gebhart/patrepeval huggingface dataset:
Design, Synthesis, and Activity of 2-Imidazol-1-ylpyrimidine Derived Inducible Nitric Oxide Synthase Dimerization Inhibitors (2007)

By the screening of a combinatorial library for inhibitors of nitric oxide (NO) formation by the inducible isoform of nitric oxide synthase (iNOS) using a whole-cell assay, 2-(imidazol-1-yl)pyrimidines were identified. Compounds were found to inhibit the dimerization of iNOS monomers, thus preventing the formation of the dimeric, active form of the enzyme. Optimization led to the selection of the potent, selective, and orally available iNOS dimerization inhibitor, 21b, which significantly ameliorated adjuvant-induced arthritis in a rat model. Analysis of the crystal structure of the 21b--iNOS monomer complex provided a rationalization for both the SAR and the mechanism by which 21b blocks the formation of the protein--protein interaction present in the dimeric form of iNOS.
Radiation dose reduction in time-resolved CT angiography using highly constrained back projection reconstruction (2009)

Recently dynamic, time-resolved three-dimensional computed tomography angiography (CTA) has been introduced to the neurological imaging community. However, the radiation dose delivered to patients in time-resolved CTA protocol is a high and potential risk associated with the ionizing radiation dose. Thus, minimizing the radiation dose is highly desirable for time-resolved CTA. In order to reduce the radiation dose delivered during dynamic, contrast-enhanced CT applications, we introduce here the CT formulation of HighlY constrained back PRojection (HYPR) imaging. We explore the radiation dose reduction approaches of both acquiring a reduced number of projections for each image and lowering the tube current used during acquisition. We then apply HYPR image reconstruction to produce image sets at a reduced patient dose and with low image noise. Numerical phantom experiments and retrospective analysis of in vivo canine studies are used to assess the accuracy and quality of HYPR reduced dose image sets and validate our approach. Experimental results demonstrated that a factor of 6-8 times radiation dose reduction is possible when the HYPR algorithm is applied to time-resolved CTA exams.
Purification and analysis of growth regulating proteins secreted by a human melanoma cell line (1992)

Supernatants of a human malignant cell line established from a CNS metastasis, contained several proteins with putative growth regulating functions. BioGel P-10 gel filtration chromatography, reverse phase HPLC purification, and amino-terminal sequencing of purified peptides resulted in characterization of beta 2-microglobulin (beta 2M, 10 kD), ubiquitin (6 kD), and tissue inhibitor of metalloproteinases 2 (TIMP-2, 21 kD). In addition, CNBr cleavage and purification of resulting peptides revealed diazepam binding inhibitor (DBI, 8 kD) and melanoma inhibiting activity (MIA, 11 kD). The secretion of beta 2M as part of the HLA-class I complex may be related to impaired autologous anti-tumour immune function; ubiquitin may play a role in activation or deactivation of extracellular proteins or cell-cell interactions. As HTZ-19 cells respond in a dose-dependent manner to midozolam, DBI may interfere with growth regulation mediated by diazepam receptor sites. In a collagenolytic assay, TIMP-2 interfered with metalloproteinase functions, which are required for degradation of collagen type IV and organotopic metastasis. MIA is clearly associated with a proliferation inhibiting effect on HTZ-19 cells. In conclusion, although this tumour shows a degree of progression, several proteins with putative functions at different cellular levels were identified, related to proliferation as well as to the type of metastasis.
The Magnus Effect: A Summary of Investigations to Date (1961)

The Magnus force on a rotating body traveling through a fluid is partly responsible for ballistic missile and rifle shell inaccuracies and dispersion and for the strange deviational behavior of such spherical missiles as golfballs and baseballs. A great deal of effort has been expended in attempts to predict the lift and drag forces as functions of the primary parameters, Reynolds number, ratio of peripheral to free-stream velocity, and geometry. The formulation and solution of the mathematical problem is of sufficient difficulty that experimental results give the only reliable information on the phenomenon. This paper summarizes some of the experimental results to date and the mathematical attacks that have been made on the problem.
A Rapid Method for Measuring Serum Amyloid a Protein by Latex Agglutination Nephelometric Immunoassay (1993)

Serum amyloid A protein (SAA) is a sensitive acute phase reactant. We developed a method for the rapid measurement of human SAA in serum by kinetic nephelometry of anti-SAA antibody-coated latex agglutination. Measurement takes less than 6 min using an automated analyser. Standardization of the assay employs SAA-enriched high density lipoprotein as the primary standard. The values determined by our new method and by conventional enzyme-immunoassay showed good agreement (r = 0.988). The normal range was 0.17-10.0 mg/L [mean(SD)]. This rapid method should prove useful in clinical laboratories.
Correlated Photon Pair Generation in Chalcogenide As2S3 Photonic Integrated Circuits (2010)

We theoretically investigate correlated photon pair generation using spontaneous four-wave mixing in As2S3 waveguides. We show that chalcogenide photonic chip based pair source will exhibit high brightness and correlation if the dispersion is properly engineered.
Using formal verification methods and tools for protocol profiling and performance assessment in mobile and wireless environments (2010)

The most common use of formal verification methods and tools so far has been in identifying whether livelock and/or deadlock situations can occur during protocol execution, process, or system operation. In this work we aim to show that an additional equally important and useful application of formal verification tools can be in protocol design and protocol selection in terms of performance related metrics. This can be achieved by using the tools in a rather different context compared to their traditional use. That is not only as model checking tools to assess the correctness of a protocol in terms of lack of livelock and deadlock situations but rather as tools capable of building profiles of protocol operations, assessing their performance, and identifying operational patterns and possible bottleneck operations. This process can provide protocol designers with an insight about the protocols' behavior and guide them towards further protocol design optimizations. It can also assist network operators and service providers in selecting the most suitable protocol for specific network and service configurations. We illustrate these principles by showing how formal verification tools can be applied in this protocol profiling and performance assessment context using some existing protocols as case studies.
An EMG-Based Robot Control Scheme Robust to Time-Varying EMG Signal Features (2010)

Human-robot control interfaces have received increased attention during the past decades. With the introduction of robots in everyday life, especially in providing services to people with special needs (i.e., elderly, people with impairments, or people with disabilities), there is a strong necessity for simple and natural control interfaces. In this paper, electromyographic (EMG) signals from muscles of the human upper limb are used as the control interface between the user and a robot arm. EMG signals are recorded using surface EMG electrodes placed on the user's skin, making the user's upper limb free of bulky interface sensors or machinery usually found in conventional human-controlled systems. The proposed interface allows the user to control in real time an anthropomorphic robot arm in 3-D space, using upper limb motion estimates based only on EMG recordings. Moreover, the proposed interface is robust to EMG changes with respect to time, mainly caused by muscle fatigue or adjustments of contraction level. The efficiency of the method is assessed through real-time experiments, including random arm motions in the 3-D space with variable hand speed profiles.
Molecular Cloning and Sequencing of the cDNA for Human Membrane-bound Carboxypeptidase M (1989)

Carboxypeptidase M, a widely distributed membrane-bound carboxypeptidase that can regulate peptide hormone activity, was purified to homogeneity from human placenta (Skidgel, R. A., Davis, R. M., and Tan, F. (1989) J. Biol. Chem. 264, 2236-2241). The NH2-terminal 31 amino acids were sequenced, and two complementary oligonucleotide probes were synthesized and used to isolate a carboxypeptidase M clone from a human placental cDNA library. Sequencing of the cDNA insert (2009 base pairs) revealed an open reading frame of 1317 base pairs coding for a protein of 439 residues. The NH2-terminal protein sequence matched the deduced amino acid sequence starting with residue 14. Hydropathic analysis revealed hydrophobic regions at the NH2 and COOH termini. The NH2-terminal 13 amino acids probably represent part of the signal peptide, and the COOH-terminal hydrophobic region may act either as a transmembrane anchor or as a signal for attachment to a phosphatidylinositol glycan moiety. The carboxypeptidase M sequence contains six potential Asn-linked glycosylation sites, consistent with its glycoprotein nature. The sequence of carboxypeptidase M was 41% identical with that of the active subunit of human plasma carboxypeptidase N, 41% identical with bovine carboxypeptidase H (carboxypeptidase E, enkephalin convertase), and 15% with either bovine pancreatic carboxypeptidase A or B. Many of the active site residues identified in carboxypeptidases A and B, including all of the zinc-binding residues (2 histidines and a glutamic acid), are conserved in carboxypeptidase M. These data indicate that all of the metallocarboxypeptidases are related, but the nondigestive carboxypeptidases with more specialized functions, present in cell membranes, blood plasma, or secretory granules (i.e., carboxypeptidase M, carboxypeptidase N and carboxypeptidase H), are more closely related to each other (41-49% identity) than they are to carboxypeptidase A or B (15-20% identity).
Updated Recommendations from the Canadian National Consensus Meeting on HER2/neu Testing in Breast Cancer (2007)

Testing for HER2/neu in breast cancer at the time of primary diagnosis is now the standard of care. Accurate and standardized testing methods are of prime importance to ensure the proper classification of the patient's HER2/neu status. A meeting of pathologists from across Canada was convened to update the Canadian HER2/neu testing guidelines. This National HER2/neu Testing Committee reviewed the recently published American Society of Clinical Oncology/ College of American Pathologists (ASCO/CAP) guidelines for HER2/neu testing in breast cancer. The updated Canadian HER2/neu testing guidelines are based primarily on the ASCO/CAP guidelines, with some modifications. It is anticipated that widespread adoption of these guidelines will further improve the accuracy of HER2/neu testing in Canada.
Electrically switched photoinduced waveguide in unpoled strontium barium niobate (2006)

The unpoled photorefractive strontium barium niobate crystal exhibiting quadratic electro-optic properties is characterized. It is used to form one-dimensional and two-dimensional bright photorefractive spatial solitons for either positive or negative low applied electric field. Solitons induce long-lived index changes in the medium which forms waveguides that can be tuned using an external voltage.
Predicting age groups of Twitter users based on language and metadata features (2017)

Health organizations are increasingly using social media, such as Twitter, to disseminate health messages to target audiences. Determining the extent to which the target audience (e.g., age groups) was reached is critical to evaluating the impact of social media education campaigns. The main objective of this study was to examine the separate and joint predictive validity of linguistic and metadata features in predicting the age of Twitter users. We created a labeled dataset of Twitter users across different age groups (youth, young adults, adults) by collecting publicly available birthday announcement tweets using the Twitter Search application programming interface. We manually reviewed results and, for each age-labeled handle, collected the 200 most recent publicly available tweets and user handles' metadata. The labeled data were split into training and test datasets. We created separate models to examine the predictive validity of language features only, metadata features only, language and metadata features, and words/phrases from another age-validated dataset. We estimated accuracy, precision, recall, and F1 metrics for each model. An L1-regularized logistic regression model was conducted for each age group, and predicted probabilities between the training and test sets were compared for each age group. Cohen's d effect sizes were calculated to examine the relative importance of significant features. Models containing both Tweet language features and metadata features performed the best (74% precision, 74% recall, 74% F1) while the model containing only Twitter metadata features were least accurate (58% precision, 60% recall, and 57% F1 score). Top predictive features included use of terms such as "school" for youth and "college" for young adults. Overall, it was more challenging to predict older adults accurately. These results suggest that examining linguistic and Twitter metadata features to predict youth and young adult Twitter users may be helpful for informing public health surveillance and evaluation research.
Misdiagnosis of multiple sclerosis (2018)

Misdiagnosis of multiple sclerosis (MS) (the incorrect assignment of a diagnosis of MS) remains a problem in contemporary clinical practice. Studies indicate that misdiagnosed patients are often exposed to prolonged unnecessary health care risks and morbidity. The recently published 2017 revision of the McDonald criteria for the diagnosis of MS provides an opportunity to consider the effect of these revisions on the problem of MS misdiagnosis. The 2017 McDonald criteria include several new recommendations to reduce potential for misdiagnoses. The criteria should be used for the types of patients in which validation studies were performed, specifically those patients who present with typical demyelinating syndromes. MRI lesion characteristics were defined for which McDonald criteria would be expected to perform with accuracy. However, 2017 revisions, which now include assessment for cortical lesions, and the inclusion of symptomatic lesions and positive oligoclonal bands for the fulfillment of diagnostic criteria, may have the potential to lead to misdiagnosis of MS if not applied appropriately. While the 2017 McDonald criteria integrate issues relating to MS misdiagnosis and incorporate specific recommendations for its prevention more prominently than prior criteria, the interpretation of clinical and radiologic assessments upon which these criteria depend will continue to allow misdiagnoses. In patients with atypical clinical presentations, the revised McDonald criteria may not be readily applied. In those situations, further evaluation or monitoring rather than immediate diagnosis of MS is prudent.
PARAFAC2—Part I. A direct fitting algorithm for the PARAFAC2 model (1999)

PARAFAC is a generalization of principal component analysis (PCA) to the situation where a set of data matrices is to be analysed. If each data matrix has the same row and column units, the resulting data are three-way data and can be modelled by the PARAFAC1 model. If each data matrix has the same column units but different (numbers of) row units, the PARAFAC2 model can be used. Like the PARAFAC1 model, the PARAFAC2 model gives unique solutions under certain mild assumptions, whereas it is less severely constrained than PARAFAC1. It may therefore also be used for regular three-way data in situations where the PARAFAC1 model is too restricted. Usually the PARAFAC2 model is fitted to a set of matrices with cross-products between the column units. However, this model-fitting procedure is computationally complex and inefficient. In the present paper a procedure for fitting the PARAFAC2 model directly to the set of data matrices is proposed. It is shown that this algorithm is more efficient than the indirect fitting algorithm. Moreover, it is more easily adjusted so as to allow for constraints on the parameter matrices, to handle missing data, as well as to handle generalizations to sets of three- and higher-way data. Furthermore, with the direct fitting approach we also gain information on the row units, in the form of ‘factor scores’. As will be shown, this elaboration of the model in no way limits the feasibility of the method. Even though full information on the row units becomes available, the algorithm is based on the usually much smaller cross-product matrices only. Copyright © 1999 John Wiley & Sons, Ltd.
Thermogravimetric Investigations of Modified Iron Ore Pellets for Hydrogen Storage and Purification:  The First Charge and Discharge Cycle (2007)

The reaction of iron with steam produces pure hydrogen, which can be directly used in polymer electrolyte fuel cells for power generation. Therefore iron, in its elemental form, can be used as a hydrogen storage and purification material. Besides thermodynamic properties, the hydrogen reception and release rate of the process are of special interest. To determine the reaction characteristics of iron contact mass for the first charging and discharging cycle, thermogravimetric analysis was used in the temperature range of 500−1000 °C. The influences of contact mass composition, reaction temperature, and gas composition on the redox reactions were determined. Contact masses with highly alkaline composition show faster reaction with steam at elevated temperatures. Acidic sample compositions accelerate the reduction with hydrogen at lower temperatures. The influence of hydrogen partial pressure and the suitability of methane, carbon monoxide, and synthesis gas for the contact mass reduction have been investigated intensely. Methane reduces the contact mass only at temperatures higher than 800 °C at an acceptable rate, but always leads to carbon deposition. Also, the operation with CO/H2 mixtures results in carbon formation on the contact mass as soon as iron is present, whereby the rate of carbon production strongly depends on reaction temperature and gas composition. The product gas from steam reforming of methane is found to be a promising option as a reduction gas, leading to no carbon formation on the pellets at temperatures above 720 °C.
“ON FEELING AS INDIFFERENCE” (1889)

Journal Article “ON FEELING AS INDIFFERENCE” Get access BAIN BAIN Search for other works by this author on: Oxford Academic Google Scholar Mind, Volume XIV, Issue 53, January 1889, Pages 97–106, https://doi.org/10.1093/mind/XIV.53.97 Published: 01 January 1889
A synthetic peptide corresponding to the cleavage region of VP3 from rotavirus SA11 induces neutralizing antibodies (1988)

Antibodies were elicited in rabbits by immunization with the synthetic tetradecapeptide Gln-Asn-Thr-Arg-Asn-Ile-Val-Pro-Val-Ser-Ile-Val-Ser-Arg, corresponding to amino acids 228 to 241 of SA11-VP3. Protein specificity of the antipeptide serum is demonstrated. The antipeptide serum revealed neutralizing activity directed against SA11 in a neutralization assay. Human rotavirus strains Wa, S2, and Hochi and bovine strains NCDV and UK were not neutralized, demonstrating the strain-specific neutralizing activity of the raised antipeptide serum. Upon immune electron microscopy, aggregation of SA11 particles was observed.
The Expansion of the Microbiological Spectrum of Brain Abscesses with Use of Multiple 16S Ribosomal DNA Sequencing (2009)

Background. Brain abscess is commonly treated using empirically prescribed antibiotics. Thus, a comprehensive study of bacterial organisms associated with brain abscess is essential to define the best empirical treatment for this life-threatening condition. Methods. We prospectively compared cultures to single and multiple sequenced 16S ribosomal DNA polymerase chain reaction amplifications (by cloning and/or pyrosequencing) of cerebral abscesses in 20 patients from 2 hospitals in Marseilles, France, during the period January 2005 through December 2007. Results. The obtained cultures identified significantly fewer types of bacteria (22 strains) than did molecular testing (72 strains; P = .017, by analysis of variance test). We found that a patient could exhibit as many as 16 different bacterial species in a single abscess. The obtained cultures identified 14 different species already known to cause cerebral abscess. Single sequencing performed poorly, whereas multiple sequencing identified 49 species, of which 27 had not been previously reported in brain abscess investigations and 15 were completely unknown. Interestingly, we observed 2 patients who harbored Mycoplasma hominis (an emerging pathogen in this situation) and 3 patients who harbored Mycoplasma faucium, which, to our knowledge, has never been reported in literature. Conclusions. Molecular techniques dramatically increased the number of identified agents in cerebral abscesses. Mycoplasma species are common and should be detected in this situation. These findings led us to question the accuracy of the current empirical treatment of brain abscess.
Air-stable inverted structure of hybrid solar cells using a cesium-doped ZnO electron transport layer prepared by a sol–gel process (2013)

We have developed an air-stable inverted structure of poly(3-hexylthiophene) (P3HT) : cadmium selenide (CdSe) hybrid solar cells using a cesium-doped ZnO (ZnO:Cs) electron transport layer. The ZnO:Cs layer was simply prepared at low temperature by the sol–gel process using a ZnO solution containing cesium carbonate (Cs2CO3). With increasing Cs-doping concentration, the conduction band edge of ZnO is decreased, as confirmed by scanning Kelvin probe microscopy. The energy level of ZnO:Cs is effective for electron transport from CdSe. Consequently, the power conversion efficiency (PCE) of the inverted P3HT : CdSe hybrid solar cells using the ZnO:Cs electron transport layer is 1.14%, which is significantly improved over that (0.43%) of another device without Cs. X-ray photoelectron spectroscopy analysis revealed that the amount of CdSe on the substrate (or the bottom surface) is larger compared with the air (or top) surface regardless of the P3HT : CdSe weight ratio. The vertically inhomogeneous distribution of CdSe in the hybrid solar cells gives better charge transport from CdSe to ZnO:Cs in the inverted structure of the device compared with that in the normal structure. As a result, the inverted hybrid solar cell consisting of 1 : 4 (wt/wt) P3HT : CdSe shows the best efficiency, while the best efficiency of a normal hybrid solar cell is achieved at 1 : 9 (wt/wt) P3HT : CdSe.
ABCNet: A new efficient 3D dense‐structure network for segmentation and analysis of body tissue composition on body‐torso‐wide CT images (2020)

Motivated by applications in body tissue composition quantification on large population groups, our goal in this paper was to create an efficient and accurate body tissue segmentation method for use on body-torso-wide CT images. The proposed ABCNet achieves peak performance in both accuracy and efficiency that seems hard to improve any more. The experiments performed demonstrate that ABCNet can be run on an ordinary desktop with a single ordinary GPU, with practical times for both training and testing, and achieves superior accuracy compared to other state-of-the-art segmentation methods for the task of body tissue composition analysis from low-dose CT images.