gebhart/patrepeval huggingface dataset:
Expression of Foxa transcription factors in the developing and adult murine prostate (2004)

Abstract Background The Foxa family (a1, a2, and a3) of proteins are transcription factors that are central to endodermal development. Recently, Foxa1 has been shown to regulate the transcription of several murine and human prostate specific genes involved in differentiated function by interacting with DNA promoter sequences and androgen receptors. Currently, the developmental expression pattern of Foxa proteins in the murine prostate is unknown. Methods Male CD‐1 mice (embryonic, prepubertal, pubertal, and adult) were used for immunohistochemical analysis of Foxa1, a2, and a3. Immunofluorescence was also performed for androgen receptor and cytokeratin 14 expression. Prostate tissue from pre‐pubertal, pubertal, and adult mice were analyzed by Western blot and RT‐PCR analysis for Foxa1, a2, and a3 expression. Results Strong Foxa1 immunoreactivity was observed in epithelial cells throughout prostate development, growth, and adult differentiation. Prominent Foxa2 protein expression was only observed in the early stages of prostate development and was exclusively localized to epithelial cells of the forming buds. RT‐PCR analysis identified low Foxa2 mRNA expression levels in the ventral and dorsolateral lobes of the adult prostate, with Foxa2 epithelial cell expression being localized to periurethral regions of the murine adult prostatic complex. Foxa3 expression was not observed in the murine prostate. Conclusions Foxa proteins represent epithelial cell markers in the murine prostate gland. The early expression of Foxa1 and a2 proteins in prostate formation suggests that these proteins play an important role in normal prostate development, in addition to differentiated secretory function. © 2004 Wiley‐Liss, Inc.
Oxidative Rearrangement of Indoles:  A New Approach to the EFHG-Tetracyclic Core of Diazonamide A (2007)

A new approach to the ring EFHG-tetracyclic core fragment of the marine secondary metabolite diazonamide A is described. The route is based on the oxidative rearrangement of 3-arylindole-2-carboxylates. Thus, a range of 3-arylindole-2-carboxylates (3, 8) underwent rearrangement to the corresponding 3,3-disubstituted oxindoles (4, 9) with migration of the ester group upon treatment with tert-butyl hypochlorite followed by acid. The oxindoles 9 with a 3-[2-(4-methoxybenzyloxy)]phenyl substituent underwent cyclization to the tetracyclic aminals 11 following N-protection, reduction, and treatment with methanesulfonic anhydride. The methodology was applied to the tyrosine-indole derivative 17 to give the EFHG-tetracyclic core of diazonamide A.
Convolutional deep belief networks for feature extraction of EEG signal (2014)

In recent years, deep learning approaches have been successfully used to learn hierarchical representations of image data, audio data etc. However, to our knowledge, these deep learning approaches have not been extensively studied for electroencephalographic (EEG) data. Considering the properties of EEG data, high-dimensional and multichannel, we applied convolutional deep belief networks to the feature learning of EEG data and evaluated it on the datasets from previous BCI competitions. Compared with other state-of-the-art feature extraction methods, the learned features using convolutional deep belief network have better performance.
Polarization-Control Components and Narrow-Band Filters Based on Subwavelength Grating Structures. (1996)

Thesis (Ph. D.)--University of Rochester. Institute of Optics, 1996.
Fluorinated Derivatives of Propane (1937)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTFluorinated Derivatives of PropaneAlbert L. Henne and Mary W. RenollCite this: J. Am. Chem. Soc. 1937, 59, 11, 2434–2436Publication Date (Print):November 1, 1937Publication History Published online1 May 2002Published inissue 1 November 1937https://pubs.acs.org/doi/10.1021/ja01290a096https://doi.org/10.1021/ja01290a096research-articleACS PublicationsRequest reuse permissionsArticle Views180Altmetric-Citations18LEARN 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
Substrate Specificity of a Mutant Alanyl-Transfer Ribonucleic Acid Synthetase of Escherichia coli (1971)

The correlation between the in vivo functioning and the in vitro behavior of the thermolabile alanyl-transfer ribonucleic acid (tRNA) synthetase (ARS) of Escherichia coli strain BM113 is presented. As a measure for the ARS activity inside the cell, the amount of acylated tRNA(ala) in vivo was determined. The rapid drop of the per cent tRNA(ala) charged which was observed upon shifting a culture of BM113 to the nonpermissive temperature indicates that in vivo acylation of tRNA(ala) might be the growth-limiting step at high temperature. Since neither growth nor the in vivo charging level of tRNA(ala) was affected by the addition of high l-alanine concentrations to the medium, one may infer that impaired functioning of the mutant enzyme at 40 C seems not to be due to reduced affinity of the enzyme for the amino acid. Separation of bulk tRNA of E. coli and of yeast on benzoylated diethylaminoethyl cellulose and charging of the fractions of the column by wild-type and mutant ARS reveal that only those tRNA species aminoacylated by the wild-type enzyme are also charged by the mutant ARS. Determination of the K(m) values of wild-type and mutant ARS for the three isoaccepting tRNA(ala) species of E. coli shows a ca. 10-fold increase of the apparent K(m) values of the mutant enzyme for all three species. Thus, the mutation proportionally reduces the apparent affinity for tRNA(ala) without causing any detectable recognition errors. Investigation of heat inactivation kinetics of wild-type and mutant ARS without and in the presence of substrates provides further evidence that only the transfer site of the ARS is altered by the mutation. Moreover, whereas both enzymes possess the same pH optimum of the relative maximal velocity, their pH dependence of the K(m) values for tRNA is different. The K(m) of the wild-type enzyme decreases at pH values below 7.0 and that of the mutant enzyme shows the inverse tendency; this again indicates an alteration of the tRNA binding site.
Increased vinblastine binding to membrane vesicles from multidrug-resistant KB cells. (1986)

Human KB carcinoma cells resistant to high levels of colchicine, vinblastine, vincristine, adriamycin, and actinomycin D exhibit reduced accumulation of these structurally unrelated chemotherapeutic agents (Akiyama, S.-I., Fojo, A., Hanover, J. A., Pastan, I., and Gottesman, M. M. (1985) Somatic Cell Mol. Genet. 11, 117-126; Fojo, A., Akiyama, S.-I., Gottesman, M. M., and Pastan, I. (1985) Cancer Res. 45, 3002-3007). To examine the mechanism of reduced drug accumulation in these cells, we measured [3H]vinblastine ([3H]VBL) binding to membrane vesicles made from drug-sensitive (KB-3-1), drug-resistant (KB-C4), and revertant (KB-R1) cells. Membrane vesicles from KB-C4 cells bound up to 8-fold more [3H]VBL than vesicles from the parental KB-3-1 or revertant KB-R1 cell lines. No difference in binding of [3H]dexamethasone, to which the cells are equally sensitive, was observed. The difference in [3H]VBL binding by vesicles from resistant and sensitive cells was eliminated by the addition of 10 micrograms/ml verapamil, which is known to reverse the multidrug-resistance phenotype. Drug binding by KB-C4 vesicles was osmotically insensitive, temperature-dependent, and trypsin-sensitive. Binding of [3H]VBL by KB-C4 vesicles was inhibited by vinblastine, vincristine, and daunomycin (in decreasing order). Dexamethasone at 100 microM, colchicine at 100 microM, and actinomycin D at 100 microM did not significantly inhibit [3H]VBL accumulation. No significant differences in tubulin content were detected among vesicles from sensitive and resistant cells. These data demonstrate that membrane vesicles from multiply drug-resistant cells bind increased amounts of vinblastine.
Identification of a cis-acting negative DNA element which modulates human hepatic triglyceride lipase gene expression (1993)

The promoter fragment -1550/+129 of the human hepatic triglyceride lipase (HTGL) gene drives the expression of the CAT gene in HepG2 cells, albeit at very low levels. Transient transfections in HepG2 and HeLa cells of 5' deletion constructs indicated that the regulatory elements that control this expression are located in the proximal region of the gene. DNase I footprint analysis with DNA fragments spanning the region -483 to +129 and rat liver nuclear extracts identified eight protected regions, four upstream of the transcription initiation site (A, -28 to -75; B, -96 to -106; C, -118 to -158; D, -185 to -255) and four in the first exon of the gene (E1, -5 to +20; E2, +36 to +55; E3, +58 to +83; E4, +86 to +107). DNA binding and footprinting analysis demonstrated that the region -75 to -43 within footprint A binds to the liver-specific transcription factor HNF1. The region +28 to +129 contains a functional negative regulatory element (NRE) since deletion of this region results in a 17-fold increase in CAT activity. The NRE can act independent of orientation and position and repress transcription driven by heterologous promoters. DNA binding assays using native and fractionated liver nuclear extracts identified two transcription factors that bind to element E2 and also to element E3. A dinucleotide mutation in element E2 which causes derepression of the HTGL gene by 10-fold also abolishes the binding of these two activities. Transfection experiments showed that deletion of the NRE allows expression of reporter constructs in HeLa cells, indicating that the NRE may play a determinant role for the expression of HTGL gene in hepatic cells.
Functional changes of the aging rat retina in relation to the modifications of the ERG components. (1976)

the intact eye of Wistar rat was stimulated with continual periodic light signals in the range of 0,001-500 lux and from 0,01 cps. up to the fusionfrequency. Using square-wave light stimuli of the frequency range from 0,01 to 0,1 cps. and intensity diapason of 0,1-1,0 lux the scotopic electroretinogram (ERG) consists of the following waves: b, b-negative, c, d, d-positive, respectively. At the beginning of the light sensitivity range, that is near above the threshold, on one part and over a stimulus intensity of 10 lux, on the other the ERG becomes more simple and looks appr. like a direct current (DC) response. Along with aging the ERG undergoes changing. The light sensitivity of the eye proved to be decreased, especially in the short wave range of the spectrum. Thus the ERG threshold becomes increased. The DC components are less apparent. The fast elements of high amplitudes are also missing. The slope of the frontal and descending part of the wave b gets lower. The fusion-frequency is lower with old animals as well. The spontaneous physiological biopotential noise level is significantly higher and the synchronity of elements participating in generating the ERG wave is less. Additionally a considerable great slowing-down of the adaptation processes were observed. Using light signals of different wave forms, it may be established, that differentiating ability of the retina declines more rapidly as aging advances than that of its light sensitivity.
Neuropeptides in the Respiratory Tract: Part II (1991)

"Neuropeptides in the Respiratory Tract: Part II." American Review of Respiratory Disease, 144(6), pp. 1391–1399
Competitive behaviors of a spiking neural network with spike timing dependent plasticity (2012)

Spike timing dependent plasticity (STDP) learning rule is one of hot topics in neurobiology since it's been widely believed that synaptic plasticity mainly contribute to learning and memory in brain. Up to now, STDP has been observed in a wide variety of areas of brain, hippocampus, cortex and so on. Competition among synapses is an important behavior for this learning rule. In present study, we propose a single layer spiking neural network model using STDP learning rule in inhibitory synapses to investigate the competitive behavior. The experiments show that the synapses among neurons are both strengthened on the whole training process. Thus neurons inhibit the activities of one another, eventually the neuron with the highest input spike rate win the competition. We have found that the behavior is efficient when the differences of firing rates of input neurons without STDP are great than 5Hz, otherwise the winner neuron is random. In order to use the principle to artificial intelligent system, we use a mechanism of dynamic learning rate to let the neuron with the highest input to be selected by the competitive behavior as the winner. Therefore, a robust competitive spiking neural network is obtained.
The major facilitator superfamily. (1999)

In 1998 we updated earlier descriptions of the largest family of secondary transport carriers found in living organisms, the major facilitator superfamily (MFS). Seventeen families of transport proteins were shown to comprise this superfamily. We here report expansion of the MFS to include 29 established families as well as five probable families. Structural, functional, and mechanistic features of the constituent permeases are described, and each newly identified family is shown to exhibit specificity for a single class of substrates. Phylogenetic analyses define the evolutionary relationships of the members of each family to each other, and multiple alignments allow definition of family-specific signature sequences as well as all well-conserved sequence motifs. The work described serves to update previous publications and allows extrapolation of structural, functional and mechanistic information obtained with any one member of the superfamily to other members with limitations determined by the degrees of sequence divergence.
Internet Protocol, Version 6 (IPv6) Specification (1998)

In IPv6,
Genetic analysis using genomic representations (1998)

Analysis of the genetic changes in human tumors is often problematical because of the presence of normal stroma and the limited availability of pure tumor DNA. However, large amounts of highly reproducible “representations” of tumor and normal genomes can be made by PCR from nanogram amounts of restriction endonuclease cleaved DNA that has been ligated to oligonucleotide adaptors. We show here that representations are useful for many types of genetic analyses, including measuring relative gene copy number, loss of heterozygosity, and comparative genomic hybridization. Representations may be prepared even from sorted nuclei from fixed and archived tumor biopsies.
Tumour suppressor genes in sporadic epithelial ovarian cancer (2002)

Ovarian cancer is the most frequent cause of death from gynaecological malignancies in the western world, and sporadic epithelial ovarian cancer is its most predominant form. The aetiology of sporadic ovarian cancer remains unknown. Genetic studies have enabled a better understanding of the evolution of tumour progression. A major focus of research has been to identify tumour suppressor genes implicated in sporadic ovarian cancer over the past decade. Several tumour suppressor genes have been identified by strategies such as positional cloning and differential expression display. Further research is warranted to understand fully their contribution to the pathogenesis of sporadic ovarian cancer.
Impaired c-Jun Amino Terminal Kinase Activity and T Cell Differentiation in Death Receptor 6–deficient Mice (2001)

During an immune response naive T helper (Th) cells differentiate into two functionally distinct subsets, Th1 and Th2, based on their cytokine secretion profile and immunomodulatory function. c-Jun amino terminal kinase (JNK) regulates Th cell differentiation by activating a transcriptional program required for cytokine production. We have recently identified a TNFR superfamily death domain-containing molecule, death receptor (DR)6, which potently activates JNK. T cells from DR6-deficient mice are substantially impaired in JNK activation. When DR6(-/-) mice were challenged with protein antigen, their T cells hyperproliferate and display a profound polarization toward a Th2 response whereas Th1 differentiation is not equivalently affected. In addition, DR6(-/)- T cells showed preference toward Th2 differentiation in vitro. The phenotype seen in the DR6(-/)- mice is not due to the apoptotic pathway. Therefore, DR6, working through JNK, rather than apoptosis, functions to attenuate the Th2 response. This is the first demonstration of a role in the activation and differentiation of Th cells by DR6 in particular and DRs in general.
Inhibition of angiopoietin-1 expression in tumor cells by an antisense RNA approach inhibited xenograft tumor growth in immunodeficient mice (2001)

Angiopoietin-1 (Ang1) is an angiogenic growth factor that functions through activation of its endothelium-specific tyrosine kinase receptor Tie2; it mediates the interaction between endothelial and surrounding cells to promote the remodeling, maturation and stabilization of blood vessels. Although Ang1 is expressed constitutively in many adult tissues, its role in tumor growth and metastasis is not clear. Here we describe experiments in which Ang1 expression was inhibited in HeLa cells by an antisense RNA approach. The modified HeLa cells produced significantly less Ang1 protein both in cultured cells and in tumors formed when these cells were injected into immunodeficient mice. The Ang1 antisense tumors grew much more slowly, with significantly reduced tumor angiogenesis compared with control tumors. Furthermore, they also had substantially increased tumor cell apoptosis and decreased tumor necrosis. Our results indicate that the perturbation of Ang1 expression in tumors could be an effective method to control tumor growth by inhibiting tumor angiogenesis and that antisense RNA is an efficient way to inhibit Ang1 protein production in tumor cells.
Chemical ligation of folded recombinant proteins: Segmental isotopic labeling of domains for NMR studies (1999)

A convenient in vitro chemical ligation strategy has been developed that allows folded recombinant proteins to be joined together. This strategy permits segmental, selective isotopic labeling of the product. The src homology type 3 and 2 domains (SH3 and SH2) of Abelson protein tyrosine kinase, which constitute the regulatory apparatus of the protein, were individually prepared in reactive forms that can be ligated together under normal protein-folding conditions to form a normal peptide bond at the ligation junction. This strategy was used to prepare NMR sample quantities of the Abelson protein tyrosine kinase-SH(32) domain pair, in which only one of the domains was labeled with 15N. Mass spectrometry and NMR analyses were used to confirm the structure of the ligated protein, which was also shown to have appropriate ligand-binding properties. The ability to prepare recombinant proteins with selectively labeled segments having a single-site mutation, by using a combination of expression of fusion proteins and chemical ligation in vitro, will increase the size limits for protein structural determination in solution with NMR methods. In vitro chemical ligation of expressed protein domains will also provide a combinatorial approach to the synthesis of linked protein domains.
Intravenous Administration of Bone Marrow Mesenchymal Stromal Cells is Safe for the Lung in a Chronic Myocardial Infarction Model (2011)

Although the majority of intravenous infused cells were harbored in the lung, they did not cause deterioration of lung function. However, they did not activate the release of inflammatory/anti-inflammatory proteins, or stimulate angiogenesis or myogenesis in the old infarcted myocardium. Thus, intravenous administration of MSCs for chronic MI needs further experimental study.
Growth and development of the digestive organs and some enzymes in broiler chicks after hatching∗ (1991)

1. Body weight and the weight of the digestive organs and activities of some digestive enzymes were determined from hatching to 23 d of age. 2. Relative daily growth rate peaked at 11 d of age (22% gain/d) and then decreased gradually. 3. The vitelline residue was decreased rapidly from 4.6 g at hatching to negligible values from 4 d of age. 4. Maximal allometric growth of the pancreas and small intestine was 4-fold and that of liver 2-fold greater than that of the body. 5. Activities (units/kg body weight) of the digestive enzymes measured in the pancreas and intestinal contents increased with age. In the pancreas maximal values were attained on day 8 for amylase and lipase and 11 for trypsin and chymotrypsin. In the small intestine maxima were attained on day 4 for lipase, 11 for trypsin and chymotrypsin and 17 for amylase. 6. The development of secretion of digestive enzymes in the post-hatched chick could be a limiting factor in digestion and subsequently in food intake and growth.
Multi-antenna adaptive modulation and transmit beamforming based on bandwidth-constrained feedback (2004)

Adaptive modulation has the potential to increase system throughput considerably by matching transmission parameters to the time-varying channel conditions. Crucial to adaptive systems is the requirement of a feedback channel, that often carries only a limited number of bits. Under such a bandwidth-constrained feedback link, we aim to optimize a multi-antenna system based on transmit beamforming and adaptive modulation, where the transmit-power, the signal constellation, the beamforming direction, and the feedback strategy, are designed jointly. Our proposed nested iterative approach leads to an approximate yet practical solution. Simulation results demonstrate considerable improvement in transmission rate, as the number of feedback bits increases.
The impact of non‐immersive head‐mounted displays (HMDs) on the visual field (2003)

Abstract— Binocular head‐mounted displays (HMDs) that could be used non‐immersively produced substantial interruption of the visual field. Monocular HMDs designed to be used non‐immersively created minimal interruption of the visual fields. The scotomata are small enough to allow the HMD to be worn in mobile situations, but inattention associated with use of the HMD may cause safety concerns for some mobile situations. A small opaque display can be positioned to provide a see‐through functionality.