design a procedure employing nonlinear optical gates, which are composed of XKNLs, quantum bus beams, and photon-number-resolving measurements with linear optical devices, to conserve quantum information by encoding quantum information onto four-photon decoherence-free states (single logical qubit information). Based on our analysis in quantifying the affection (photon loss and dephasing) of the decoherence effect, we demonstrate the experimental condition to acquire the reliable procedure of single logical qubit information having the robustness against the decoherence effect.
Tropical Indo-Pacific SST influences on vegetation variability in eastern Africa
Authors: Kim In-Won , Stuecker Malte F. , Timmermann Axel , Zeller Elke , Kug Jong-Seong , Park So-Won , Kim Jin-Soo 
Published: May 2021

AbstractMechanisms by which tropical Pacific and Indian Ocean sea surface temperatures (SST) influence vegetation in eastern Africa have not been fully explored. Here, we use a suite of idealized Earth system model simulations to elucidate the governing processes for eastern African interannual vegetation changes. Our analysis focuses on Tanzania. In the absence of ENSO-induced sea surface temperature anomalies in the Tropical Indian Ocean (TIO), El Niño causes during its peak phase negative precipitation anomalies over Tanzania due to a weakening of the tropical-wide Walker circulation and anomalous descending motion over the Indian Ocean and southeastern Africa. Resulting drought conditions increase the occurrence of wildfires, which leads to a marked decrease in vegetation cover. Subsequent wetter La Niña conditions in boreal winter reverse the phase in vegetation anomalies, causing a gradual 1-year-long recovery phase. The 2-year-long vegetation decline in Tanzania during an ENSO cycle can be explained as a double-integration of the local rainfall anomalies, which originate from the seasonally-modulated ENSO Pacific-SST forcing (Combination mode). In the presence of interannual TIO SST forcing, the southeast African precipitation and vegetation responses to ENSO are muted due to Indian Ocean warming and the resulting anomalous upward motion in the atmosphere.
Transportation container for pre-processing cytogenetic assays in radiation accidents
Authors: Gu Jian , Duane Brett , Repin Mikhail , Brenner David J. , Zenhausern Frederic 
Published: May 2021

AbstractWe report a shipping container that enables a disruptive logistics for cytogenetic biodosimetry for radiation countermeasures through pre-processing cell culture during transportation. The container showed precise temperature control (< 0.01 °C) with uniform sample temperature (< 0.1 °C) to meet the biodosimetry assay requirements. Using an existing insulated shipping box and long shelf life alkaline batteries makes it ideal for national stockpile. Dose curve of cytogenetic biodosimetry assay using the shipping container showed clear dose response and high linear correlation with the control dose curve using a laboratory incubator (Pearson’s correlation coefficient: 0.992). The container’s ability of pre-processing biological samples during transportation could have a significant impact on radiation countermeasure, as well as potential impacts in other applications such as biobanking, novel molecular or cell-based assays or therapies.
The plasma D-dimer trends and their value in acute lower limb ischemia patients treated by catheter directed thrombolysis
Authors: Liu Xiaochun , Xie Hailiang , Zheng Guofu , Liu Yuanfei 
Published: May 2021

AbstractTo investigate the change trends of plasma D-dimer during catheter-directed thrombolysis (CDT) in acute lower limb ischemia (ALI) patients and their clinical value. A retrospective review of patients with ALI who received CDT was carried out. The repeated measurements of plasma D-dimer were analyzed by generalized estimating equations (GEEs) and the change trends of D-dimer were analyzed by spline regression approach. A total of 150 patients were included. Among them, 3 days of CDT was ineffective in 41 cases, effective in 33 cases and markedly effective in 76 cases. The results of GEEs analysis showed that serum D-dimer changed significantly with time (time effect, P < 0.001). Serum D-dimer levels of patients with different treatment outcomes were different after treatment (group effect, P < 0.001), and serum D-dimer levels in these three groups showed different trends over time (group*time effect, P < 0.001). The different trends in serum D-dimer level with time after treatment in the three groups could be directly seen in the spline regression curve (P < 0.001). The plasma D-dimer changes regularly during CDT for ALI. We can predict the efficacy of CDT and guide adjustments of the therapeutic regimen according to the trend of D-dimer changes during thrombolysis.
Characterization of a new bifunctional endo-1,4-β-xylanase/esterase found in the rumen metagenome
Authors: Pavarina Gabriella Cavazzini , Lemos Eliana Gertrudes de Macedo , Lima Natália Sarmanho Monteiro , Pizauro João Martins 
Published: May 2021

AbstractMetagenomic data mining of the Nellore cattle rumen microbiota identified a new bifunctional enzyme, endo-1,4-β-xylanase/esterase, which was subsequently overexpressed in E. coli BL21 (DE3). This enzyme was stable at pH intervals of 5 to 6.5 and temperatures between 30 and 45 °C, and under the test conditions, it had a Vmax of 30.959 ± 2.334 µmol/min/mg, Km of 3.6 ± 0.6 mM and kcat of 2.323 ± 175 s−1. Additionally, the results showed that the enzyme is tolerant to NaCl and organic solvents and therefore is suitable for industrial environments. Xylanases are widely applicable, and the synergistic activity of endo-1,4-β-xylanase/esterase in a single molecule will improve the degradation efficiency of heteroxylans via the creation of xylanase binding sites. Therefore, this new molecule has the potential for use in lignocellulosic biomass processing and as an animal feed food additive and could improve xylooligosaccharide production efficiency.
Dual RNA-seq analysis of in vitro infection multiplicity and RNA depletion methods in Chlamydia-infected epithelial cells
Authors: Hayward Regan J. , Humphrys Michael S. , Huston Wilhelmina M. , Myers Garry S. A. 
Published: May 2021

AbstractDual RNA-seq experiments examining viral and bacterial pathogens are increasing, but vary considerably in their experimental designs, such as infection rates and RNA depletion methods. Here, we have applied dual RNA-seq to Chlamydia trachomatis infected epithelial cells to examine transcriptomic responses from both organisms. We compared two time points post infection (1 and 24 h), three multiplicity of infection (MOI) ratios (0.1, 1 and 10) and two RNA depletion methods (rRNA and polyA). Capture of bacterial-specific RNA were greatest when combining rRNA and polyA depletion, and when using a higher MOI. However, under these conditions, host RNA capture was negatively impacted. Although it is tempting to use high infection rates, the implications on host cell survival, the potential reduced length of infection cycles and real world applicability should be considered. This data highlights the delicate nature of balancing host–pathogen RNA capture and will assist future transcriptomic-based studies to achieve more specific and relevant infection-related biological insights.
The impact of surface treatment in 3-dimensional printed implants for early osseointegration: a comparison study of three different surfaces
Authors: Lee Jungwon , Lee Jun-Beom , Yun Junseob , Rhyu In-Chul , Lee Yong-Moo , Lee Sung-Mi , Lee Min-Kyu , Kim Byoungkook , Kim Pangyu , Koo Ki-Tae 
Published: May 2021

Abstract3D printing technology has been gradually applied to various areas. In the present study, 3D-printed implants were fabricated with direct metal laser sintering technique for a dental single root with titanium. The 3D implants were allocated into following groups: not treated (3D-None), sandblasted with a large grit and acid-etched (3D-SLA), and target-ion-induced plasma-sputtered surface (3D-TIPS). Two holes were drilled in each tibia of rabbit, and the three groups of implants were randomly placed with a mallet. Rabbits were sacrificed at two, four, and twelve weeks after the surgery. Histologic and histomorphometric analyses were performed for the evaluation of mineralized bone-to-implant contact (mBIC), osteoid-to-implant contact (OIC), total bone-to-implant contact (tBIC), mineralized bone area fraction occupancy (mBAFO), osteoid area fraction occupancy (OAFO), and total bone area fraction occupancy (tBAFO) in the inner and outer areas of lattice structure. At two weeks, 3D-TIPS showed significantly higher inner and outer tBIC and inner tBAFO compared with other groups. At four weeks, 3D-TIPS showed significantly higher outer OIC than 3D-SLA, but there were no significant differences in other variables. At twelve weeks, there were no significant differences. The surface treatment with TIPS in 3D-printed implants could enhance the osseointegration process in the rabbit tibia model, meaning that earlier osseointegration could be achieved.
A novel error correction protocol for continuous variable quantum key distribution
Authors: Gümüş Kadir , Eriksson Tobias A. , Takeoka Masahiro , Fujiwara Mikio , Sasaki Masahide , Schmalen Laurent , Alvarado Alex 
Published: May 2021

AbstractReconciliation is a key element of continuous-variable quantum key distribution (CV-QKD) protocols, affecting both the complexity and performance of the entire system. During the reconciliation protocol, error correction is typically performed using low-density parity-check (LDPC) codes with a single decoding attempt. In this paper, we propose a modification to a conventional reconciliation protocol used in four-state protocol CV-QKD systems called the multiple decoding attempts (MDA) protocol. MDA uses multiple decoding attempts with LDPC codes, each attempt having fewer decoding iteration than the conventional protocol. Between each decoding attempt we propose to reveal information bits, which effectively lowers the code rate. MDA is shown to outperform the conventional protocol in regards to the secret key rate (SKR). A 10% decrease in frame error rate and an 8.5% increase in SKR are reported in this paper. A simple early termination for the LDPC decoder is also proposed and implemented. With early termination, MDA has decoding complexity similar to the conventional protocol while having an improved SKR.