gebhart/patrepeval huggingface dataset:
Stochastic Hyperparameter Optimization through Hypernetworks (2018)

Machine learning models are often tuned by nesting optimization of model weights inside the optimization of hyperparameters. We give a method to collapse this nested optimization into joint stochastic optimization of weights and hyperparameters. Our process trains a neural network to output approximately optimal weights as a function of hyperparameters. We show that our technique converges to locally optimal weights and hyperparameters for sufficiently large hypernetworks. We compare this method to standard hyperparameter optimization strategies and demonstrate its effectiveness for tuning thousands of hyperparameters.
Survival and complications in patients with thalassemia major treated with transfusion and deferoxamine. (2004)

Survival and complication-free survival of patients with thalassemia major continue to improve, especially for female patients born shortly before or after the availability of iron chelation.
An analytical biomarker for treatment of patients with recurrent B-ALL after remission induced by infusion of anti-CD19 chimeric antigen receptor T (CAR-T) cells (2016)

Anti-CD19 chimeric antigen receptor-modified T (CAR-T-19) cells have emerged as a powerful targeted immunotherapy for B-cell lineage acute lymphoblastic leukemia with a remarkable clinical response in recent trials. Nonetheless, few data are available on the subsequent clinical monitoring and treatment of the patients, especially those with disease recurrence after CAR-T-19 cell infusion. Here, we analyzed three patients who survived after our phase I clinical trial and who were studied by means of biomarkers reflecting persistence of CAR-T-19 cells in vivo and predictive factors directing further treatment. One patient achieved 9-week sustained complete remission and subsequently received an allogeneic hematopoietic stem cell transplant. Another patient who showed relapse after 20 weeks without detectable leukemia in the cerebrospinal fluid after CAR-T-19 cell treatment was able to achieve a morphological remission under the influence of stand-alone low-dose chemotherapeutic agents. The third patient gradually developed extensive extramedullary involvement in tissues with scarce immune- cell infiltration during a long period of hematopoietic remission after CAR-T-19 cell therapy. Long-term and discontinuous increases in serum cytokines (mainly interleukin 6 and C-reactive protein) were identified in two patients (Nos. 1 and 6) even though only a low copy number of CAR molecules could be detected in their peripheral blood. This finding was suggestive of persistent functional activity of CAR-T-19 cells. Combined analyses of laboratory biomarkers with their clinical manifestations before and after salvage treatment showed that the persistent immunosurveillance mediated by CAR-T-19 cells would inevitably potentiate the leukemia-killing effectiveness of subsequent chemotherapy in patients who showed relapse after CAR-T-19-induced remission.
Mild and efficient palladium(<scp>ii</scp>)-catalyzed racemization of allenes (2004)

Allenes undergo racemization in the presence of catalytic amounts of Pd(OAc)2/LiBr under mild conditions; the reaction proceeds via a bromopalladation-debromopalladation sequence and tolerates various functional groups.
Gamma irradiation of electrospun poly(ε‐caprolactone) fibers affects material properties but not cell response (2012)

Abstract Fabrication of electrospun fibrous scaffolds as future medical devices is being widely researched, with particular emphasis given to their material properties and effect on cell response and differentiation. However, the vast majority of these scaffolds are sterilized via nonmedically approved methods, including submersion in ethanol and exposure to UV light. Although these techniques are adequate for laboratory‐based research, they are not sufficient for human implantation. In this case, regulatory approved, medical grade sterilization is required. In this study, we report the effects of gamma irradiation, a regulatory approved technique, on electrospun poly(ε‐caprolactone) fibers. Fabricated fibers were separately subjected to different dosages of irradiation ranging from 0 to 45 kGy and then assessed for their physicochemical properties. Gamma irradiation affected fiber properties irrespective of dosage. A dose‐dependent decrease in polymer molecular weight was observed and an increase in melting point and crystallinity reported. Similarly, irradiation had a significant effect on mechanical properties with greatest decrease in tensile strength (68%) for fibers exposed to 40 kGy. The method of sterilization had no effect on cell response. Seeded tenocytes attached to all fibers and elongated parallel to the underlying fiber direction. The results demonstrate the importance of incorporating medical grade sterilization procedures early in the research projects time line to assist translation from bench to clinic. © 2012 Wiley Periodicals, Inc. J Polym Sci Part B: Polym Phys, 2012
Clustering Speech Utterances by Speaker Using Eigenvoice-Motivated Vector Space Models (2006)

The paper investigates the problem of automatically grouping unknown speech utterances based on their associated speakers. The proposed method utilizes the vector space model, which was originally developed in document-retrieval research, to characterize each utterance as a tf-idf-based vector of acoustic terms, thereby deriving a reliable measurement of similarity between utterances. To define the required acoustic terms that are most representative in terms of voice characteristics, the Eigenvoice approach is applied to the utterances to be clustered, which creates a set of eigenvector-based terms. To further improve speaker-clustering performance, the proposed method encompasses a mechanism of blind relevance feedback for refining the inter-utterance similarity measure.
Decision Fusion of Machine Learning Models to Predict Radiotherapy-Induced Lung Pneumonitis (2008)

Combining different machine learning models (decision fusion) has been shown to be an effective method for estimating the underlying physical mechanism by allowing the models to reinforce each other when consensus exists, or, conversely, negate each other when there is no consensus. To be effective, decision fusion requires that the different models provide some degree of complementary information. In this work, we fuse the results of four different machine learning models (Boosted Decision Trees, Neural Networks, Support Vector Machines, Self Organizing Maps) to predict the risk of lung pneumonitis in patients undergoing thoracic radiotherapy. Fusion was achieved by simple averaging of the 10-fold cross validated predictions for each patient from all four models. To reduce prediction dependence on the manner in which the data set was split, 10-fold cross-validation was repeated 100 times for random data splitting. The area under the receiver operating characteristics curve for the fused cross-validated results was 0.79, higher than the individual models and with (generally) lower variance. The fusion extracted three important features as the consensus among all four models in predicting radiation pneumonitis risk: chemotherapy prior to radiotherapy, equivalent Uniform Dose (EUD) for exponent a = 1.2 to 3, and female gender. The results show great promise for machine learning in radiotherapy outcomes modeling.
Second Neoplasms after Acute Lymphoblastic Leukemia in Childhood (1991)

There is a substantial excess of second neoplasms, especially of the central nervous system, among children treated for ALL. Children five years old or younger and those receiving radiation are at higher risk, especially for second tumors arising in the central nervous system.
Glyceraldehyde-3-Phosphate Dehydrogenase Expression During Apoptosis and Proliferation of Rat Ventral Prostate1 (1999)

Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) is a multifunctional enzyme known to play a critical role in neuronal apoptosis. We undertook the current studies to determine whether GAPDH also plays a role in prostate epithelial cell apoptosis in response to androgen deprivation. To do so, we analyzed GAPDH staining by immunohistochemistry during castration-induced involution and androgen-induced regeneration of rat ventral prostate. We found that GAPDH was undetectable in secretory epithelial cells at baseline and that staining did not increase in the epithelium during the period of peak apoptosis from 1 to 3 days after castration. However, GAPDH levels did increase within nuclei of some basal epithelial cells 5 days after castration and within the cytoplasm of all secretory epithelial cells 7 days after castration. GAPDH was also abundant within the cytoplasm of secretory epithelial cells during the period of maximal cell proliferation from 2 to 3 days after androgen replacement and was clearly apparent within nuclei of some epithelial cells 4 days after androgen replacement. Our studies suggest that GAPDH plays multiple roles during prostate epithelial cell apoptosis and proliferation.
Grid cells: The position code, neural network models of activity, and the problem of learning (2008)

We review progress on the modeling and theoretical fronts in the quest to unravel the computational properties of the grid cell code and to explain the mechanisms underlying grid cell dynamics. The goals of the review are to outline a coherent framework for understanding the dynamics of grid cells and their representation of space; to critically present and draw contrasts between recurrent network models of grid cells based on continuous attractor dynamics and independent-neuron models based on temporal interference; and to suggest open questions for experiment and theory.
Diastereo- and Enantioselective Synthesis of Nitroso Diels−Alder-Type Bicycloketones Using Dienamine:  Mechanistic Insight into Sequential Nitroso Aldol/Michael Reaction and Application for Optically Pure 1-Amino-3,4-diol Synthesis (2007)

This article presents complete diastereo- and highly enantioselective synthesis of nitroso Diels-Alder-type bicycloketones using dienamine. With the hydrogen bonding of two hydroxyls in the bulky binaphthol 1c, high enantioselectivities and complete diastereoselectivity are realized in 2-oxa-3-aza-bicycloketone synthesis. On the other hand, alpha,beta-unsaturated ketone can be employed as diene precursor, utilizing readily available tetrazole catalyst 3b, to provide the 3-oxa-2-aza-bicycloketones in moderate yields with complete enantioselectivities. Investigation into the reaction utilizing 2-morpholino-4,4-diphenylcyclohexadiene 2d clearly indicated that cyclization with the bulky binaphthol 1c is involved in the sequential process, the N-nitroso aldol reaction, followed by Michael addition. In addition, optically pure 1-amino-3,4-diol is synthesized from 2-oxa-3-aza-bicycloketones. Use of p-phenoxynitrosobenzene allows access to protected amino diol via cleavage of the N-Ph bond.
Controlled Thin Polydimethylsiloxane Membrane with Small and Large Micropores for Enhanced Attachment and Detachment of the Cell Sheet (2022)

Polydimethylsiloxane (PDMS) membranes can allow the precise control of well-defined micropore generation. A PDMS solution was mixed with a Rushton impeller to generate a large number of microbubbles. The mixed solution was spin-coated on silicon wafer to control the membrane thickness. The microbubbles caused the generation of a large number of small and large micropores in the PDMS membranes with decreased membrane thickness. The morphology of the thinner porous PDMS membrane induced higher values of roughness, Young's modulus, contact angle, and air permeability. At day 7, the viability of cells on the porous PDMS membranes fabricated at the spin-coating speed of 5000 rpm was the highest (more than 98%) due to their internal networking structure and surface properties. These characteristics closely correlated with the increased formation of actin stress fibers and migration of keratinocyte cells, resulting in enhanced physical connection of actin stress fibers of neighboring cells throughout the discontinuous adherent junctions. The intact detachment of a cell sheet attached to a porous PDMS membrane was demonstrated. Therefore, PDMS has a great potential for enhancing the formation of cell sheets in regenerative medicine.
Free-space infrared local area network (FIRLAN) (1993)

Wireless in-building local area network (LANs) systems based on IR technology are being introduced to overbuild or replace traditional wired networks. We describe a free-space infrared local area network (FIRLAN)-its design and implementation. The FIRLAN system provides point-to-point or point-to-multipoint transmission of Ethernet signals. It provides full 10-Mb/s bit-rate seamless Ethernet integration with performance equal to wired systems.
High‐Rate Nanoscale Offset Printing Process Using Directed Assembly and Transfer of Nanomaterials (2015)

High-rate nanoscale offset printing using a newly developed reusable template enables the assembly of nanomaterials into nanostructures followed by their transfer onto a flexible substrate in a few minutes. The developed template can potentially be reused more than 100 times in the offset printing process without any additional functionalization. This approach provides a new way for the printing of flexible devices with nanoscale patterns.
MicroRNA-221 and microRNA-222 regulate gastric carcinoma cell proliferation and radioresistance by targeting PTEN (2010)

These results demonstrate that miR-221 and miR-222 regulate radiosensitivity, and cell growth and invasion of SGC7901 cells, possibly via direct modulation of PTEN expression. Our study suggests that inhibition of miR-221 and miR-222 might form a novel therapeutic strategy for human gastric cancer.
<title>New optical card requiring no preformatting</title> (1990)

A new optical memory card is proposed. The scanning spot read/write method and the physical format of the card without prerecording and tracking servo are described.© (1990) COPYRIGHT SPIE--The International Society for Optical Engineering. Downloading of the abstract is permitted for personal use only.
Minireview: New Roles for Peripheral Dopamine on Metabolic Control and Tumor Growth: Let’s Seek the Balance (2010)

In peripheral tissues, dopamine is released from neuronal cells and is synthesized within specific parenchyma. Dopamine released from sympathetic nerves predominantly contributes to plasma dopamine levels. Despite growing evidence for peripheral source and action of dopamine and the widespread expression of dopamine receptors in peripheral tissues, most studies have focused on functions of dopamine in the central nervous system. Symptoms of several brain disorders, including schizophrenia, Parkinson's disease, attention-deficit hyperactivity disorder, and depression, are alleviated by pharmacological modulation of dopamine transmission. Regarding systemic disorders, the role of dopamine is still poorly understood. Here we describe the pioneering and recent evidence for functional roles of peripheral dopamine. Peripheral and central dopamine systems are sensitive to environmental stress, such as a high-fat diet, suggesting a basis of covariance of peripheral and central actions of dopaminergic agents. Given the extended use of such medications, it is crucial to better understand the integrated effects of dopamine in the whole organism. Delineation of peripheral and central dopaminergic mechanisms would facilitate targeted and safer use of drugs modulating dopamine action. We discuss the increasing evidence for a link between peripheral dopamine and obesity. This review also describes the recently uncovered protective actions of dopamine on energy metabolism and proliferation in tumoral cells.
Frequency tuning of a spatial power combining array using strongly coupled oscillators (2002)

A spatial power combining array was developed and the frequency-tuning capability was investigated. This power combining array integrates single oscillator units, which are each composed of a Gunn diode and a microstrip patch antenna. Arrays consisting of four units and eight units were fabricated. By connecting oscillator units with chip resistors, the in-phase mode oscillation is obtained and is stable over a wide range of DC bias voltage. For both arrays, the oscillation frequency was tuned about 100 MHz when the DC bias voltage varied. The design of the array structure is presented and the experimental result is discussed.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Na<sup>+</sup>/H<sup>+</sup> exchangers in the human eccrine sweat duct (2003)

Using an anti-NHE1 antibody, we demonstrate the presence of a Na+/H+ exchanger of isoform 1 (NHE1) in the human eccrine sweat duct. A strong staining was observed at the basolateral membrane of the outer cell layer (NHE1basal), at the junction between inner and outer cells layers (NHE1inter), and along the lateral membranes (NHE1later) of all cells of the duct. At the luminal membrane, no staining was demonstrated either for NHE1 or NHE3. To investigate Na+/H+ mediated proton transport, straight sweat duct portions were isolated and perfused in vitro under HCO3-free conditions. In the presence of basolateral 5-ethyl-N-isopropyl amiloride (EIPA), an acidification of 0.29 +/- 0.03 pH units was observed, whereas no effect was observed with luminal EIPA. Bath sodium removal generated a stronger acidification (0.41 +/- 0.09 pH units). Removal of luminal sodium (in the absence or presence of basolateral EIPA), or low luminal chloride, led to an alkalinization, presumably due to a decrease in intracellular sodium, strongly suggesting functional activity of NHE1inter. We therefore conclude that in the sweat duct, NHE1 plays a major role in intracellular pH regulation.
Evaluating the quality of hydraulic conductivity estimates from piezometer slug tests in peat (2005)

Abstract Although widely used in wetland hydrological studies, hydraulic conductivity ( K ) estimates from piezometer slug tests are often of questionable validity. Frequently, this is because insufficient attention is paid to the details of the test procedure. Further, in a potentially heterogeneous and anisotropic medium such as peat, the use of slug tests is prone to error. In this paper we address some of the methodological issues surrounding piezometer slug tests in peat. We compare slug test data with laboratory determinations of vertical and horizontal K obtained using a new method. Piezometers were installed at three depths in a floodplain fen peat in Norfolk, UK. Slug tests were initiated by both slug insertion and slug withdrawal, and repeat tests were conducted to examine the robustness of our K estimates. Most of the tests displayed departures from the log‐linear model of Hvorslev, the form of departure being consistent with compressible soil behaviour. The results suggest that insertion tests gave similar results to those initiated by withdrawal. Repeat testing showed that withdrawal data, in particular, gave highly reproducible normalized responses that were independent of the initial head. Values for K estimated using the slug tests were in the range 1 × 10 −4 to 1·6 × 10 −3 cm s −1 , which is towards the upper end of the range reported for peats generally. Laboratory tests yielded similar values of K to those obtained from the slug tests. Although the laboratory tests showed that the peat was anisotropic, the K values generated by slug testing proved relatively good estimates of both vertical and horizontal K . Copyright © 2005 John Wiley & Sons, Ltd.
Finite-difference time-domain method for electromagnetic radiation, interference, and interaction with complex structures (1993)

The finite-difference-time-domain (FDTD) method is reviewed and then used to model and predict the radiation patterns of a monopole antenna mounted on the bottom of a perfectly conducting helicopter structure. The computed radiation patterns are compared with measurements to demonstrate the accuracy of the FDTD method. To study the effect of antenna interference, a second monopole antenna is mounted on the structure and the patterns are recalculated. The perfectly conducting helicopter model is then replaced by a partially composite/partially conducting material structure and the electromagnetic fields penetrating the structure from an incident plane wave are analyzed. A preprocessing geometry program, GEOM, is used to generate an FDTD geometry model, assuming solid surface helicopter structure.
The mechanical properties of leather in relation to softness (1999)

The deformation behaviour of chrome tanned crust leather (with or without fatliquor) and finished leather has been measured in three-point bend, tensile and compression tests. Relations between the experimental results and the perceived softness of the leather were investigated. The instrumentally assessed softness of a set of leathers was represented by parameters obtained from these tests and compared with a quantified subjective assessment. Differential Scanning Calorimetry (DSC) was used to analyse the water status in crust leathers. The influence of water content prior to staking on its softening effect was investigated. An orthogonal experiment was applied to investigate the influence of various factors (e.g. amplitude and frequency) on the softening effect of mechanical action to obtain an optimum combination of these factors. The bending force, F, increased in a linear way with increasing sample width, w, in accordance with the standard theory of beam bending. However the change in F with increasing sample thickness, t, departed (markedly in some cases) from the standard theory. The theory of laminated materials offered a quantitative description of the dependency provided that the grain and corium layers were regarded as the laminae. F was approximately proportional to the actual bending length raised to a power between -2 and -3. An empirical equation based on the results of the bend testing was developed. A parameter, Se/tn, can be used to rank the softness of leather, where Se is equivalent to the bending stiffness in standard bending theory, and n is the approximate index in the power function describing the relationship of the bending force F to the sample thickness t for a particular type of leather. A model describing the compression behaviour of crust leather is proposed which involves four stages of compression: (i) hair-like fibres being bent flat onto the surface and buckling of vertical fibre bundles, (ii) closing up of voids between fibre bundles, (iii) closing up of voids between fibres, and (iv) compressing of solid fibres. DSC results indicate that water has a stronger interaction with collagen molecules in an unfatliquored leather than in a fatliquored one. Fatliquor appears to function as a shield between water and collagen. The influence of water content prior to staking on the resulting softening effect was clearly reflected in bending and tensile tests, but was not nearly so evident in a compression test. It is shown that a maximum softening effect can be obtained in the staking process when moisture content is about 30-40%.