gebhart/patrepeval huggingface dataset:
Enhanced coupling to vertical radiation using a two-dimensional photonic crystal in a semiconductor light-emitting diode (2001)

Enhanced coupling to vertical radiation is obtained from a light-emitting diode using a two-dimensional photonic crystal that lies entirely inside the upper cladding layer of an asymmetric quantum well structure. A sixfold enhancement in light extraction in the vertical direction is obtained without the photonic crystal penetrating the active material. The photonic crystal is also used to couple pump light at normal incidence into the structure, providing strong optical excitation.
Inversion of seismic reflection data in the acoustic approximation (1984)

Abstract The nonlinear inverse problem for seismic reflection data is solved in the acoustic approximation. The method is based on the generalized least-squares criterion, and it can handle errors in the data set and a priori information on the model. Multiply reflected energy is naturally taken into account, as well as refracted energy or surface waves. The inverse problem can be solved using an iterative algorithm which gives, at each iteration, updated values of bulk modulus, density, and time source function. Each step of the iterative algorithm essentially consists of a forward propagation of the actual sources in the current model and a forward propagation (backward in time) of the data residuals. The correlation at each point of the space of the two fields thus obtained yields the corrections of the bulk modulus and density models. This shows, in particular, that the general solution of the inverse problem can be attained by methods strongly related to the methods of migration of unstacked data, and commercially competitive with them.
Identification and Characterization of a Novel hsc70-like Gene in the Human Lung Tumor Cell Line HS24 (1997)

We determined the cDNA sequence and analyzed the genomic structure of a novel human gene designated HS24/p52, which shows significant similarity to the ATP-binding domain of stress-70 proteins in the human lung tumor cell line HS24. The 2,203-nucleotide-long cDNA sequence is divided into an incomplete 10-nucleotide 5' nontranslated region, a 1,425-nucleotide open reading frame which codes for 474 amino acids and a 768-nucleotide 3' nontranslated region. The first 404 of the deduced 474 amino acids resemble the amino-terminal regions of Hsp70 proteins from different species. Furthermore, single amino acid and short amino acid stretches, which are thought to be essential for the ATPase mechanism and ATP-binding activity in Hsp70 proteins, are conserved in this sequence, too. The carboxy-terminal 70 amino acids exhibit no significant similarity to hsp70 nor to any other known protein sequences. The HS24/p52 gene contains at least five introns, which differ significantly from hsc70 genes with regard to their size and location within the coding sequences. The total size of this gene is more than 15 kbp. Polymerase chain reaction (PCR) experiments showed that this gene is expressed in different human cell lines and tissues and it also seems to be highly conserved between human and mouse.
Syne-1, A Dystrophin- and Klarsicht-related Protein Associated with Synaptic Nuclei at the Neuromuscular Junction (2000)

We describe a novel protein, Syne-1, that is associated with nuclear envelopes in skeletal, cardiac, and smooth muscle cells. Syne-1 contains multiple spectrin repeats similar to those found in dystrophin and utrophin, as well as a domain homologous to the carboxyl-terminal of Klarsicht, a protein associated with nuclei and required for a subset of nuclear migrations in Drosophila. In adult skeletal muscle fibers, levels of Syne-1 are highest in the nuclei that lie beneath the postsynaptic membrane at the neuromuscular junction. These nuclei are transcriptionally specialized, expressing genes for synaptic components at higher levels than extrasynaptic nuclei in the same cytoplasm. Syne-1 is the first protein found to be selectively associated with synaptic nuclei. Syne-1 becomes concentrated in synaptic nuclei postnatally. It remains synaptically enriched following denervation or degeneration/regeneration, and is also present at high levels in the central nuclei of dystrophic myotubes. The location and structure of Syne-1 suggest that it may participate in the migration of myonuclei in myotubes and/or their anchoring at the postsynaptic apparatus. Finally, we identify a homologous gene, syne-2, that is expressed in an overlapping but distinct pattern.
Wide-band dispersion compensating optical fiber (1996)

A novel technique for wide-band dispersion compensation using multiply cladded fiber is presented here. The compensating fiber is designed to operate in LP/sub 11/ mode near its cutoff. The dispersion calculations are carried out by solving the wave equation with the help of quadratic FEM. It is shown that when an optimally designed dispersion compensating fiber is added with a step index, single mode fiber in proportion of 1:22.24, the average compensated dispersion reduces below 0.47 ps/km-nm over a wavelength range of 1480 to 1580 nm. The technique suggests a cost effective solution for upgrading the existing fiber-optic networks to future WDM systems.
A simple and efficient cDNA library subtraction procedure: isolation of human retina-specific cDNA clones (1991)

Journal Article A simple and efficient cDNA library subtraction procedure: isolation of human retina-specific cDNA clones Get access Anand Swaroop, Anand Swaroop 1Department of Ophthalmology, University of Michigan, Kellogg Eye Center1000 Wall Street, Ann Arbor, MI 48105, USA2Department of Human Genetics, University of Michigan, Kellogg Eye Center1000 Wall Street, Ann Arbor, MI 48105, USA Search for other works by this author on: Oxford Academic PubMed Google Scholar Junzhe Xu, Junzhe Xu 1Department of Ophthalmology, University of Michigan, Kellogg Eye Center1000 Wall Street, Ann Arbor, MI 48105, USA Search for other works by this author on: Oxford Academic PubMed Google Scholar Neeraj Agarwal, Neeraj Agarwal 3Department of Pathology, University of Texas Health Science CenterSan Antonio, TX 78284, USA Search for other works by this author on: Oxford Academic PubMed Google Scholar Sherman M. Weissman Sherman M. Weissman 4Department of Human Genetics, Yale University School of MedicineNew Haven, CT 06510, USA Search for other works by this author on: Oxford Academic PubMed Google Scholar Nucleic Acids Research, Volume 19, Issue 8, 25 April 1991, Page 1954, https://doi.org/10.1093/nar/19.8.1954 Published: 25 April 1991 Article history Received: 28 January 1991 Published: 25 April 1991
An adaptive k -nearest neighbor text categorization strategy (2004)

k is the most important parameter in a text categorization system based on the k -nearest neighbor algorithm ( k NN). To classify a new document, the k -nearest documents in the training set are determined first. The prediction of categories for this document can then be made according to the category distribution among the k nearest neighbors. Generally speaking, the class distribution in a training set is not even; some classes may have more samples than others. The system's performance is very sensitive to the choice of the parameter k . And it is very likely that a fixed k value will result in a bias for large categories, and will not make full use of the information in the training set. To deal with these problems, an improved kNN strategy, in which different numbers of nearest neighbors for different categories are used instead of a fixed number across all categories, is proposed in this article. More samples (nearest neighbors) will be used to decide whether a test document should be classified in a category that has more samples in the training set. The numbers of nearest neighbors selected for different categories are adaptive to their sample size in the training set. Experiments on two different datasets show that our methods are less sensitive to the parameter k than the traditional ones, and can properly classify documents belonging to smaller classes with a large k . The strategy is especially applicable and promising for cases where estimating the parameter k via cross-validation is not possible and the class distribution of a training set is skewed.
A computerized record hash coding and linkage procedure to warrant epidemiological follow-up data security. (1997)

A computerized record hash coding and linkage procedure is proposed to allow the chaining of medical information within the framework of epidemiological follow-up. Before their extraction, files are rendered anonymous using a one-way hash coding based on the SHA function, in order to respect the legislation on data privacy and security. To avoid dictionary attacks, two keys have been added to SHA coding. Once rendered anonymous, the linkage of patient information can be accomplished by the means of a statistical model, taking into account several identification variables.
Studies on vaccination against papillomaviruses: a comparison of purified virus, tumour extract and transformed cells in prophylactic vaccination. (1990)

Calves were vaccinated with two preparations made from one cutaneous fibropapilloma induced by bovine papillomavirus type 2 (BPV-2). One vaccine consisted of homogenised tumour; the other contained purified virus only. Both produced resistance to a heavy challenge infection of BPV-2. One calf in the vaccinated group developed a small tumour and rejected it earlier than the control calves. It would appear likely that the prophylactic immune response was induced by viral structural proteins only and that tumour-specific antigens are unnecessary. Bovine fibroblasts were transformed in vitro by BPV-2 and administered as a vaccine; immunity was not induced.
Inferring Algorithmic Patterns with Stack-Augmented Recurrent Nets (2015)

Despite the recent achievements in machine learning, we are still very far from achieving real artificial intelligence. In this paper, we discuss the limitations of standard deep learning approaches and show that some of these limitations can be overcome by learning how to grow the complexity of a model in a structured way. Specifically, we study the simplest sequence prediction problems that are beyond the scope of what is learnable with standard recurrent networks, algorithmically generated sequences which can only be learned by models which have the capacity to count and to memorize sequences. We show that some basic algorithms can be learned from sequential data using a recurrent network associated with a trainable memory.
Data Acquisition, Analysis, and Control While Drilling with Horizontal Water Jet Drilling Systems (1990)

ABSTRACT Two different horizontal water jet drilling systems have been developed and extensively field tested. The first, the Ultrashort Radius Radial System (URRS) is built around 32 mm (1-1/4 inch) coiled tubing and provides multiple 30 to 60 m (100 to 200 foot) radials from a vertical borehole. Accuracy is ± 2 to 3° in vertical trajectory. The second system, the Remotely Piloted System, uses 114 mm (4-1/2 inch) conventional flush joint tubing and is designed to drill for many kilometers (miles) with high three dimensional accuracy. Both systems incorporate Control While Drilling of the radial and provide real-time acquisition and display of drill performance with derived formation properties.
Obesity and addiction: neurobiological overlaps (2012)

Drug addiction and obesity appear to share several properties. Both can be defined as disorders in which the saliency of a specific type of reward (food or drug) becomes exaggerated relative to, and at the expense of others rewards. Both drugs and food have powerful reinforcing effects, which are in part mediated by abrupt dopamine increases in the brain reward centres. The abrupt dopamine increases, in vulnerable individuals, can override the brain's homeostatic control mechanisms. These parallels have generated interest in understanding the shared vulnerabilities between addiction and obesity. Predictably, they also engendered a heated debate. Specifically, brain imaging studies are beginning to uncover common features between these two conditions and delineate some of the overlapping brain circuits whose dysfunctions may underlie the observed deficits. The combined results suggest that both obese and drug-addicted individuals suffer from impairments in dopaminergic pathways that regulate neuronal systems associated not only with reward sensitivity and incentive motivation, but also with conditioning, self-control, stress reactivity and interoceptive awareness. In parallel, studies are also delineating differences between them that centre on the key role that peripheral signals involved with homeostatic control exert on food intake. Here, we focus on the shared neurobiological substrates of obesity and addiction.
Synthesis of an enzymatically active FLP recombinase in vitro: search for a DNA-binding domain. (1989)

We have used an in vitro transcription and translation system to synthesize an enzymatically active FLP protein. The FLP mRNA synthesized in vitro by SP6 polymerase is translated efficiently in a rabbit reticulocyte lysate to produce enzymatically active FLP. Using this system, we assessed the effect of deletions and tetrapeptide insertions on the ability of the respective variant proteins synthesized in vitro to bind to the FLP recognition target site and to carry out excisive recombination. Deletions of as few as six amino acids from either the carboxy- or amino-terminal region of FLP resulted in loss of binding activity. Likewise, insertions at amino acid positions 79, 203, and 286 abolished DNA-binding activity. On the other hand, a protein with an insertion at amino acid 364 retained significant DNA-binding activity but had no detectable recombination activity. Also, an insertion at amino acid 115 had no measurable effect on DNA binding, but recombination was reduced by 95%. In addition, an insertion at amino acid 411 had no effect on DNA binding and recombination. On the basis of these results, we conclude that this approach fails to define a discrete DNA-binding domain. The possible reasons for this result are discussed.
Microfluidic Devices for Blood Fractionation (2011)

Blood, a complex biological fluid, comprises 45% cellular components suspended in protein rich plasma. These different hematologic components perform distinct functions in vivo and thus the ability to efficiently fractionate blood into its individual components has innumerable applications in both clinical diagnosis and biological research. Yet, processing blood is not trivial. In the past decade, a flurry of new microfluidic based technologies has emerged to address this compelling problem. Microfluidics is an attractive solution for this application leveraging its numerous advantages to process clinical blood samples. This paper reviews the various microfluidic approaches realized to successfully fractionate one or more blood components. Techniques to separate plasma from hematologic cellular components as well as isolating blood cells of interest including certain rare cells are discussed. Comparisons based on common separation metrics including efficiency (sensitivity), purity (selectivity), and throughput will be presented. Finally, we will provide insights into the challenges associated with blood-based separation systems towards realizing true point-of-care (POC) devices and provide future perspectives.
Memory Expansion Technology (MXT): Software support and performance (2001)

A novel memory subsystem called Memory Expansion Technology (MXT) has been built for fast hardware compression of main-memory content. This allows a memory expansion to present a “real” memory larger than the physically available memory. This paper provides an overview of the memory-compression architecture, its OS support under Linux and Windows®, and an analysis of the performance impact of memory compression. Results show that the hardware compression of main memory has a negligible penalty compared to an uncompressed main memory, and for memory-starved applications it increases performance significantly. We also show that the memory content of an application can usually be compressed by a factor of 2.
Relative and Absolute Quantitative Real-Time PCR-Based Quantifications of hcnC and phlD Gene Transcripts in Natural Soil Spiked with Pseudomonas sp. Strain LBUM300 (2010)

Transcriptional analysis of microbial gene expression using relative quantitative real-time PCR (qRT-PCR) has been hampered by various technical problems. One such problem is the unavailability of an exogenous standard robust enough for use in a complex matrix like soil. To circumvent this technical issue, we made use of a recently developed artificial RNA (myIC) as an exogenous "spike-in" control. Nonsterile field soil was inoculated with various concentrations of the test bacterium Pseudomonas sp. strain LBUM300, ranging from 4.3- to 8.3-log bacterial cells per gram of soil. Total soil RNA was extracted at days 0, 7, and 14 postinoculation, and using two-step TaqMan assays, phlD (encoding the production of 2,4-diacetylphloroglucinol) and hcnC (encoding the production of hydrogen cyanide) gene expression was monitored. For relative quantification, a defined quantity of in vitro-synthesized myIC RNA was spiked during the RNA extraction procedure. Absolute qRT-PCR was also performed in parallel. Both the absolute and relative quantifications showed similar transcriptional trends. Overall, the transcriptional activity of phlD and hcnC changed over time and with respect to the bacterial concentrations used. Transcripts of the phlD and hcnC genes were detected for all five bacterial concentrations, but the phlD transcript copy numbers detected were lower than those detected for hcnC, regardless of the initial bacterial concentration or sampling date. For quantifying a low number of transcripts, the relative method was more reliable than the absolute method. This study demonstrates for the first time the use of a relative quantification approach to quantifying microbial gene transcripts from field soil using an exogenous spike-in control.
Novel Polysaccharide Surfactants: Synthesis of Model Compounds and Dextran-Based Surfactants (1994)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTNovel Polysaccharide Surfactants: Synthesis of Model Compounds and Dextran-Based SurfactantsTianhong Zhang and Roger E. MarchantCite this: Macromolecules 1994, 27, 25, 7302–7308Publication Date (Print):December 1, 1994Publication History Published online1 May 2002Published inissue 1 December 1994https://pubs.acs.org/doi/10.1021/ma00103a011https://doi.org/10.1021/ma00103a011research-articleACS PublicationsRequest reuse permissionsArticle Views787Altmetric-Citations47LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
A hydrostatic pressure approach to cuffless blood pressure monitoring (2005)

This paper presents the underlying principle and accompanying initial validation results towards the development of an optically-based, cuffless blood pressure monitoring method. As opposed to traditional oscillometric techniques, the optical sensor is calibrated with a known patient-controlled hydrostatic perturbation. In particular, the hydrostatic pressure challenge is utilized to parameterize the characteristic sigmoidal vascular compliance curve that links transmural pressure to the measured PPG output. Formulation of the compliance model will be accompanied by experimental results demonstrating the utility of the method.
β-Amyloid Peptide and Amyloid Precursor Proteins in Olfactory Mucosa of Patients with Alzheimer's Disease, Parkinson's Disease, and down Syndrome (1995)

Dystrophic neurites are present in olfactory epithelium (OE) of patients with Alzheimer's disease (AD), Parkinson's disease (PD), and Down syndrome (DS) and occasionally in normal individuals. Cultured olfactory neuroblasts from AD patients generate carboxy terminal amyloid precursor protein (APP) fragments that contain beta-amyloid (A beta), but it is not known if deposits of A beta and/or APP fragments occur in the OE of individuals with or without AD, PD, or DS. To determine if A beta accumulates in the OE in situ, we probed postmortem samples of olfactory mucosa from patients with AD, PD, and AD (PD/AD), and DS and AD (DS/AD), as well as from controls, using polyclonal and monoclonal antibodies to A beta and flanking sequences in APPs. Samples of OE also were examined by thioflavin-S and electron microscopy. Labeling of A beta was observed in 10 of 12 AD cases, 2 of 3 PD/AD cases, 3 of 4 DS/AD cases, 3 of 10 adult controls, and 4 of 6 fetal cases. The A beta staining was seen in the basal third of the OE, in axons projecting through the lamina propria, and in metaplastic respiratory epithelium within the OE. Antibodies to other APP domains stained the OE of patients and controls. Thioflavin-S staining was present in the basal third of the OE of 8 of 9 AD patients and several PD/AD and DS/AD patients, but only in rare cells of 3 controls. Electron microscopy did not reveal amyloid fibrils in the OE.(ABSTRACT TRUNCATED AT 250 WORDS)
The PDX1 Homeodomain Transcription Factor Negatively Regulates the Pancreatic Ductal Cell-specific Keratin 19 Promoter (2006)

Keratin 19 is a member of the cytokeratin family that is critical for maintenance of cellular architecture and organization, especially of epithelia. The pancreas has three distinct cell types, ductal, acinar, and islet, each with different functions. Embryologically, the pancreatic and duodenal homeobox 1 (PDX1) homeodomain protein is critical for the initiation of all pancreatic lineages; however, the later differentiation of the endocrine pancreas is uniquely dependent upon high PDX1 expression, whereas PDX1 is down-regulated in the ductal and acinar cell lineages. We find that this down-regulation may be required for normal ductal expression of cytokeratin K19. The K19 promoter-reporter gene assay demonstrates that ectopic PDX1 inhibits K19 reporter gene activity in primary pancreatic ductal cells. This is reinforced by our findings that retrovirally mediated stable transduction of PDX1 in primary pancreatic ductal cells suppresses K19 expression, and short interfering RNA to PDX1 in Min6 insulinoma cells results in the induction of normally undetectable K19. Complementary functional and biochemical approaches led to the unexpected finding that a multimeric complex of PDX1 and two members of the TALE homeodomain factor family, MEIS1a and PBX1b, regulates K19 gene transcription through a specific cis-regulatory element (-341 to -325) upstream of the K19 transcription start site. These data suggest a unifying mechanism whereby PDX1, myeloid ecotropic viral insertion site (MEIS), and pre-B-cell leukemia transcription factor 1 (PBX) may regulate ductal and acinar lineage specification during pancreatic development. Specifically, concomitant PDX1 suppression and MEIS isoform expression result in proper ductal and acinar lineage specification. Furthermore, PDX1 may inhibit the ductal differentiation program in the pancreatic endocrine compartment, particularly beta cells.