gebhart/patrepeval huggingface dataset:
Expression profiling in transformed human B cells: influence of Btk mutations and comparison to B cell lymphomas using filter and oligonucleotide arrays (2002)

We have used both Clontech Atlas Human Hematology/Immunology cDNA microarrays, containing 588 genes, and Affymetrix oligonucleotide U95Av2 human array complementary to more than 12,500 genes to get a global view of genes expressed in Epstein-Barr virus (EBV)-transformed B cells and genes regulated by Bruton's tyrosine kinase (Btk). We compared EBV-transformed wild-type (WT) B cells from a healthy individual, WT1 and an X-linked agammaglobulinemia (XLA) patient cell line, XLA1, using the Clontech filters arrays. Eleven genes were > or =1.9-fold induced in absence of functional Btk. Furthermore, we analyzed a second patient cell line, XLA2, and compared this to two WT cell lines using oligonucleotide arrays. A total of 391 genes were found to be differentially expressed, including kinases and transcriptions factors. Furthermore, one expressed sequence tag and eight complementary DNA clones with unknown function were down-regulated in XLA2, indicating their biological role. Higher-fold inductions, Fyn (39.5), Hck (15.5) and Cyp1B1 (5.8), were observed using oligonucleotide array and were confirmed using real-time PCR for Fyn (20.8), Hck (6.7) and Cyp1B1 (10). Two genes, B cell translocation gene1 (BTG1) and B cell-specific OCT binding factor-1 (OBF-1) were induced > or =1.9-fold in both XLA1 and XLA2 analyzed by Atlas filter arrays andAffymetrix chips, respectively. Data from both filter and oligonucleotide arrays were compared to the gene clusters of a previously published lymphoma expression profile by linking to the UniGene transcript database. Our findings demonstrate for the first time the use of microarray to study the influence of Btk mutations and the use of functional annotation and validation of expression data by comparison of microarray analyses.
A Study on the Practice of Applying Scaffolding Theory to the Teaching of Subjunctive Mood (2015)

&lt;p&gt;This study intends to apply scaffolding theory to the teaching of English subjunctive mood in senior high schools. After reviewing the researches about scaffolding theory and some studies related to English grammar teaching, the author puts forward a real lesson plan for subjunctive mood teaching, which includes the analysis of teaching material, teaching aims, teaching key point and difficult points, teaching method and the most important, teaching procedures. During the teaching procedures, the author tries to analyze every step, namely, lead-in, presentation and observation, discovery, practice, production, summary and homework, and after-class reflection, from the perspective of scaffoldings the teacher has given to students. The final finding shows that scaffolding can stimulate students’ interest in learning, and improve their ability of independent and cooperative learning. On the whole, the practice of applying scaffolding theory can be encouraged in English grammar teaching.&lt;/p&gt;
Magnetic properties of YIG (Y3Fe5O12) thin films prepared by the post annealing of amorphous films deposited by rf-magnetron sputtering (2005)

We report magnetic properties of Y3Fe5O12 (YIG) films on thermally oxidized Si (100) and (Gd3Ga5O12) GGG (111) substrates. Amorphous YIG films with the cation ratio Y:Fe=3.04:4.96, deposited by rf-magnetron sputtering at room temperature in pure argon atmosphere, were crystallized by postannealing (600–900 °C) of amorphous films in air and in 500 ppm oxygen. While postannealed YIG films on GGG substrates were well textured, those on Si (100) were randomly oriented. High-quality YIG films could be better obtained in the reduced (500 ppm O2) oxygen atmosphere than air since more effective YIG growth during annealing process and lower FMR linewidth (ΔH) of films could be achieved.
Publisher Correction: A human monoclonal antibody blocking SARS-CoV-2 infection (2020)

An amendment to this paper has been published and can be accessed via a link at the top of the paper.
Synergistic Prevention of Biofouling in Seawater Desalination by Zwitterionic Surfaces and Low-Level Chlorination (2013)

Smooth, durable, ultrathin antifouling layers are deposited onto commercial reverse osmosis membranes without damaging them and they exhibit a fouling reduction. A new synergistic approach to antifouling, by coupling surface modification and drinking-water-level chlorination is enabled by the films' unique resistance against chlorine degradation. This approach substantially enhances longer-term fouling resistance compared with surface modification or chlorination alone, and can reduce freshwater production cost and its collateral toxicity to marine biota.
GATA-6 is required for maturation of the lung in late gestation (2002)

GATA-6, a member of the GATA family of zinc finger proteins, is the only family member known to be expressed in the epithelial cells of the developing airway epithelium. To determine the role of GATA-6 in lung morphogenesis, a chimeric fusion protein containing GATA-6 and the strong transcriptional inhibitor, engrailed, was conditionally expressed in mice under control of a doxycycline-inducible transgene. Expression of GATA-6-engrailed was initiated at embryonic day (E) 6-7 by treatment of the dam with doxycycline. Although branching morphogenesis of the proximal airways proceeded normally to E16.5, maturation of terminal airways and alveoli that normally occurs before birth was inhibited. At E17.5-18.5, aquaporin-5 mRNA and type I cell marker-alpha staining, both markers of type I cells, were decreased. Homogeneous distribution of the thyroid transcription factor-1, decreased expression of surfactant proteins, delayed thinning of the walls of the peripheral airways, and lack of squamous differentiation of epithelial cells were observed in the lung periphery after expression of GATA-6-engrailed. Activity of GATA-6 is required for maturation of the gas exchange area before birth.
Optimization of Mechanochemical Processes Toward Functional Nanocomposite Materials (2023)

Mechanochemical technology is developing rapidly, judging by the scientific information in both basic and applied studies. However, many issues and points of view remain to be discussed. This review presents some new key issues for the optimization of mechanochemical processes in theoretical and practical aspects. Emphasis is placed on powder technology aspects, which are not always discussed compared to functional or microscopic viewpoints. The transfer of chemical species across the interparticle interface between organic and inorganic species during the mechanosynthesis of nanocomposite oxides offers many new possibilities, which are discussed here in detail. Since all material transport is preceded by charge transfer, its driving force has been searched for using terminology beyond the well-established electrochemical ones. The role of organic compounds during the whole process is emphasized, regardless of their survival in the final product. The similarity with the pharmaceutical phenomena is pointed out, although its mentality is very different from that of the synthesis of nanocomposites. Not only for the rational amorphization of the active pharmaceutical ingredient, but also for the stabilization of molecular dispersion states with the participation of excipients are discussed. The effects of liquids, either added or formed by mechanochemical auto-liquefaction, are presented with reference to the comparison between wet and dry grinding. Finally, mechanisms of apparent stabilization of mechanically activated states of products are elucidated to investigate the practical applicability of mechanochemically synthesized products
Figure S1 from Delta-Like Ligand–Notch1 Signaling Is Selectively Modulated by HPV16 E6 to Promote Squamous Cell Proliferation and Correlates with Cervical Cancer Prognosis (2023)

&lt;p&gt;Levels of DLL1, DLL4, N1ICD and KRT10 in cervical tissue and/or NIKS.&lt;/p&gt;
Jointly Learning Author and Annotated Character N-gram Embeddings: A Case Study in Literary Text (2019)

An author's way of presenting a story through his/her writing style has a great impact on whether the story will be liked by readers or not. In this paper, we learn representations for authors of literary texts together with representations for character n-grams annotated with their functional roles. We train a neural character ngram based language model using an external corpus of literary texts and transfer learned representations for use in downstream tasks. We show that augmenting the knowledge from external works of authors produces results competitive with other style-based methods for book likability prediction, genre classification, and authorship attribution.
Flow cytogenetics methodology and applications (1982)

Flow cytogenetics is a rapidly developing technology which complements rather than supplants the traditional methods of cytogenetic analysis. As an adjunctive approach to chromosome classification, flow systems measurements of isolated chromosomes give new information relative to the enrichment of A-T or G-C base sequences on specific chromosomes. As a result, chromosomal fluorescence polymorphisms both within and among individuals that are not always associated with banding polymorphisms can be detected. Finally, flow sorting provides bulk quantities of highly purified chromosomes for use in biochemical studies. Methodology is detailed. (PSB)
Near-infrared transmittance enhancement using fully conformal antireflective structured surfaces on microlenses fabricated by direct laser writing (2019)

Structured surfaces composed of subwavelength-sized features offer multifunctional properties including antireflective characteristics that are increasingly important for the development of micro-optical components. Here, three-dimensional (3-D) direct laser writing, via two-photon polymerization, is used to fabricate planoconvex spherical microlenses with antireflective structured surfaces. The surfaces are composed of subwavelength-sized conicoid structures, which are arranged fully conformal to the convex surface of the microlenses. The dimensions of the conicoid structures are optimized to effectively reduce Fresnel reflection loss over a wide band in the near-infrared spectral range from 1.4 to 2.2 μm, with a maximum reduction at 1.55 μm. Infrared reflection and transmission measurements are used, in combination with 3-D finite element calculations, to investigate the performance of the microlenses. The experimental results reveal that in the spectral range from 1.4 to 2.2 μm an effective suppression of the Fresnel reflection loss at the convex surface of spherical microlenses can be achieved. The transmittance enhancement is ranging from 1% to 3% for spherical microlenses with antireflective structured surfaces, in comparison to an uncoated reference.
The Solution Conformational Features of Two Highly Homologous Antigenic Peptides of Foot‐and‐mouth Disease Virus Serotype A, Variants A and USA, Correlate with their Serological Properties (1996)

The solution structure of a peptide corresponding to the VP1 region 141-160 of foot-and-mouth disease virus (FMDV) serotype A variant USA has been studied by NMR and computer calculations and compared with the results from a study on a highly homologous peptide deriving from serotype A, variant A. The two peptides differ in their serological behavior and contain the immunodominant epitope of the virus which partly overlaps with its receptor binding region. Distance constraints, derived both from 2D and 3D homonuclear NMR and 2D-heteronuclear NMR experiments, were combined with DG calculations to yield 50 structures. After refinement through EM and restrained molecular dynamics simulations the selected structures shared several general features. In particular the 151-158 region was a helix in all cases while a large loop similar to that found in peptide A but comprising less residues and stabilized by an H-bond between the side chains of D147 and S150 was found in the majority of structures. A further loop, common to all structures, was identified around the RGD sequence (145-147). This was different from that found in the corresponding region of peptide A as were the conformations of the individual residues within the RGDX sequence. The different structural features shown by the two peptides were rationalized in terms of the S148 (peptide A) to F148 (peptide USA) mutation. The second mutation, that at position 153 (L in A, P in USA) did not appear to affect the structure of the peptide significantly although the different dimensions of the loop in the central region and the type of H-bond stabilizing it could be potentially ascribed to this second mutation. All criteria used pointed to different structural features for the two peptides consistent with their serological behaviour.
48.2: Ultra Thin IPS‐Pro LCD‐TVs Using Simple Side‐Edge Backlight with RGB‐LED and Novel Heat Radiation Structure (2009)

Abstract A 37‐inch LCD‐TV monitor with a thickness of 15.1 mm at the thinnest part has been developed. Light sources were RGB‐LED ones located at the side edge of the light guide. Light sources mounted close together directly on ceramic substrate led to improved color uniformity of backlight. Furthermore, light use was more efficient because light sources were cooled by a new radiation structure.
Maya: Falsifying Power Sidechannels with Dynamic Control (2019)

The security of computers is at risk because of information leaking through physical outputs such as power, temperature, or electromagnetic (EM) emissions. Attackers can use advanced signal measurement and analysis to recover sensitive data from these sidechannels. To address this problem, this paper presents Maya, a simple and effective solution against power side-channels. The idea is to re-shape the power dissipated by an application in an application-transparent manner using control theory techniques - preventing attackers from learning any information. With control theory, a controller can reliably keep power close to a desired target value even when runtime conditions change unpredictably. Then, by changing these targets intelligently, power can be made to appear in any desired form, appearing to carry activity information which, in reality, is unrelated to the application. Maya can be implemented in privileged software or in simple hardware. In this paper, we implement Maya on two multiprocessor machines using Operating System (OS) threads, and show its effectiveness and ease of deployment.
In Vitro Evaluation of a Series of N-Dodecanoyl-l-Amino Acid Methyl Esters as Dermal Penetration Enhancers (1996)

A series of N-dodecanoyl-L-amino acid methyl esters (1-10) and n-pentyl N-acetylprolinate (11) were evaluated for dermal enhancement properties using an in vitro diffusion cell technique. Methods of synthesis of these compounds were described. Enhancers were applied 1 h prior to drug treatment. Hydrocortisone was used as the model drug and was applied to excised hairless mouse skin as a saturated suspension in propylene glycol. Enhancement ratios (ER) were determined for permeability coefficient, 24 h diffusion cell receptor concentration (Q24), and 24 h full-thickness skin steroid content. Controls received no enhancer pretreatment of the skin. N-Dodecanoyl-L-proline (10) showed the highest Q24 value for total steroid (ER 13.7) while N-dodecanoyl-L-phenylalanine (5) showed the highest total steroid skin retention (ER 16.5).
Radio Network Planning (2010)

This chapter presents Wideband Code Division Multiple Access (WCDMA) radio network planning, including dimensioning, detailed capacity and coverage planning, and network optimization. It presents detailed capacity and coverage planning, together with a WCDMA planning tool. Capacity and coverage can be analysed for each cell after the detailed planning. The chapter presents one case study of the detailed planning. As most WCDMA-based networks will be deployed on top of the Global System for Mobile Communications (GSM) network, the GSM co-planning issues need to be considered. The adjacent channel interference must be considered in designing any wideband systems where large guard bands are not possible. The chapter presents the effect of interference between operators is analysed and network planning solutions. It presents the WCDMA frequency variants and their differences. These frequency variants are needed in the first place to deploy WCDMA in the USA. Controlled Vocabulary Terms GSM; multiaccess communication; radio networks
Simulating Hemiparetic Gait in Healthy Subjects Using TPAD With a Closed-Loop Controller (2019)

Hemiparetic gait is abnormal asymmetric walking, often observed among patients with cerebral palsy or stroke. One of the major features of asymmetric gait is excessive reliance on the healthy leg, which results in improper load shift, slow walking speed, higher metabolic cost, and weakness of the unused leg. Hence, clinically it is desirable to promote gait symmetry to improve walking. While there are no clear methods to achieve this goal, we are exploring new methods where we guide the pelvis to change the gait symmetry. This controller is designed to mimic the hands of a physical therapist holding the pelvis and guiding it to promote the usage of both legs during walking. In this paper, we show that the essence of this method can be demonstrated by promoting asymmetry in the gait of healthy subjects when walking with the device. The results showed that their kinematics and kinetics changed asymmetrically during the intervention. Subjects demonstrated asymmetric lateral ground reaction force to compensate for the lateral forces applied on the pelvis. Muscle activities increased on the targeted leg show the forced use of the leg which can be used for rehabilitation of patients with an asymmetric gait.
Efficient in planta production of amidated antimicrobial peptides that are active against drug-resistant ESKAPE pathogens (2023)

Antimicrobial peptides (AMPs) are promising next-generation antibiotics that can be used to combat drug-resistant pathogens. However, the high cost involved in AMP synthesis and their short plasma half-life render their clinical translation a challenge. To address these shortcomings, we report efficient production of bioactive amidated AMPs by transient expression of glycine-extended AMPs in Nicotiana benthamiana line expressing the mammalian enzyme peptidylglycine α-amidating mono-oxygenase (PAM). Cationic AMPs accumulate to substantial levels in PAM transgenic plants compare to nontransgenic N. benthamiana. Moreover, AMPs purified from plants exhibit robust killing activity against six highly virulent and antibiotic resistant ESKAPE pathogens, prevent their biofilm formation, analogous to their synthetic counterparts and synergize with antibiotics. We also perform a base case techno-economic analysis of our platform, demonstrating the potential economic advantages and scalability for industrial use. Taken together, our experimental data and techno-economic analysis demonstrate the potential use of plant chassis for large-scale production of clinical-grade AMPs.
Acetaminophen poisonings hospitalized at the Pomeranian Center of Toxicology in 2010−2015 (2019)

There was a significant increase in the number of acetaminophen overdose cases hospitalized at the Pomeranian Center of Toxicology in 2010-2015. The share of acetaminophen overdoses was significantly higher in the group aged < 18 years than in the adult group. In both age groups, acetaminophen overdose was more frequent in women. Med Pr. 2019;70(6):733-8.
The susceptibility of primary cultured rhesus macaque kidney epithelial cells to rhesus cytomegalovirus strains (2016)

Kidney epithelial cells are common targets for human and rhesus cytomegalovirus (HCMV and RhCMV) in vivo, and represent an important reservoir for long-term CMV shedding in urine. To better understand the role of kidney epithelial cells in primate CMV natural history, primary cultures of rhesus macaque kidney epithelial cells (MKE) were established and tested for infectivity by five RhCMV strains, including two wild-type strains (UCD52 and UCD59) and three strains containing different coding contents in UL/b'. The latter strains included 180.92 [containing an intact RhUL128-RhUL130-R hUL131 (RhUL128L) locus but deleted for the UL/b' RhUL148-rh167-loci], 68-1 (RhUL128L-defective and fibroblast-tropic) and BRh68-1.2 (the RhUL128L-repaired version of 68-1). As demonstrated by RhCMV cytopathic effect, plaque formation, growth kinetics and early virus entry, we showed that MKE were differentially susceptible to RhCMV infection, related to UL/b' coding contents of the different strains. UCD52 and UCD59 replicated vigorously in MKE, 68-1 replicated poorly, and 180.92 grew with intermediate kinetics. Reconstitution of RhUL128L in 68-1 (BRh68-1.2) restored its replication efficiency in MKE as compared to UCD52 and UCD59, consistent with the essential role of UL128L for HCMV epithelial tropism. Further analysis revealed that the UL/b' UL148-rh167-loci deletion in 180.92 impaired RhUL132 (rh160) expression. Given that 180.92 retains an intact RhUL128L, but genetically or functionally lacks genes from RhUL132 (rh160) to rh167 in UL/b', its attenuated infection efficiency indicated that, along with RhUL128L, an additional protein(s) encoded within the UL/b' RhUL132 (rh160)-rh167 region (potentially, RhUL132 and/or RhUL148) is indispensable for efficient replication in MKE.
Drone proximity detection via air disturbance analysis (2020)

The use of unmanned aerial vehicles (drones) is expanding to commercial, scientific, and agriculture applications, including surveillance, product deliveries and aerial photography. One challenge for applications of drones is detecting obstacles and avoiding collisions. A typical solution to this issue is the use of camera sensors or ultrasonic sensors for obstacle detection or sometimes just manual control (teleoperation). However, these solutions have costs in battery lifetime, payload, operator skill. We note that there will be an air disturbance in the vicinity of the drone when it’s moving close to obstacles or other drones. Our objective is to detect obstacles from monitoring the aforementioned air disturbance, by analyzing the data from the drone’s gyroscope and accelerometer. Results from three experiments using the Crazyflie 2 micro drone are reported here. We show that it is possible to reliably detect when a drone is passing under another using by using data mining algorithms to recognize the air disturbance caused by the other drone.
FDD Massive MIMO Downlink Channel Estimation via Selective Sparse Coding over AoA/AoD Cluster Dictionaries (2018)

Sparse coding over a redundant dictionary has recently been used as a framework for downlink channel estimation in frequency division duplex massive multiple-input multiple-output antenna systems. This usage allows for efficiently reducing the inherently high training and feedback overheads. We present an algorithm for downlink channel estimation via selective sparse coding over multiple cluster dictionaries. A channel training set is divided into clusters based on the angle of the arrival/departure of the majority physical subpaths corresponding to each channel tap. Then, a compact dictionary is trained in each cluster. Channel estimation is done by first identifying the channel cluster and then using its dictionary for reconstruction. This selective sparse coding allows for adaptive regularization via sparse model selection, thereby offering additional regularization to the ill-posed channel estimation problem. We empirically validate the selectivity of the cluster dictionaries. Simulation results show the advantage of the proposed algorithm in achieving better estimation quality at lower computational cost, as compared the case of using standard sparse coding.