gebhart/patrepeval huggingface dataset:
Structural and functional analyses of biosimilar enoxaparins available in Brazil (2014)

Biosimilar enoxaparins have been available for clinical use in Brazil since 2009. Although their use has reduced costs of treatment expenses, their implementation still raises some concerns about efficiency, safety, regularity and reproducibility of batches. We undertook structural and functional analyses on over 90 batches of pharmaceutical-active ingredient, and 330 ones of the final products of biosimilar enoxaparins available in the Brazilian market between 2009 and 2014. Besides a nationwide-scale analysis, we have also employed methods that go beyond those recommended by the standard pharmacopeias. We have used high-resolution 2D NMR, detailed assessment of the anticoagulant and antithrombotic properties, check of side effects in experimental animals after continuous administration, and analyses of individual composing oligosaccharides. The 1D 1H NMR spectra of all batches of biosimilar enoxaparins are fairly coincident, and the resultant average spectrum is quite identical to that from the original drug. This structural equality was also assured by highly resolved 2D NMR spectra. The anticoagulant activity, determined by diverse assays and the in vivo antithrombotic and bleeding effects of the biosimilar version were confirmed as equal as of the parental enoxaparins. Structure and function of the composing oligosaccharides were identical in both enoxaparin types. No side effect was observed after continuous subcutaneous administration to rats for 30 days at the dose of 2 mg kg⁻¹ body weight. Biosimilar enoxaparins available in Brazil fulfilled the requirement of the five items defined by FDA-USA for approval of this type of drug.
Analysis of the Effect of the Motor Temperature to Brushless Direct Current Motor Performance on KARLING Electric Vehicle (2019)

Abstract Indonesia is a country that has tropical climate with average temperature vary in between 27°C until 37°C. BLDC motor industry is not common in Indonesia so that has to be imported from another country mostly subtropical countries. BLDC motor is built according to subtropical characteristics. Therefore, BLDC motor performance is changing in Indonesia due to the temperature differences. The following methods are used in the study: laboratory experiment and field test using electrical vehicle. The temperature in laboratory is in range between 23°C up to 55°C. However the field temperature varies from 27.7°C and 34, 2°C. The increasing temperature inside the motor in laboratory and field experiments conducts modification of BLDC motor parameters. The rising motor temperature degrades the current and torque of motor, but increasing the rotation velocity of the motor.
Three Coordination Polymers Based on 1<i>H</i>-Tetrazole (HTz) Generated via in Situ Decarboxylation: Synthesis, Structures, and Selective Gas Adsorption Properties (2009)

Three tetrazole-based coordination polymers, [Zn3(Tz)6(H2O)2]n (1), [Cu2(Tz)3(OH)]n (2), and {[Cu5(Tz)9](NO3)·8H2O}n (3) (Tz = tetrazolate) have been prepared under hydro(solvo)thermal conditions using ethyl tetrazolate-5-carboxylate and corresponding metal salts as building blocks, in which tetrazolate was generated via in situ decarboxylation. The results of X-ray single diffraction analyses indicate that 1 possesses a 2D layer structure with μ2-Tz− bridged six- and four-coordinated Zn(II), forming a rare kagomé dual topological layer. Compound 2 is a 3D layer−pillar structure, in which the Cu(II) ions are bridged by μ3-Tz− anions to generate a 2D sheet, and the 2D sheets are further pillared by μ2-Tz− and μ2-OH− to form a 3D framework with a fsc topology net. Compound 3 is a 3D porous framework with an acs topology net. Compound 1 exhibits photoluminescent properties with an emission peak at 467 nm, and compound 3 shows selective H2 and CO2 over N2 adsorption.
Effect of Increased CRM<sub>197</sub>Carrier Protein Dose on Meningococcal C Bactericidal Antibody Response (2012)

New multivalent CRM(197)-based conjugate vaccines are available for childhood immunization. Clinical studies were reviewed to assess meningococcal group C (MenC) antibody responses following MenC-CRM(197) coadministration with CRM(197)-based pneumococcal or Haemophilus influenzae type b conjugate vaccines. Infants receiving a total CRM(197) carrier protein dose of ∼50 μg and concomitant diphtheria-tetanus-acellular pertussis (DTaP)-containing vaccine tended to have lower MenC geometric mean antibody titers and continued to have low titers after the toddler dose. Nevertheless, at least 95% of children in the reported studies achieved a MenC serum bactericidal antibody (SBA) titer of ≥ 1:8 after the last infant or toddler dose. SBA was measured using an assay with a baby rabbit or human complement source. Additional studies are needed to assess long-term antibody persistence and MenC CRM(197) conjugate vaccine immunogenicity using alternative dosing schedules.
Why COVID-19 Silent Hypoxemia Is Baffling to Physicians (2020)

Patients with coronavirus disease (COVID-19) are described as exhibiting oxygen levels incompatible with life without dyspnea. The pairing-dubbed happy hypoxia but more precisely termed silent hypoxemia-is especially bewildering to physicians and is considered as defying basic biology. This combination has attracted extensive coverage in media but has not been discussed in medical journals. It is possible that coronavirus has an idiosyncratic action on receptors involved in chemosensitivity to oxygen, but well-established pathophysiological mechanisms can account for most, if not all, cases of silent hypoxemia. These mechanisms include the way dyspnea and the respiratory centers respond to low levels of oxygen, the way the prevailing carbon dioxide tension (Pa<sub>CO<sub>2</sub></sub>) blunts the brain's response to hypoxia, effects of disease and age on control of breathing, inaccuracy of pulse oximetry at low oxygen saturations, and temperature-induced shifts in the oxygen dissociation curve. Without knowledge of these mechanisms, physicians caring for patients with hypoxemia free of dyspnea are operating in the dark, placing vulnerable patients with COVID-19 at considerable risk. In conclusion, features of COVID-19 that physicians find baffling become less strange when viewed in light of long-established principles of respiratory physiology; an understanding of these mechanisms will enhance patient care if the much-anticipated second wave emerges.
High-Performance Design of Hadoop RPC with RDMA over InfiniBand (2013)

Hadoop RPC is the basic communication mechanism in the Hadoop ecosystem. It is used with other Hadoop components like MapReduce, HDFS, and HBase in real world data-centers, e.g. Facebook and Yahoo!. However, the current Hadoop RPC design is built on Java sockets interface, which limits its potential performance. The High Performance Computing community has exploited high throughput and low latency networks such as InfiniBand for many years. In this paper, we first analyze the performance of current Hadoop RPC design by unearthing buffer management and communication bottlenecks, that are not apparent on the slower speed networks. Then we propose a novel design (RPCoIB) of Hadoop RPC with RDMA over InfiniBand networks. RPCoIB provides a JVM-bypassed buffer management scheme and utilizes message size locality to avoid multiple memory allocations and copies in data serialization and deserialization. Our performance evaluations reveal that the basic ping-pong latencies for varied data sizes are reduced by 42%-49% and 46%-50% compared with 10GigE and IPoIB QDR (32Gbps), respectively, while the RPCoIB design also improves the peak throughput by 82% and 64% compared with 10GigE and IPoIB. As compared to default Hadoop over IPoIB QDR, our RPCoIB design improves the performance of the Sort benchmark on 64 compute nodes by 15%, while it improves the performance of CloudBurst application by 10%. We also present thorough, integrated evaluations of our RPCoIB design with other research directions, which optimize HDFS and HBase using RDMA over InfiniBand. Compared with their best performance, we observe 10% improvement for HDFS-IB, and 24% improvement for HBase-IB. To the best of our knowledge, this is the first such design of the Hadoop RPC system over high performance networks such as InfiniBand.
Glycosylated Hemoglobins and Long-Term Blood Glucose Control in Diabetes Mellitus (1977)

The glycosylated minor hemoglobin components Hb A1a+b and HbA1c are elevated in insulin-dependent juvenile diabetic patients, 3.2+/-0.7 (+/-1 SD) and 10.0+/-1.9% of total hemoglobin respectively, versus 2.1+/-0.4 and 4.9+/-0.7% in a normal non-diabetic control population. Total glycosylated hemoglobin components, Hb A1a+b+c, correlated with the degree of diabetic blood glucose regulation as measured by antecedent 24-h urinary glucose excretion determined in 220 diabetic patients immediately before, 1, 2, and 3 months prior to the HB A1a+b+c measurement. This assay for long-term blood glucose regulation was utilized to determine the effect of hyperglycemia on plasma cholesterol levels in 112 diabetic patients. Hb A1a+b+c levels correlated with plasma cholesterol levels, suggesting that long-term hyperglycemia is associated with hypercholesterolemia. It is suggested that glycosylated hemoglobin measurement is a good index of long-term blood glucose levels in diabetic patients.
Design and Characterization of a Lightweight and Fully Portable Remote Actuation System for Use With a Hand Exoskeleton (2016)

Enabling individuals who are living with reduced mobility of the hand to utilize portable exoskeletons at home has the potential to deliver rehabilitation therapies with a greater intensity and relevance to activities of daily living. Various hand exoskeleton designs have been explored in the past, however, devices have remained nonportable and cumbersome for the intended users. Here we investigate a remote actuation system for wearable hand exoskeletons, which moves weight from the weakened limb to the shoulders, reducing the burden on the user and improving portability. A push-pull Bowden cable was used to transmit actuator forces from a backpack to the hand with strict attention paid to total system weight, size, and the needs of the target population. We present the design and integration of this system into a previously presented hand exoskeleton, as well as its characterization. Integration of remote actuation reduced the exoskeleton weight by 56% to 113g without adverse effects to functionality. Total actuation system weight was kept to 754g. The loss of positional accuracy inherent with Bowden cable transmissions was compensated for through closed loop positional control of the transmission output. The achieved weight reduction makes hand exoskeletons more suitable to the intended user, which will permit the study of their effectiveness in providing long duration, high intensity, and targeted rehabilitation as well as functional assistance.
Fault diagnostics for GPS-based lateral vehicle control (2001)

This paper develops a fault diagnostic system to monitor the health of the lateral motion sensors on an instrumented highway vehicle. The fault diagnostic system utilizes observer design with the observer gains chosen so as to ensure that each sensor failure causes estimation errors to grow in an unique direction. The performance of the fault diagnostic system is verified through extensive experimental results obtained from an instrumented truck called the "Safetruck". The fault diagnostic system is able to monitor the health of a GPS system, a gyroscope and an accelerometer on the Safetruck. It can correctly detect a failure in any one of the three sensors and accurately identify the source of the failure.
First Snapshots of the HIV-1 RNA Structure in Infected Cells and in Virions (2004)

With the increasing interest of RNAs in regulating a range of cell biological processes, very little is known about the structure of RNAs in tissue culture cells. We focused on the 5'-untranslated region of the human immunodeficiency virus type 1 RNA genome, a highly conserved RNA region, which contains structural domains that regulate key steps in the viral replication cycle. Up until now, structural information only came from in vitro studies. Here, we developed chemical modification assays to test nucleotide accessibility directly in infected cells and viral particles, thus circumventing possible biases and artifacts linked to in vitro assays. The secondary structure of the 5'-untranslated region in infected cells points to the existence of the various stem-loop motifs associated to distinct functions, proposed from in vitro probing, mutagenesis, and phylogeny. However, compared with in vitro data, subtle differences were observed in the dimerization initiation site hairpin, and none of the proposed long range interactions were observed between the functional domains. Moreover, no global RNA rearrangement was observed; structural differences between infected cells and viral particles were limited to the primer binding site, which became protected against chemical modification upon tRNA(3) (Lys) annealing in virions and to the main packaging signal. In addition, our data suggested that the genomic RNA could already dimerize in the cytoplasm of infected cells. Taken together, our results provided the first analysis of the dynamic of RNA structure of the human immunodeficiency virus type 1 RNA genome during virus assembly ex vivo.
FGMD: A novel approach for functional gene module detection in cancer (2017)

With the increasing availability of multi-dimensional biological datasets for the same samples (i.e., gene expression, microRNAs, copy numbers, mutations, methylations), it has now become possible to systematically understand the regulatory mechanisms operating in a cancer cell. For this task, it is important to discover a set of co-expressed genes with functions, representing a so-called functional gene module, because co-expressed genes tend to be co-regulated by the same regulators, including transcription factors, microRNAs, and copy number aberrations. Several algorithms have been used to identify such gene modules, including hierarchical clustering and non-negative matrix factorization. Although these algorithms have been applied to many microarray datasets, only a few systematic analyses of these algorithms have been performed for RNA-sequencing (RNA-Seq) data to date. Although gene expression levels determined based on microarray and RNA-Seq datasets tend to be highly correlated, the expression levels of some genes differ depending on the platforms used for analysis, which may result in the construction of different gene modules for the same samples. Here, we compare several module detection algorithms applied to both microarray and RNA-seq datasets. We further propose a new functional gene module detection algorithm (FGMD), which is based on a hierarchical clustering algorithm that was modified to reflect actual biological observations, including the fact that a single gene may be involved in multiple biological pathways. Application of existing algorithms and the new FGMD algorithm to breast cancer and ovarian cancer datasets from The Cancer Genome Atlas showed that the FGMD algorithm had the best performance for most of the functional pathway enrichment tests and in the transcription factor enrichment test. We expect that the FGMD algorithm will contribute to improving the identification of functional gene modules related to cancer.
Mine roof drill bits that save money (1982)

Sandia National Laboratories, Albuquerque, NM, has developed advanced technology roof bolt drill bits which have demonstrated longer life, higher penetration rates at lower thrust and torque, and lower specific energy than conventional roof bolt drill bits. This is achieved through use of advanced technology cutting materials and novel bit body designs. These bits have received extensive laboratory and mine testing. Their performance has been evaluated and estimates of their value in reducing coal production costs have been made. The work was sponsored by the United States Department of Energy.
Unsupervised graph-based Word Sense Disambiguation of biomedical documents (2013)

Word Sense Disambiguation is the task of automatically identifying the correct sense of an ambiguous word. Biomedical documents, similar to other narrative documents, suffer from ambiguity, which impacts the ability to automatically extract knowledge contained in the document text. In this study, we propose a graph-based word sense disambiguation algorithm focused on biomedical text. The proposed algorithm uses the UMLS Metathesaurus as its source of knowledge. Evaluation is carried out using the MSH-WSD data set.
Dynamic airline scheduling and robust airline schedule de-peaking (2006)

Thesis (Ph. D.)--Massachusetts Institute of Technology, Dept. of Civil and Environmental Engineering, 2006.
Site-Selective Catalytic Surface Activation via Aerosol Nanoparticles for Use in Metal Micropatterning (2008)

There is great interest in the fabrication of micro- and nanopatterned metallic structures on substrates for a wide range of electronic, photonic, and magnetic devices. One of the most widely used techniques is the electroless deposition (ELD) of metal, which requires the surface activation of the substrates with a metal catalyst. This paper introduces a method of catalytic surface activation by producing platinum aerosol nanoparticles via spark generation and then thermophoretically depositing the particles onto a flexible polyimide (PI) substrate through the pattern hole of a mask. After annealing, the catalytically activated substrate is placed into a solution for electroless silver deposition. The silver is then formed only on the activated regions of the substrate. Silver line patterns having a width of 18 microm and a height of 1 microm are created with the ability to be effectively reproduced. The average value of the resistivities is approximately 6.8 mu Omega.cm, which is almost comparable to the theoretical resistivity of bulk silver (1.6 mu Omega.cm). Other silver micropatterns containing square dot array, line, line array, Y-branched line, and tapered line using different pattern masks are also demonstrated.
Enhancing ferroelectricity in dopant-free hafnium oxide (2017)

In this study, we control the oxidant dose to promote ferroelectricity in dopant-free ALD hafnium oxide films. By lowering the oxidant dose during growth, we show that we can achieve near total suppression of the monoclinic phase in sub-10 nm hafnium oxide films with no major impurity doping. Using metal-insulator-metal structures, we demonstrate that lowering the oxidant dose can give rise to a six-fold improvement in remanent polarization. Using this technique, we observe a remanent polarization of 13.5 μC/cm2 in a 6.9 nm-thick hafnium oxide film and show that some ferroelectricity can persist in pure hafnium oxide films as thick as 13.9 nm. Using a trap-assisted tunneling model, we show the relationship between the oxidant dose and oxygen vacancy concentration in the films, suggesting a possible mechanism for the suppression of the monoclinic phase.
N-heterocyclic carbene-catalyzed synthesis of spirocyclopentene-oxindoles from bromoenals (2017)

The N-heterocyclic carbene-catalyzed tandem reaction of bromoenals and oxindoles was developed to give the corresponding chiral spirocyclopentene-oxindoles in good yields with good to high diastereo- and enantioselectivities.
Abnormal brain activation on functional MRI in cognitively asymptomatic HIV patients (2002)

Increased brain activation in subjects who are positive for HIV precedes clinical signs or deficits on cognitive tests. Early injury to the neural substrate may necessitate increased usage of brain reserve to maintain normal cognitive function. BOLD fMRI appears to be more sensitive than clinical and neuropsychological evaluations for detecting early HIV-associated brain injury.
DC-SIGN–expressing macrophages trigger activation of mannosylated IgM B-cell receptor in follicular lymphoma (2015)

Follicular lymphoma (FL) results from the accumulation of malignant germinal center (GC) B cells leading to the development of an indolent and largely incurable disease. FL cells remain highly dependent on B-cell receptor (BCR) signaling and on a specific cell microenvironment, including T cells, macrophages, and stromal cells. Importantly, FL BCR is characterized by a selective pressure to retain surface immunoglobulin M (IgM) BCR despite an active class-switch recombination process, and by the introduction, in BCR variable regions, of N-glycosylation acceptor sites harboring unusual high-mannose oligosaccharides. However, the relevance of these 2 FL BCR features for lymphomagenesis remains unclear. In this study, we demonstrated that IgM(+) FL B cells activated a stronger BCR signaling network than IgG(+) FL B cells and normal GC B cells. BCR expression level and phosphatase activity could both contribute to such heterogeneity. Moreover, we underlined that a subset of IgM(+) FL samples, displaying highly mannosylated BCR, efficiently bound dendritic cell-specific intercellular adhesion molecule-3-grabbing nonintegrin (DC-SIGN), which could in turn trigger delayed but long-lasting BCR aggregation and activation. Interestingly, DC-SIGN was found within the FL cell niche in situ. Finally, M2 macrophages induced a DC-SIGN-dependent adhesion of highly mannosylated IgM(+) FL B cells and triggered BCR-associated kinase activation. Interestingly, pharmacologic BCR inhibitors abolished such crosstalk between macrophages and FL B cells. Altogether, our data support an important role for DC-SIGN-expressing infiltrating cells in the biology of FL and suggest that they could represent interesting therapeutic targets.
Immune-mediated conditions and antibodies associated with sporadic inclusion body myositis (1998)

We reviewed 99 patients with sporadic inclusion body myositis (IBM), searching for a coexisting autoimmune disease, other conditions with altered immune function, or the presence of autoantibodies. Thirteen patients had one or more of 11 diseases with altered immune function. Forty-three patients had elevated titers of one or more of nine different, albeit nondisease-specific, autoantibodies. Twenty-five patients had dysproteinemia or dysproteinuria. We conclude that IBM is frequently associated with systemic immune disorders or nonspecific autoantibodies. Although aging may explain some of these phenomena, an altered immune function need to be considered in the pathogenesis of IBM.
Analysis and computer program for rupture-risk prediction of abdominal aortic aneurysms (2006)

As part of computational AAA-risk assessment and medical management, a patient-specific severity parameter 0 < SP(t) < 1.0 has been developed. The time-dependent, normalized SP(t) depends on eight biomechanical factors, to be obtained via a patient's pressure and AAA-geometry measurements. The resulting program is an easy-to-use tool which allows medical practitioners to make scientific diagnoses, which may save lives and should lead to an improved quality of life.