bluuebunny/crossref_metadata_2025_split huggingface dataset:
Expression Biomarkers of Pharmacological Treatment Outcomes in Women with Unipolar and Bipolar Depression
Authors: Dmitrzak-Weglarz Monika , Szczepankiewicz Aleksandra , Rybakowski Janusz , Kapelski Paweł , Bilska Karolina , Skibinska Maria , Reszka Edyta , Lesicka Monika , Jablonska Ewa , Wieczorek Edyta , Pawlak Joanna 
Published: September 2021

Abstract
Introduction This study aimed to find the expression biomarkers of pharmacological treatment response in a naturalistic hospital setting. Through gene expression profiling, we were able to find differentially-expressed genes (DEGs) in unipolar (UD) and bipolar (BD) depressed women.
Methods We performed gene expression profiling in hospitalized women with unipolar (n=24) and bipolar depression (n=32) who achieved clinical improvement after pharmacological treatment (without any restriction). To identify DEGs in peripheral blood mononuclear cells (PBMCs), we used the SurePrint G3 Microarray and GeneSpring software.
Results After pharmacological treatment, UD and BD varied in the number of regulated genes and ontological pathways. Also, the pathways of neurogenesis and synaptic transmission were significantly up-regulated. Our research focused on DEGs with a minimum fold change (FC) of more than 2. For both types of depression, 2 up-regulated genes, OPRM1 and CELF4 (p=0.013), were significantly associated with treatment response (defined as a 50% reduction on the Hamilton Depression Rating Scale [HDRS]). We also uncovered the SHANK3 (p=0.001) gene that is unique for UD and found that the RASGRF1 (p=0.010) gene may be a potential specific biomarker of treatment response for BD.
Conclusion Based on transcriptomic profiling, we identified potential expression biomarkers of treatment outcomes for UD and BD. We also proved that the Ras-GEF pathway associated with long-term memory, female stress response, and treatment response modulation in animal studies impacts treatment efficacy in patients with BD. Further studies focused on the outlined genes may help provide predictive markers of treatment outcomes in UD and BD.
Left Paraduodenal Hernia Presenting as Closed Loop Jejunal Obstruction in a Young Female: An Enigmatic and Perilous Differential of Acute Abdomen
Authors: Rajput Deepak , Rai Ankit , Gupta Amit , Chezhian Subramanian , Kumar Shashank , Kundal Ashikesh 
Published: September 2021

AbstractInternal hernia is a rare cause of intestinal obstruction, accounting for <2% of cases with paraduodenal type being the most common. An internal hernia, mostly acquired, develops due to protuberance of the intestine through a gap in the peritoneum or mesentery formed as a result of an antecedent abdominal operation such as gastric bypass or liver transplant, ischemic injury, peritonitis, or trauma. Paraduodenal hernias (PDHs) are congenital anomalies, secondary to a failed fusion of mesentery with parietal peritoneum along with rotational midgut errors, causing the evolution of potential space for herniation within the left paraduodenal fossa. Primary internal hernias can have a varied clinical presentation and cause significant mortality and morbidity if left untreated. We report the case of a 20-year-old female with chronic pain in abdomen and intestinal obstruction due to left PDH (LPDH). The prompt diagnosis led to timely exploration and reduction of entrapped jejunum, with prudent closure of the hiatus, while circumventing any injury to the adjacent mesenteric circulation. No postoperative ileus arose, and recovery was uneventful.
Software-based Detection of Acute Rejection Changes in Face Transplant
Authors: Dorante Miguel I. , Kollar Branislav , Bittner Marian , Wang Alice , Diehm Yannick , Foroutanjazi Sina , Parikh Neil , Haug Valentin , den Uyl Tim M. , Pomahac Bohdan 
Published: September 2021

AbstractBackground An objective, non-invasive method for redness detection during acute allograft rejection in face transplantation (FT) is lacking.Methods A retrospective cohort study was performed with 688 images of 7 patients with face transplant (range, 1 to 108 months post-transplant). Healthy controls were matched to donor age, sex, and had no prior facial procedures. Rejection state was confirmed via tissue biopsy. An image-analysis software developed alongside VicarVision (Amsterdam, Netherlands) was used to produce R, a measure of differences between detectable color and absolute red. R is inversely proportional to redness, where lower R values correspond to increased redness. Linear mixed models were used to study fixed effect of rejection state on R values. Estimated marginal means of fitted models were calculated for pairwise comparisons.Results Of 688 images, 175, 170, 202, and 141 images were attributable to Banff Grade 0,1,2, and 3, respectively. Estimated change in R value of facial allografts decreased with increasing Banff Grade (p = 0.0001). The mean R value of clinical rejection (Banff Grade ⅔) (16.67, 95% Confidence Interval [CI] 14.79–18.58) was lower (p = 0.005) than non-rejection (Banff Grade 0/1) (19.38, 95%CI 17.43–21.33). Both clinical and non-rejection mean R values were lower (p = 0.0001) than healthy controls (24.12, 95%CI 20.96–27.28).Conclusion This proof-of-concept study demonstrates that software-based analysis can detect and monitor acute rejection changes in FT. Future studies should expand on this tool's potential application in telehealth and as a screening tool for allograft rejection.
Traumatic Brachial Plexus Injury in Indonesia: An Experience from a Developing Country
Authors: Suroto Heri , Antoni Irene , Siyo Angelina , Steendam Tawatha C. , Prajasari Tabita , Mulyono Herlambang Budi , De Vega Brigita 
Published: September 2021

Abstract
Background Brachial plexus injuries (BPI) cause severe physical disability and major psycho-socioeconomic burden. Although various countries have reported BPI incidence, the data from Indonesia as the fourth most populated country in the world remains unknown. We aim to assess the distribution of traumatic BPI, patients' characteristics, and treatment modalities in Indonesia.
Methods A retrospective investigation was performed comprising 491 BPI patients at a tertiary referral hospital in Indonesia from January 2003 to October 2019. Demographic and outcomes data were retrieved from medical records.
Results The average BPI patients' age was 27.3 ± 11.6 years old, with a male/female ratio of 4.6:1. Motorcycle accidents caused the majority (76.1%) of all BPI cases. Concomitant injuries were present in 62.3% of patients, dominated by fractures (57.1%) and brain injuries (25.4%). BPI lesion type was classified into complete (C5-T1, observed in 70% patients), upper (C5-C6, in 15% patients), extended upper (C5-C7, in 14% patients), and lower type (C8-T1, in 1% patients). The average time to surgery was 16.8 months (range 1–120 months), with the majority (76.6%) of the patients was operated on six months after the trauma. Free functional muscle transfer (FFMT) was the most common procedure performed (37%). We also analyzed the functional outcomes (active range of motion (AROM) and muscle power), DASH (Disabilities of the Arm, Shoulder, and Hand) score, and VAS (Visual Analogue Scale) across four most frequent procedures involving nerve reconstruction (FFMT, nerve transfer, external neurolysis, and nerve grafting). We found that FFMT was significantly better than nerve transfer in terms of DASH score and VAS (p = 0.000 and p = 0.016, respectively) in complete BPI (C5-T1). Moreover, we also found that nerve grafting resulted in a significantly better shoulder abduction AROM than nerve transfer and external neurolysis in extended upper BPI (C5-C7) (p = 0.033 and p = 0.033, respectively). Interestingly, no significant differences were observed in other measurements.
Conclusion This study provides an overview of traumatic BPI patients in a single tertiary trauma center in Indonesia, expressing the profile of their characteristics and functional outcomes after surgical procedures.
Existence of least energy positive and nodal solutions for a quasilinear Schrödinger problem with potentials vanishing at infinity
Authors: Figueiredo Giovany , Neto Sandra Moreira , Ruviaro Ricardo 
Published: September 2021

In this paper, we prove the existence of at least two nontrivial solutions for a class of quasilinear problems with two non-negative and continuous potentials. Thanks to the geometries of these potentials, we are able to prove compact embeddings in some weighted Sobolev spaces, and by a minimization argument, we find a positive and a nodal (or sign-changing) (weak) solution with two nodal domains or that changes the sign exactly once in RN for such problems. The nonlinearity in this problem satisfies suitable growth and monotonicity conditions, which allow this result to complement the classical results due to Liu, Wang, and Wang [Commun. Partial Differ. Equations 29, 879–901 (2004)].
High-reliability, high-melting, lead-free, mixed solder paste System—BiAgXⓇ
Authors: Zhang HongWen , Lee Ning-Cheng 
Published: September 2021

BiAgX®, a mixed solder powder paste composed of a primary high-melting solder powder and an additive low-melting solder powder, exhibited a melting temperature above 260 °C and was comparable to, or even better than, the reliability of high-lead solders. The additive solder is designed to react preferentially with various surface metallizations and form a controllable intermetallic layer. Inside the joints, sub-micron AgSn particles are dispersed surrounding Bi colonies, which constrain the dislocation movement, thus enhancing strength, ductility, and associated joint reliability.
Strain hardening in molecular crystal cyclotetramethylene-tetranitramine (β-HMX): a theoretical evaluation
Authors: Khan Mohammad , Picu Catalin R 
Published: September 2021

Abstract
The molecular crystal cyclotetramethylene-tetranitramine (β-HMX) is a broadly used energetic material. Its plastic deformation is important when describing the detonation behavior. This work aims to clarify the importance of strain hardening for the plastic deformation of this crystal. To this end, we use a line tension model to evaluate the strength of junctions formed by dislocations moving in different slip systems. We evaluate analytically the contribution to the flow stress of repulsive interactions between dislocations. Further, we test using atomistic models and confirm the conjecture that neutral core–core interactions of crossing dislocations do not contribute to the flow stress. This information is used to define the hardening matrix which can be further used in continuum crystal plasticity models. We conclude that strain hardening is weak at all realistic dislocation densities, and leads to a modest increase of the flow stress above the critical resolved shear stress corresponding to the vanishing dislocation density limit. A procedure is provided which allows extrapolating these results from ambient conditions to pressures and temperatures relevant for shock loading.
Hybridization three subbands at Dirac point in special designed strained HgTe thin films with structural inversion asymmetry
Authors: Marchewka M , Ruszała M , Krzemiński P 
Published: September 2021

Abstract
We study specially designed strained thin HgTe layers with structural inversion asymmetry (SIA) which allow us to distinguish the topological surface states (TSS) typical for a two dimensional (2D) quantum well system in a subband state. To obtain such a dispersion relation on the basis of the eight-band kp model, the theoretical investigation calculations of thin (below 25 nm wide) HgTe strained films with SIA are investigated. The numerical band-gap engineering and dispersion relation allow us to obtain a new class of materials that are characterized by a Dirac-like dispersion and hybridization of the three different charges describing two TSS and one quantum well subband at Γ-point (zero gap). This opens up many possibilities from the applications point of view. An external electric field removed this degeneration and opened a band gap between Γ6,

Γ

8

l
h

(lh—light hole) and

Γ

8

h
h

(hh—heavy hole) subbands characteristic for TSS and the subband characteristic for the 2D quantum well state, respectively. The width of the band gap as a function of the external electric field is also considered. Due to consideration being given to the possible applications, analysis of the dispersion relation and Landau levels (LL) energy shape with SIA is also investigated. The possibility of tuning a band gap is promising from the point of view of, for example, THz detectors and emitters. What is very important, the proposed structures allow the avoidance of the coexistence of TSS with bulk states, as very often occurs in so-called 3D strained HgTe-like materials. Analysis of the wave function as a function of the width of the investigated structure as well as the external electric field is also presented. Due to the strong correlation between both states (2D and TSS), and their very well known properties, we expect that such HgTe films can be used as optical active layers in the THz region.
Designing arbitrary single-axis rotations robust against perpendicular time-dependent noise
Authors: Li Bikun , Calderon-Vargas Fernando A. , Zeng Junkai , Barnes Edwin 
Published: September 2021

Abstract
Low-frequency time-dependent noise is one of the main obstacles on the road toward a fully scalable quantum computer. The majority of solid-state qubit platforms, from superconducting circuits to spins in semiconductors, are greatly affected by 1/f noise. Among the different control techniques used to counteract noise effects on the system, dynamical decoupling sequences are one of the most effective. However, most dynamical decoupling sequences require unbounded and instantaneous pulses, which are unphysical and can only implement identity operations. Among methods that do restrict to bounded control fields, there remains a need for protocols that implement arbitrary gates with lab-ready control fields. In this work, we introduce a protocol to design bounded and continuous control fields that implement arbitrary single-axis rotations while shielding the system from low-frequency time-dependent noise perpendicular to the control axis. We show the versatility of our method by presenting a set of non-negative-only control pulses that are immediately applicable to quantum systems with constrained control, such as singlet-triplet spin qubits. Finally, we demonstrate the robustness of our control pulses against classical 1/f noise and noise modeled with a random quantum bath, showing that our pulses can even outperform ideal dynamical decoupling sequences.
Hydrological modelling of Air Bengkulu river watershed in Indonesia using SUH and HEC-HMS models
Authors: Gunawan G 
Published: September 2021

Abstract
The purpose of this research is to develop a synthetic unit hydrograph model to determine the most suitable model for predicting peak discharge in the Air Bengkulu Watershed. Rainfall data were obtained from the Bengkulu Province Meteorology, Climatology, Geophysics Agency, from 2000 to 2019 year. The Synthetic Unit Hydrograph (SUH) method used to estimate the discharge in the Air Bengkulu River Watershed is the synthetic unit hydrograph, namely Snyder, ITB-1 and ITB-2, in addition to that also used HEC-HMS software. The estimation results of peak discharge and peak time for each type of hydrograph in the Air Bengkulu watershed are: Peak Discharge of Snyder 1,302.76 m3 / s with Peak Time 6,596 hours, Peak Discharge of ITB-1 2,395.50 m3 / s with Peak Time of 4,705 hours, Peak Discharge of ITB-2 2,165.857 m3 / s with Peak Time of 6,341 hours. It can be concluded that the synthetic unit hydrograph has been able to estimate the peak discharge based on the time sequence of a rain event, so there is a relationship between peak time and peak discharge. The peak and peak times obtained from the output of each method are different, so more in-depth research is needed if this model is to be used as a basis for decision making.
Distributed robust adaptive output-feedback synchronization
Authors: Rosa M R , Susanto E 
Published: September 2021

Abstract
This paper addresses the output synchronization of heterogeneous uncertain linear systems in the presence of input disturbance. The synchronization problem is solved by introducing the distributed model reference adaptive control. The distinguishing features of the proposed approach are the capability to synchronize the entire network output by using only the control input and the output of neighbouring systems. It also provides synchronization in the presence of bounded control input disturbance. The control input disturbance is handled by extending the proposed method with the sigma-modification. By using the distributed matching condition assumptions, the coupling gains between the agents can be updated adaptively. The distributed robust adaptive controller is first analysed by using the distributed Lyapunov function. Its effectiveness is validated in the simulation of the cart inverted pendulum systems stabilization problem.
High altitude long endurance of unmanned aerial vehicle (UAV) ITB solar panel conceptual design
Authors: Moelyadi M A , Sulthoni M A , Zulkarnain M F , Akbar M F , Assakandari B K 
Published: September 2021

Abstract
One of the factors for the long endurance of high altitude long endurance (HALE) of an unmanned aerial vehicle (UAV) that belong to Institut Teknologi Bandung, Indonesia or called as HALE UAV ITB is the design of battery and solar panel. This paper discusses the method to calculate battery and solar panel requirements for HALE UAV ITB to fly for more than 24 hours at 20.000 feet. Several designs, configuration, and type of solar panels are analysed to fulfil HALE UAV ITB requirements. The variable compared is solar panel area, weight, and types. As a result, the use of Monocrystalline Silicone solar cell was found to be much more efficient than Polycrystalline Silicon, CIGS Thin Film, and Amorphous Silicon Thin Film with power generated per area of 224 Watt/m2 and power per weight of 436 Watt/kg. The minimum area required for a Monocrystalline Silicone type solar cell to generate power is 5.94 m2 with a total cell weight of 5.31 kg.
Sensitivity study and structural optimization of an aircraft wing in the maximum-stress and flutter constraints
Authors: Kusni M , Widiramdhani M , Hadi B K 
Published: September 2021

Abstract
Optimization process is very important to be done since the preliminary design step, not only for the static load aspect but also dynamic load as well. In the past, aeroelastic behavior aspect is often neglected in this stage and consequently becomes a problem at the later stage of design. This paper contains multi-constraints design sensitivity and optimization which include both maximum stress constraint and damping flutter constraint. Sensitivity study was performed to assist optimization process and makes the process more efficient. Wing structure was modeled as skins, ribs, spar-webs, and spar-caps. Optimization process was done by changing thickness of each component and beam dimension. The methodology used in this paper is a gradient-based optimization developed by MSC Nastran. The final cycle of this optimization has successfully reduced structural weight up to 33% without violating static and flutter constraint.
Numerical simulation on the permeability of non-crimp Carbon fiber epoxy using out-of-autoclave manufacturing method
Authors: Levino A , Hadi B K , Kuswoyo A 
Published: September 2021

Abstract
Composites made using Resin Transfer Molding (RTM) processes have attractive properties to the aerospace and automotive industries because they can produce complex composite parts with good surface finishing. However, it still has a problem filling a large part with high fiber content at low injection pressure. Therefore, during the experiment, resin flow has to be the primary concern. This work presents a resin flow simulation of two types of mold where it will visualize the manufacturing process without actually doing it. Numerical simulation for the RTM manufacturing process is attempted by using Fluent-Ansys. It allows us to simulate the resin flow through the porous medium and obtain the total mold filling time and volumetric flow rate. It will lead to an explanation of the strength of the composite produced. Several assumptions and techniques are used to simplify the problem. Some variables, such as porosity and pressure injection, will be varied to see the effect of those variables on the RTM manufacturing process. According to the simulation result, porosity and pressure injection affect the RTM manufacturing process, especially for resin filling time and volumetric flow rate. The increase of porosity will increase the flow time, while pressure injection will decrease the flow. It happens due to how easy the resin flows through the porous medium, and the total area needs to be filled by the resin. This work is validated by comparing the obtained results with analytic solutions for a specific mold of Darcy’s law.
Custom workflows to improve joint variant calling from multiple related tumour samples: FreeBayesSomatic and Strelka2Pass
Authors: Hollizeck S , Wong S Q , Solomon B , Chandrananda D , Dawson S-J 
Published: September 2021

Abstract

Summary
This work describes two novel workflows for variant calling that extend the widely used algorithms of Strelka2 and FreeBayes to call somatic mutations from multiple related tumour samples and one matched normal sample. We show that these workflows offer higher precision and recall than their single tumour-normal pair equivalents in both simulated and clinical sequencing data.

Availability and implementation
Source code freely available at the following link: https://atlassian.petermac.org.au/bitbucket/projects/DAW/repos/multisamplevariantcalling and executable through Janis (https://github.com/PMCC-BioinformaticsCore/janis) under the GPLv3 licence.

Supplementary information
Supplementary data are available at Bioinformatics online.
Healthcare Personnel (HCP) Attitudes About Coronavirus Disease 2019 (COVID-19) Vaccination After Emergency Use Authorization
Authors: Shaw Jana , Hanley Samantha , Stewart Telisa , Salmon Daniel A , Ortiz Christine , Trief Paula M , Asiago Reddy Elizabeth , Morley Christopher P , Thomas Stephen J , Anderson Kathryn B 
Published: September 2021

Abstract

Background
We previously reported on coronavirus disease 2019 (COVID-19) vaccination intent among healthcare personnel (HCP) before emergency use authorization. We found widespread hesitancy and a substantial proportion of HCP did not intend to vaccinate.

Methods
We conducted a cross-sectional survey of HCP, including clinical and nonclinical staff, researchers, and trainees between 21 February and 19 March 2021. The survey evaluated vaccine attitudes, beliefs, intent, and acceptance.

Results
Overall, 3981 (87.7%) of respondents had already received a COVID-19 vaccine or planned to get vaccinated. There were significant differences in vaccine acceptance by gender, age, race, and hospital role. Males (93.7%) were more likely than females (89.8%) to report vaccine acceptance (P &lt; .001). Mean age was higher among those reporting vaccine acceptance (P &lt; .001). Physicians and scientists showed the highest acceptance rate (97.3%), whereas staff in ancillary services showed the lowest acceptance rate (79.9%). Unvaccinated respondents were more likely to be females, to have refused vaccines in the past due to reasons other than illness or allergy, to care for COVID-19 patients, or to rely on themselves when making vaccination decision. Vaccine acceptance was more than twice previous intent among Black respondents, an increase from 30.8% to 73.8%, and across all hospital roles with all &gt; 80% vaccine acceptance.

Conclusions
The majority of HCP were vaccinated, much higher than reporting intent before vaccine was available. However, many HCP—particularly ancillary services—are still hesitant. Feasible and effective interventions to address the hesitant, including individually-tailored education strategies are needed, or vaccine can be mandated.