gebhart/patrepeval huggingface dataset:
Association of low nm23 RNA levels in human primary infiltrating ductal breast carcinomas with lymph node involvement and other histopathological indicators of high metastatic potential. (1989)

Expression of a recently identified murine gene, nm23, has been previously proposed to be inversely correlated to tumor metastatic potential in rodent model systems. The present study was designed to investigate whether nm23 RNA was detectable in human tumor tissue, and if it was differentially expressed. nm23 RNA levels in 27 human primary infiltrating ductal breast carcinomas were determined by using Northern blots or in situ hybridization. These data were compared to traditional histopathological indicators of metastatic potential, including the number of involved (tumor bearing) lymph nodes, grade of differentiation, and hormone receptor status. A striking consistency was observed in all tumors from patients with involved lymph nodes. Using Northern blot or in situ hybridizations, all of these tumors expressed low levels of nm23 RNA. Quantitative in situ hybridization on tumors from patients with 0 involved lymph nodes identified two groups: (a) approximately 75% contained high nm23 RNA levels, and (b) 25% contained significantly (alpha = 0.05) lower nm23 RNA levels. Low nm23 RNA levels in the 0 involved lymph node tumors were accompanied by two additional histopathological indicators of high metastatic potential, low nuclear and cytoplasmic estrogen receptor content, and poorly differentiated histological grade. In contrast, none of the high nm23 RNA level tumors were both receptor negative and poorly differentiated. We conclude that nm23 RNA levels are differentially expressed in human breast tumors, and that low nm23 RNA levels are associated with histopathological indication of high metastatic potential. Short term (median follow-up of 16 months) clinical course data were consistent with nm23 RNA levels, in that 2 of 11 low nm23 RNA content patients (including one from the 0 involved lymph node group) developed metastases, while none of the high nm23 RNA patients have experienced recurrent disease.
Microfluidic sorting with high-speed single-layer membrane valves (2010)

Sorting is one of the most important applications of microfluidic devices; however, current sorters place specific requirements on the density, size, and electrical properties of the objects to be sorted, limiting applicability. We present widely applicable microfluidic sorting. We use high-speed single-layer membrane valves to control flows in a bifurcating channel junction, to direct the paths of objects. This allows sorting at hundreds of hertz. Moreover, since the sorting action is mechanical, it is very widely applicable—to drops, particles, and even living cells.
An update on the mechanism of action of tetanus and botulinum neurotoxins. (2011)

Tetanus and botulinum neurotoxins, produced by anaerobic bacteria of the genus Clostridium, are the most toxic proteins known and are the sole responsible for the pathogenesis of tetanus and botulism. They enter peripheral cholinergic nerve terminals and cleave proteins of the neuroexocytosis apparatus causing a persistent, but reversible, inhibition of neurotransmitter release. Botulinum neurotoxins are used in the therapy of many human syndromes caused by hyperactive cholinergic nerve terminals. Here we focus on the many advances that were recently made on the understanding of their molecular mechanism of action and on their use in human therapy.
Effects of Administration Route on Migration and Distribution of Neural Progenitor Cells Transplanted into Rats with Focal Cerebral Ischemia, an MRI Study (2009)

We tested the hypotheses that administration routes affect the migration and distribution of grafted neural progenitor cells (NPCs) in the ischemic brain and that the ischemic lesion plays a role in mediating the grafting process. Male Wistar rats (n=41) were subjected to 2-h middle cerebral artery occlusion (MCAo), followed 1 day later by administration of magnetically labeled NPCs. Rats with MCAo were assigned to one of three treatment groups targeted for cell transplantation intra-arterially (IA), intracisternally (IC), or intravenously (IV). MRI measurements consisting of T2-weighted imaging and three-dimensional (3D) gradient echo imaging were performed 24 h after MCAo, 4 h after cell injection, and once a day for 4 days. Prussian blue staining was used to identify the labeled cells, 3D MRI to detect cell migration and distribution, and T2 map to assess lesion volumes. Intra-arterial (IA) administration showed significantly increased migration, a far more diffuse distribution pattern, and a larger number of transplanted NPCs in the target brain than IC or IV administration. However, high mortality with IA delivery (IA: 41%; IC: 17%; IV: 8%) poses a serious concern for using this route of administration. Animals with smaller lesions at the time of transplantation have fewer grafted cells in the parenchyma.
Molecular and Physiological Evidence for Glutamate (Umami) Taste Transduction via a G Protein‐Coupled Receptora (1998)

Recent molecular analyses have demonstrated that a metabotropic glutamate receptor, mGluR4, is expressed in taste buds from rat circumvallate and foliate papillae. Behavioral studies demonstrated that L(+)-2-amino-4-phosphonobutyric acid (L-AP4), an agonist for mGluR4 and related receptors, mimics the taste of monosodium glutamate (MSG) in rats. mGluR4 is known to signal through inhibition of the cyclic adenosine-5',3'-monophosphate (cAMP) cascade. Circumvallate and foliate taste buds exhibit decreases of cAMP levels following stimulation with MSG, and the response is potentiated by 5'-inosine monophosphate, suggesting that it is related to umami taste. Further, experiments on mice with the mGluR4 gene knocked out support the interpretation that mGluR4 is a key component in glutamate taste. Glutamate may also stimulate taste buds through an ionotropic receptor pathway. In patch-clamp studies, glutamate evokes two types of currents, similar to those elicited by N-methyl-D-aspartate (NMDA) and L-AP4. We speculate upon the significance of two glutamate receptor pathways in taste buds.
Efficacy of Charge Sharing in Reshaping the Surface Electric Field in High-Voltage Lateral RESURF Devices (2004)

A simple one-dimensional (1-D) analytical solution method for analyzing and determining the breakdown properties of reduced surface field (RESURF) lateral devices is presented. The solution demonstrates quantitatively and qualitatively the reshaping and reduction of the electric field and its dependence on the device/process key parameters. The solution is based on a simple and physical charge-sharing approach that takes into account the modulation of the lateral depletion layer spreading caused by the vertical depletion extension, and therefore transforms the inherent two-dimensional effects into a simple 1-D equivalent. It also provides a reasonable insight on the breakdown voltage sensitivity of lateral RESURF devices to key device/process parameters that other researchers failed to provide. Using the technique, device designers can set and choose the optimal processing window of the device's critical layers to yield high breakdown voltages. The results obtained using the proposed solution method agree well with the experimental and simulation results.
Potato Glycoalkaloids and Metabolites:  Roles in the Plant and in the Diet (2006)

Potatoes, members of the Solanaceae plant family, serve as major, inexpensive low-fat food sources providing energy (starch), high-quality protein, fiber, and vitamins. Potatoes also produce biologically active secondary metabolites, which may have both adverse and beneficial effects in the diet. These include glycoalkaloids, calystegine alkaloids, protease inhibitors, lectins, phenolic compounds, and chlorophyll. Because glycoalkaloids are reported to be involved in host-plant resistance and to have a variety of adverse as well as beneficial effects in cells, animals, and humans, a need exists to develop a clearer understanding of their roles both in the plant and in the diet. To contribute to this effort, this integrated review presents data on the (a) history of glycoalkaloids; (b) glycoalkaloid content in different parts of the potato plant, in processed potato products, and in wild, transgenic, and organic potatoes; (c) biosynthesis, inheritance, plant molecular biology, and glycoalkaloid-plant phytopathogen relationships; (d) dietary significance with special focus on the chemistry, analysis, and nutritional quality of low-glycoalkaloid potato protein; (e) pharmacology and toxicology of the potato glycoalkaloids comprising alpha-chaconine and alpha-solanine and their hydrolysis products (metabolites); (f) anticarcinogenic and other beneficial effects; and (g) possible dietary consequences of concurrent consumption of glycoalkaloids and other biologically active compounds present in fresh and processed potatoes. An enhanced understanding of the multiple and overlapping aspects of glycoalkaloids in the plant and in the diet will benefit producers and consumers of potatoes.
Uptake of Heterologous Genome by Mammalian Spermatozoa and Its Transfer to Ova through Fertilization (1971)

Simian virus 40 (SV40) adsorbs on rabbit spermatozoa but does not penetrate the cells, as indicated by the absence of radioactive material seen on autoradiography of spermatozoa exposed to [(3)H]thymidine-labeled SV40. In contrast, after exposure of spermatozoa to labeled SV40 DNA, radioactive material was found in the postacrosomal area of the spermatozoa. Furthermore, when spermatozoa exposed to SV40 DNA were fused with cells of the CV-1 line of African green monkey kidney cells, infectious SV40 was isolated. After uterine insemination of rabbits with spermatozoa infected with SV40 DNA, both unfertilized and one- and two-celled fertilized ova were obtained. When the fertilized ova were cocultivated with CV-1 cells, infectious virus was recovered. In contrast, CV-1 cells exposed to the unfertilized ova or to zonae pellucidae or polar bodies from the fertilized ova did not show a cytopathic effect. This report provides the first evidence that a heterologous genome can be incorporated into a mammalian spermatozoon and subsequently carried into an ovum during the process of fertilization.
Microfibril-associated glycoprotein: Characterization of the bovine gene and of the recombinantly expressed protein (1994)

Microfibrils having a diameter of 10-12 nm, found either in association with elastin or independently, are an important component of the extracellular matrix of many tissues. Because isolation of native proteins composing the microfibrils has proven difficult, information on structure/function relationships is limited. In order to extend our understanding of the 31-kDa microfibril-associated glycoprotein (MAGP), the bovine gene has been cloned and characterized and the protein has been expressed in a eukaryotic system. The compact coding portion of the gene is contained in 4.5 kbp of genomic DNA and does not appear to share any domain motifs with other known proteins. The size, amino acid composition, and sequence of the amino terminus of the secreted recombinant protein (rMAGP) all agree with values predicted by the nucleotide sequence of the cDNA used in the expression vector. The rMAGP reacts with a monospecific antibody prepared against a defined amino acid sequence of the natural molecule and reacts specifically with recombinantly produced tropoelastin, suggesting that rMAGP will be a useful reagent with which to study its interaction with other extracellular matrix components.
Quinolone Carboxylic Acids as a Novel Monoketo Acid Class of Human Immunodeficiency Virus Type 1 Integrase Inhibitors (2009)

Human immunodeficiency virus type 1 (HIV-1) integrase is a crucial target for antiretroviral drugs, and several keto-enol acid class (often referred to as diketo acid class) inhibitors have clinically exhibited marked antiretroviral activity. Here, we show the synthesis and the detailed structure-activity relationship of the quinolone carboxylic acids as a novel monoketo acid class of integrase inhibitors. 6-(3-Chloro-2-fluorobenzyl)-1-((2S)-1-hydroxy-3,3-dimethylbutan-2-yl)-7-methoxy-4-oxo-1,4-dihydroquinoline-3-carboxylic acid 51, which showed an IC50 of 5.8 nM in the strand transfer assay and an ED50 of 0.6 nM in the antiviral assay, and 6-(3-chloro-2-fluorobenzyl)-1-((2S)-1-hydroxy-3-methylbutan-2-yl)-7-methoxy-4-oxo-1,4-dihydroquinoline-3-carboxylic acid 49, which had an IC50 of 7.2 nM and an ED50 of 0.9 nM, were the most potent compounds in this class. The monoketo acid 49 was much more potent at inhibiting integrase-catalyzed strand transfer processes than 3'-processing reactions, as is the case with the keto-enol acids. Elvitegravir 49 was chosen as a candidate for further studies and is currently in phase 3 clinical trials.
Singularity (2007)

Every operating system embodies a collection of design decisions. Many of the decisions behind today's most popular operating systems have remained unchanged, even as hardware and software have evolved. Operating systems form the foundation of almost every software stack, so inadequacies in present systems have a pervasive impact. This paper describes the efforts of the Singularity project to re-examine these design choices in light of advances in programming languages and verification tools. Singularity systems incorporate three key architectural features: software-isolated processes for protection of programs and system services, contract-based channels for communication, and manifest-based programs for verification of system properties. We describe this foundation in detail and sketch the ongoing research in experimental systems that build upon it.
Divergent molecular phenotypes of KG1 and KG1a myeloid cell lines (1986)

The cell line KG1 derived from a patient with erythroleukemia in myeloblastic relapse has the composite phenotype and functional repertoire of myeloblasts. In marked contrast, its subline KG1a has lost myeloid features, acquired new karyotypic markers, and has three characteristics associated with immature T cells: low-level expression of the T cell receptor beta mRNA (but not alpha) transcribed from a germline gene; high-level expression of T3 delta mRNA and intracellular, but not cell surface, T3 protein; and expression of the CD7/gp40 T cell-associated membrane antigen. Both KG1 and KG1a transcribe unrearranged IgH genes. These data suggest that either the KG1 cell line was derived from a common myeloid-lymphoid progenitor or that the KG1a subline phenotype is aberrant.
Proximity-based reminders using Bluetooth (2014)

A smartphone is a personal device and as such usually hosts multiple public user identities such as a phone number, email address, and Facebook account. As each smartphone has a unique Bluetooth MAC address, Bluetooth discovery can be used in combination with the user registration to a server with a Facebook account. This makes it possible to identify a nearby smartphone related to a given Facebook contact. Using this capability, we designed Memorit, an application that handles reminders alerting the user when a contact is nearby her/him. This way it is possible to trigger a user-defined reminder, for example to give back a book, when a registered contact comes in proximity. Data collected from Memorit will allow study of pervasive social context. This paper gives an overview of Memorit, its features, implementation, and evaluates its applicability through a user study.
Using a Multijunction Microfluidic Device To Inject Substrate into an Array of Preformed Plugs without Cross-Contamination:  Comparing Theory and Experiments (2007)

In this paper we describe a multijunction microfluidic device for the injection of a substrate into an array of preformed plugs carried by an immiscible fluid in a microchannel. The device uses multiple junctions to inject substrate into preformed plugs without synchronization of the flow of substrate and the array of preformed plugs of reagent, which reduces cross-contamination of the plugs, eliminates formation of small droplets of substrate, and allows a greater range of injection ratios compared to that of a single T-junction. The device was based on a previously developed physical model for transport that was here adapted to describe injection and experimentally verified. After characterization, the device was applied to two biochemical assays, including evaluation of the enzymatic activity of thrombin and determination of the coagulation time of human blood plasma, which both provided reliable results. The reduction of cross-contamination and greater range of injection ratios achieved by this device may improve the processes that involve addition and titration of reagents into plugs, such as high-throughput screening of protein crystallization conditions.
Inhibitors of liver lysosomal acid phospholipase A1 (1988)

Aiming at the introduction of a fluorescent sialic acid into glycoconjugates, 5-acetamido-9-(3-fluoresceinylthio-ureido)-3,5,9-trideoxy-2-non ulosonic acid (9-fluoresceinyl-NeuAc) was synthesized which has an intact carbon chain. a) Despite the space-filling substituent at C-9, the fluorescent NeuAc analogue was activated to the corresponding CMP-glycoside by CMP sialic acid synthase from bovine brain. Whereas the Km value of the synthase was little affected by the modification (Km = 2.1 mM, for NeuAc Km = 1.4 mM), the V value decreased to 7.5%. b) CMP-9-fluoresceinyl-NeuAc was synthesized on a preparative scale (17% overall yield), and characterized by analytical HPLC, absorption and fluorescence spectra. c) 9-Fluoresceinyl-NeuAc was transferred onto asialo-alpha 1-acid glycoprotein by both Gal beta 1, 4GlcNAc alpha 2, 6sialyltransferase and Gal beta 1,4(3)GlcNAc alpha 2,3sialyltransferase (rat liver), and onto antifreeze glycoprotein by GalNAc alpha 2,6-sialyltransferase (porcine submaxillary glands). Using analytical HPLC, transfer was confirmed after release of the fluorescent sialic acid by Vibrio cholerae sialidase. d) Initial rate studies indicated a low Km value of Gal beta-1,4GlcNAc alpha 2,6sialyltransferase, and GalNAc alpha 2,6sialyltransferase (specific for O-linked oligosaccharide chains) for CMP-9-fluoresceinyl-NeuAc.
Design and analysis of delimiters for selection-action pen gesture phrases in scriboli (2005)

We present a quantitative analysis of delimiters for pen gestures. A delimiter is "something different" in the input stream that a computer can use to determine the structure of input phrases. We study four techniques for delimiting a selection-action gesture phrase consisting of lasso selection plus marking-menu-based command activation. Pigtail is a new technique that uses a small loop to delimit lasso selection from marking (Fig. 1). Handle adds a box to the end of the lasso, from which the user makes a second stroke for marking. Timeout uses dwelling with the pen to delimit the lasso from the mark. Button uses a button press to signal when to delimit the gesture. We describe the role of delimiters in our Scriboli pen interaction testbed, and show how Pigtail supports scope selection, command activation, and direct manipulation all in a single fluid pen gesture.
Progesterone blocks estrogen-induced DNA synthesis through the inhibition of replication licensing (2006)

In the uterus, progesterone (P4) acts early in G1 as a physiological inhibitor of estradiol-17beta (E2)-induced epithelial cell proliferation. Gene expression profiling of uterine epithelial cell RNA isolated 3 h after hormonal treatment of ovariectomized mice revealed the co-coordinate down-regulation by P4 of >20 genes whose functions are associated with DNA replication. This group included all of the minichromosome maintenance (MCM) proteins that are required for DNA replication licensing. E2 regulated loading of these MCM proteins onto chromatin in parallel with its induction of DNA synthesis. E2 caused this chromatin loading by retention of MCM proteins in the nucleus and through the induction of the loading factor Cdt1, which is necessary for the MCM heterohexamer to bind to the origin of DNA replication. P4 dramatically reduced the binding of the MCMs to chromatin by a number of mechanisms. First, MCM mRNA and protein abundance was down-regulated. Second, P4 inhibited the E2 induction of Cdt1. Third, P4 treatment sequestered the normally nuclear MCM proteins into the cytoplasm. This reduced MCM binding resulted in the complete inhibition of E2-induced DNA synthesis by P4. These data reveal mechanisms not only for female sex steroid hormone action but also in the regulation of DNA replication licensing.
Spatial discontinuities in human immunodeficiency virus type 1 quasispecies derived from epidermal Langerhans cells of a patient with AIDS and evidence for double infection (1994)

A nonhomogeneous spatial distribution of human immunodeficiency virus type 1 quasispecies was observed for epidermal Langerhans cells purified from skin patches taken from a patient with AIDS soon after death. Each patch presented a unique collection of sequences, distinct from those of juxtaposed patches or those derived from the other leg. Infection of Langerhans cells by virus from underlying T cells in the dermis might explain this partition. The analysis revealed the presence of two distinct cocirculating viral strains, indicating double infection.
The Heat Inactivation of Vaccinia Virus (1958)

SUMMARY: Heat inactivation curves of vaccinia virus between 50° and 60° indicate that the virus is heterogeneous in its heat sensitivity. The proportion of heat-resistant particles varies inversely with the temperature of exposure. The inactivation of heat-sensitive virus is temperature dependent and seems to be a first-order reaction, while the heat-resistant fraction is inactivated at a constant slow rate unrelated to temperature over the range 50°-60°.
A 10Gb/s 5-Tap-DFE/4-Tap-FFE Transceiver in 90nm CMOS (2006)

A 90nm CMOS 10Gb/s SerDes for chip-to-chip communications over backplanes is presented. To mitigate channel impairments, the RX uses a 5-tap DFE and the TX a 4-tap FIR filter. The IC equalization abilities are evaluated using different type of channels. The power consumption of one (TX, RX) pair and one PLL is 300mW for 1.2V <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">pp</sub> differential TX output swing
Room temperature silicon wafer bonding with ultra‐thin polymer films (1997)

Bonding of silicon wafers is required in microelectronics fabrication, for example. A room‐temperature bonding process that leads to sufficient bond strength is necessary for bonding semi‐processed wafers, i.e., those already containing temperature‐sensitive structures. The room‐temperature bonding of hydrophobic wafers is reported for the first time, an ultra‐tin Langmuir‐Blodgett film of a “hairy” rod‐like polymer being used as an intermediate layer. The effect of the polymer layer on the surface roughness is investigated and possible directions o future work are indicated.
Versatile Epitope Tagging Vector for Gene Expression in Mammalian Cells (1998)

We have constructed an epitope-tagging vector, pCMV-Tag1, for gene expression in mammalian cells. This vector, which allows for N-terminal, C-terminal and internal tagging of the gene product of interest with the FLAG and/or c-myc epitopes, enables researchers to rapidly and efficiently characterize gene products in vivo.