gebhart/patrepeval huggingface dataset:
Automated Real-Time Measurement of Chemotactic Cell Motility (2001)

We have developed a novel method, (ECIS/taxis), for monitoring cell movement in response to chemotactic and chemokinetic factors. In this system, cells migrate in an under-agarose environment, and their positions are monitored using the electric cell-substrate impedance sensor technology to measure the impedance change at a target electrode, that is lithographed onto the substrate, as the cells arrive at the target. In the studies reported here, Dictyostelium discoideum was used as a prototypical, motile eukaryotic cell. Using the ECIS/taxis system, the arrival of cells at the target electrode was proportional to the dose offolate used to stimulate the cells and could be assessed by changes in resistance at the electrode. ECIS/taxis was readily able to distinguish between wild-type cells and a mutant that is deficient in its chemotactic response. Finally, we have shown that an agent that interferes with chemotactic motility leads to the delayed arrival of cells at the target electrode. The multi-well assay configuration allows for simultaneous automated screening of many samples for chemotactic or anti-chemotactic activity. This assay system is compatible with measurements of mammalian cell movement and should be valuable in the assessment of both agonists and antagonists of cell movement.
The InterPro Database, 2003 brings increased coverage and new features (2003)

InterPro, an integrated documentation resource of protein families, domains and functional sites, was created in 1999 as a means of amalgamating the major protein signature databases into one comprehensive resource. PROSITE, Pfam, PRINTS, ProDom, SMART and TIGRFAMs have been manually integrated and curated and are available in InterPro for text- and sequence-based searching. The results are provided in a single format that rationalises the results that would be obtained by searching the member databases individually. The latest release of InterPro contains 5629 entries describing 4280 families, 1239 domains, 95 repeats and 15 post-translational modifications. Currently, the combined signatures in InterPro cover more than 74% of all proteins in SWISS-PROT and TrEMBL, an increase of nearly 15% since the inception of InterPro. New features of the database include improved searching capabilities and enhanced graphical user interfaces for visualisation of the data. The database is available via a webserver (http://www.ebi.ac.uk/interpro) and anonymous FTP (ftp://ftp.ebi.ac.uk/pub/databases/interpro).
Morphology-dependent photonic circuit elements (2006)

We theoretically propose and experimentally demonstrate the design of a novel one-dimensional ringlike macroscopic optical circuit element. The similarity between morphologies of an optical planar waveguide and a whispering-gallery axially symmetric solid-state resonator is used.
Stimulation of factor-dependent myeloid cell lines with interleukin 3 induces tyrosine phosphorylation of several cellular substrates. (1988)

Interleukin 3 (IL-3) is required for the proliferation of growth factor-dependent myeloid cell lines. To determine the possible signal transduction mechanisms involved in IL-3 growth regulation, we have examined the effects of IL-3 on tyrosine phosphorylation. Using a monoclonal antibody against phosphotyrosine, IL-3 was found to specifically and rapidly induce tyrosine phosphorylation of cytoplasmic proteins of 70, 56, and 38 kDa and a membrane-associated glycoprotein of 140 kDa. Minor and/or variable detected phosphoproteins of 120, 85, 51, and 28 kDa were also seen. Oncogenes encoding tyrosine protein kinases abrogate the requirement of factor-dependent myeloid cells for IL-3. We therefore compared the phosphoprotein profiles of a transformed, IL-3-independent cell line with the IL-3-induced profile. In cells transformed with trk, the 56-, 51-, and 38-kDa cytoplasmic phosphoproteins were constitutively phosphorylated, whereas the 140-kDa phosphoprotein was only phosphorylated in the presence of IL-3. Taken together, these results support a role for tyrosine phosphorylation in the IL-3 signal transduction pathway and suggest that growth factor abrogation by oncogenes encoding tyrosine protein kinases may be due to the phosphorylation of substrates which are normally phosphorylated in response to IL-3.
Sphenopalatine Ganglion Radiofrequency Ablation for the Management of Chronic Cluster Headache (2008)

Our data showed that percutaneous RFA of the SPG is an effective modality of treatment for patients with intractable chronic cluster headaches. Precise needle placement with the use of real-time fluoroscopy and electrical stimulation prior to attempting radiofrequency lesioning may reduce the incidence of adverse events.
Design tips of nanoapertures with strong field enhancement and proposal of novel L-shaped aperture (2005)

We summarize some design tips and design procedures of nanoapertures with strong field enhancement, based on the theoretical calculations and analyses of near-field distributions of unconventional C apertures and bow-tie apertures by a finite-difference time-domain method. A novel L-shaped aperture is proposed and further validates the proposed design rule. As a result, a 15×15-nm full width half maximum spot forms in the light exit plane of the L aperture. Its intensity maximum enhancement reaches a factor of about 568 and the power throughput is bigger than unity. The mechanisms of electromagnetic field enhancement are preliminarily analyzed. This unconventional nanoaperture is likely to be directly used as an exit aperture of very small aperture lasers, or as an unattached shield, to produce a subwavelength light source with high transmission.
Control of Erythropoietin Production (1983)

Erythropoietin has been known to be the primary humoral agent which regulates erythropoiesis since the early work in 1906 of Carnot and DeFlandre (1). This hormone was first called "hemopoietine" (1) but has subsequently been named "erythropoietin" (Ep) by Bonsdorff and Jalavisto (2). Reissman's experiments (3), in which one of two parabiotic rats was exposed to an atmosphere of reduced oxygen tension and erythropoietic stimulation was seen in both the hypoxic and nonhypoxic partners, awakened renewed interest in a humoral control of erythropoiesis. Erslev (4) confirmed the Carnot experiments (1) when he injected large quantities of plasma from phlebotomized rabbits into recipient animals and found erythropoietic stimulation. The kidney was established as the primary site of production of erythropoietin with the finding by Jacobson <et al. (5) in 1957 that bilateral nephrectomy abolished the erythropoietic response of rats to bleeding. More direct evidence for the role of the kidney was provided in the reports by Kuratowska <et al. (6) and Fisher and Birdwell (7) in 1961 when these investigators demonstrated that erythropoietin could be produced in the isolated perfused kidney following hypoxemic perfusion of the rabbit kidney (6) and the isolated dog kidney perfused with blood containing cobalt (7). This was confirmed by Reissmann and Nomura (167) and by Pavlovic-Kentera <et al. (221) who demonstrated increased Ep levels in the hypoxemic perfused dog (221) and rabbit (167) kidneys. Fisher and Langston (8) demonstrated later that cobalt and hypoxemic perfusion of the isolated perfused dog kidney produced an apparent synergistic effect by enhancing erythropoietin production in the kidney. The mechanism for the control of kidney production of erythropoietin is not well understood but is postulated to be regulated by the oxygen level in a critical renal sensor cell, and has been the subject of several investigations and reviews (9-17).
On sharing secrets and Reed-Solomon codes (1981)

Shamir's scheme for sharing secrets is closely related to Reed-Solomon coding schemes. Decoding algorithms for Reed-Solomon codes provide extensions and generalizations of Shamir's method.
Liquid-phase adaptive femtosecond quantum control: Removing intrinsic intensity dependencies (2003)

Femtosecond adaptive pulse shaping of 800-nm laser pulses is applied to control the multiphoton molecular excitation of the charge-transfer coordination complex [Ru(dpb)3](PF6)2 (where dpb=4,4′-diphenyl-2,2′-bipyridine) dissolved in methanol. A phase-only femtosecond pulse shaper provides a mechanism for multiparameter (128) variation of the incident field, and a closed-loop evolutionary algorithm optimizes pulse shapes within the vast search space. Molecular emission at 620 nm is used as experimental feedback which is proportional to the excited-state population in the long-lived MLCT3 (metal-to-ligand charge-transfer) state. The dominant intensity dependence of the multiphoton excitation process is removed by using second-harmonic generation (SHG) in a thin optical crystal as a general “reference” signal. Successful control of the emission/SHG ratio demands that the field adapt to the electronic structure or dynamic needs of the molecule in solution. This suggests that adaptive femtosecond pulse shaping can provide a general means of finding field shapes capable of selectively exciting molecules based on their unique optical properties.
Removal of nuisance signals from limited and sparse 1H MRSI data using a union‐of‐subspaces model (2015)

Nuisance signals in (1) H MRSI data reside in low-dimensional subspaces. This property can be utilized for estimation and removal of nuisance signals from (1) H MRSI data even when they have limited and/or sparse coverage of (k, t)-space. The proposed method should prove useful especially for accelerated high-resolution (1) H MRSI of the brain.
Simulation studies of the behavior of multihop broadcast networks (1983)

The performance (throughput and delay) of the multihop broadcast communication networks is studied via a simulation model that includes channel access, transmission scheduling, buffer, management, and hop-by-hop acknowledgment protocols. The parameters considered are the data and acknowledgment packets transmission probabilities, timeout periods, and buffer sizes. The performance of echo acknowledgment, all-active acknowledgment, and a mixed acknowledgment scheme based on nodes connectivities are also studied. Systems parameters that yield best performance for each configuration are given. Our studies reveal that the string configuration yielded better throughput than the star configuration; further, echo acknowledgment yield better performance than active acknowledgment in a string multihop broadcast network.
The hinge region of the CD8α chain: structure, antigenicity, and utility in expression of immunoglobulin superfamily domains (1992)

The lymphocyte surface CD8 antigen is a heterodimer with each chain containing a single Ig-related domain, a hinge-like sequence, a transmembrane segment, and a short cytoplasmic sequence. A soluble form of the rat CD8 alpha chain was produced by introducing a stop codon into the cDNA at the end of the region encoding the extracellular sequence and expressed in Chinese hamster ovary cells. sCD8 alpha was produced at 20 mg/l, and consisted of monomers, dimers, and higher aggregates. The latter could be minimized, but not eliminated, by removal of one of the two cysteine residues in the hinge region by mutation and by growth in serum-free medium. The positions of the N- and O-linked glycosylation sites and the disulphide bond in the Ig-like domain were determined. The MRC OX-8 antibody was shown to react with a region from the CD8 alpha hinge containing 24 amino acids and the antigenic determinant was sensitive to neuraminidase digestion. A construct encoding the Ig-like domain of rat CD8 alpha without the hinge was not expressed in CHO cells, indicating the importance of the hinge region for expression. It seemed possible that the CD8 alpha hinge might facilitate expression of other Ig-related domains and such expression could be detected using the MRC OX-8 antibody. To test the system cDNA constructs were made with the rat CD8 alpha hinge spliced to the V-like domain of mouse CD8 alpha, to the V alpha and V beta domains of a T lymphocyte antigen receptor, and to one or both of the Ig-like domains of the MRC OX-47 membrane antigen. All these forms were expressed as soluble proteins that were detected with the MRC OX-8 antibody. This method may prove useful for the expression of Ig superfamily domains for raising antibodies and other studies.
Earliest Mineral and Matrix Changes in Force-Induced Musculoskeletal Disease as Revealed by Raman Microspectroscopic Imaging (2004)

This study found that osteogenic fronts subjected to uniaxial compression had decreased relative mineral content compared with unloaded osteogenic fronts, presumably because of new and incomplete mineral deposition. Increased matrix production in osteogenic fronts undergoing craniosynostosis was observed. Understanding how force affects the composition, relative amounts, and location of the mineral and matrix provides insight into musculoskeletal disease in general and craniosynostosis in particular. This is the first report in which Raman microspectroscopy was used to study musculoskeletal disease. These data show how Raman microspectroscopy can be used to study subtle changes that occur in disease.
Synthesis of Luminescent Silicon Nanopowders Redispersible to Various Solvents (2005)

Silicon nanopowder with a narrow size distribution was synthesized by a simple method, in which amorphous SiO(x) (x < 2) powder as starting material was annealed at high temperature and then etched by hydrofluoric acid (HF). Si nanoparticles thus obtained exhibited emission in the ultraviolet and visible regions under excitation at an energy corresponding to the direct band-gap transition. At the same time, they could be redispersed in various organic solvents such as octanol, toluene, etc., without surfactants or capping molecules on particle surfaces. X-ray diffraction and Fourier transform infrared spectroscopy were used to follow the change of components in the sample during annealing and HF etching processes, and the size distribution and dispersion morphology of the nanoparticles in different solvents were revealed by transmission electron microscopy analysis.
Integrando ferramentas de auxílio ao diagnóstico no sistema de arquivamento e comunicação de imagens (2011)

OBJETIVO: Este artigo apresenta um modelo de integração de algoritmos de diagnóstico auxiliado por computador dentro do fluxo de trabalho dos sistemas de gerenciamento de imagens, desenvolvido com base em um conjunto de ferramentas computacionais de código aberto e uso livre chamado dcm4che2. MATERIAIS E MÉTODOS: O modelo de integração é composto por um servidor de processamento de imagens e por serviços de comunicação. O gerenciamento de dados segue o fluxo de trabalho definido pelo perfil de pós-processamento (PWF) do Integrating the Healthcare Enterprise (IHE) e utiliza a funcionalidade de captura secundária do DICOM. Uma aplicação para lesões difusas de pulmão foi utilizada para prova de conceito. RESULTADOS: O algoritmo de classificação de padrões apresentou acurácia de 78%, com base em um método de teste de validação cruzada. A integração possibilita a visualização das imagens processadas como uma nova série dentro do estudo original. CONCLUSÃO: O modelo de integração proposto baseiase em perfis do IHE e permite o estabelecimento de procedimentos padronizados. Os princípios utilizados para integração do fluxo de trabalho são aplicáveis para qualquer tarefa não interativa de pós-processamento de imagens.
Characterization of [125I]‐SB‐258585 binding to human recombinant and native 5‐HT6 receptors in rat, pig and human brain tissue (2000)

SB-258585 (4-Iodo-N-[4-methoxy-3-(4-methyl-piperazin-1-yl)-phenyl]-benzen esulphonamide) is a high affinity ligand at 5-HT(6) receptors. It displays over 100 fold selectivity for the 5-HT(6) receptor over all other 5-HT receptors tested so far. SB-258585 has been radiolabelled, to high specific activity, for its characterization as a 5-HT(6) receptor selective radioligand. [(125)I]-SB-258585 bound, with high affinity, to a single population of receptors in a cell line expressing human recombinant 5-HT(6) receptors. Kinetic and saturation binding experiments gave pK(D) values of 9.01+/-0.09 and 9.09+/-0.02, respectively. In membranes derived from rat or pig striatum and human caudate putamen, [(125)I]-SB-258585 labelled a single site with high levels (>60%) of specific binding. Saturation analysis revealed pK(D) values of 8.56+/-0.07 for rat, 8.60+/-0.10 for pig and 8.90+/-0.02 for human. B(max) values for the tissues ranged from 173+/-23 and 181+/-25 fmol mg(-1) protein in rat and pig striatum, respectively, to 215+/-41 fmol mg(-1) protein in human caudate putamen. The pK(i) rank order of potency for a number of compounds, determined in competition binding assays with [(125)I]-SB-258585, at human caudate putamen membranes was: SB-271046>SB-258585>SB-214111>methiothepin>clozapine>5-Me-OT>5-HT>Ro 04-6790>mianserin>ritanserin=amitriptyline>5-CT>mesulergine. Similar profiles were obtained from pig and rat striatal membranes and recombinant 5-HT(6) receptors; data from the latter correlated well with [(3)H]-LSD binding. Thus, [(125)I]-SB-258585 is a high affinity, selective radioligand which can be used to label both recombinant and native 5-HT(6) receptors and will facilitate further characterization of this receptor subtype in animal and human tissues.
Ligand Binding Properties and Esterase-like Activity of Recombinant Human Serum Albumin (1996)

The ligand binding properties and esterase-like activity of recombinant human serum albumin (rHSA) expressed by Pichia pastoris were compared with those of plasma derived human albumin (pHSA). The binding of long fatty acid ions was determined by the equilibrium partition method using radiolabeled palmitate. The association constants and the number of binding sites of diazepam, salicylate and warfarin were determined by specific and nonspecific binding models. The high affinity binding of bilirubin was kinetically determined from the oxidation rate of free bililubin in the binding mixture. The binding parameters of these five ligands obtained with rHSA were within the same range observed with pHSA preparations. The kinetic parameters for hydrolytic activity of rHSA toward p-nitrophenyl acetate was also similar to pHSA. These results indicate that rHSA and pHSA have the same functional property.
Wireless over cable for femtocell systems (2013)

Interference control is crucial to reach the expected spectral efficiencies in femtocell systems. Centralized and joint baseband (BB) processing of all femtocell signals can reduce inter-cell/intra-cell interference at the expense of fast signaling and strict synchronization to coordinate the multiple femtocell links. In this article, we revisit the conventional femtocell architecture by proposing the multi-cell baseband processing for interference mitigation based on a distributed antennas system. The proposed configuration resorts to the wireless over cable (WoC) paradigm and is based on the concept of replacing the in-house base station (Femtocell Access Point) with a home-device that simply transfers the analog radio frequency (RF) signals from the air-link to the existing cable connections. These home-devices act as bidirectional amplify-and-forward (AF) relays of air signals toward cable (and vice-versa) by operating a frequency conversion of the wireless spectrum to accommodate the cable specifications and coexistence with other services. Splitting RF processing (at home) from baseband processing (centralized at the nearest street cabinet or central office collecting multiple cables) guarantees that multi-cell processing exploits the same advantages as MIMO systems. The analysis of WoC for twisted pair telephone lines shows the advantages of the FemtoWoC architecture despite the coexistence with other interfering xDSL services over the cable, or the propagation over the widely deployed copper wirelines.
Blocking primers to enhance PCR amplification of rare sequences in mixed samples – a case study on prey DNA in Antarctic krill stomachs (2008)

We present a simple, robust and cheap method that is easily adaptable to many situations where a rare DNA template is to be PCR amplified in the presence of a higher concentration template with identical PCR primer binding sites.
Vesicular Stomatitis Virus Infection and Neuropathogenesis in the Murine Model are Associated with Apoptosis (2003)

This study examines apoptosis and viral neuropathogenesis in a murine model infected with vesicular stomatitis virus (VSV). VSV induces apoptotic cell death in cultured cell lines, raising the possibility that apoptosis of infected neurons and other target cells may contribute to disease and mortality. To determine whether or not VSV induces apoptosis in neural tissues, mice were inoculated intranasally with VSV. At 24, 48, 72, 96, and 120 hours postinfection, brain tissues were assayed for the presence of viral RNA by in situ hybridization and viral antigen by immunohistochemistry. Apoptosis was identified by in situ terminal deoxynucleotidyl transferase-mediated deoxyuridine triphosphate nick end labeling and electron microscopy. Viral replication and lesions were observed predominantly in central nervous system neurons. Apoptotic cell death was restricted to the same regions of the brain in which infected cells and tissue injury were identified. Results suggest that VSV-induced apoptosis is a mechanism causing cell death, tissue injury, and mortality in VSV-infected mice.
Allele-specific replication of 15q11-q13 loci: a diagnostic test for detection of uniparental disomy. (1996)

Allele-specific replication differences have been observed in imprinted chromosomal regions. We have exploited this characteristic of an imprinted region by using FISH at D15S9 and SNRPN (small nuclear ribonucleo protein N) on interphase nuclei to distinguish between Angelman and Prader-Willi syndrome patient samples with uniparental disomy of chromosome 15q11-q13 (n = 11) from those with biparental inheritance (n = 13). The familial recurrence risks are low when the child has de novo uniparental disomy and may be as high as 50% when the child has biparental inheritance. The frequency of interphase cells with asynchronous replication was significantly lower in patients with uniparental disomy than in patients with biparental inheritance. Within the sample population of patients with biparental inheritance, those with altered methylation and presumably imprinting center mutations could not be distinguished from those with no currently detectable mutation. This test is cost effective because it is performed on interphase cells from the same hybridized cytological preparation in which a deletion is excluded, and additional specimens are not required to determine the parental origin of chromosome 15.