gebhart/patrepeval huggingface dataset:
Novel Biomarkers Associated with Deep Venous Thrombosis: A Comprehensive Review. (2008)

Primary and recurrent venous thromboembolic disease (VTE, deep venous thrombosis and pulmonary embolism) remain a significant source of morbidity and mortality in the hospitalized patient. Non-specific subjective complaints and lack of specific objective findings related to acute deep venous thrombosis (DVT) and pulmonary embolism (PE) complicate the diagnosis. There remains no single serum marker available to exclusively confirm the diagnosis of VTE. While D-dimer is highly sensitive and useful for diagnostic exclusion, it lacks the specificity necessary for diagnostic confirmation resulting in the need for a variety of additional studies (i.e.: duplex ultrasound, venography, V/Q scanning, helical thoracic and pelvic CT scans and pulmoary angiography). There is evolving research supporting the utility of various plasma markers as novel "biomarkers" for VTE including selectins, microparticles, interleukin-10 and other cytokines. This review attempts to examine recent literature assessing the utility of P-selectin, microparticles, D-dimer, E-selectin, thrombin, interleukins and fibrin monomers in the diagnosis and guidance of therapy for VTE.
Histone Acetylation Is Required to Maintain the Unfolded Nucleosome Structure Associated with Transcribing DNA (1998)

Nucleosomes associated with transcribing chromatin of mammalian cells have an unfolded structure in which the normally buried cysteinyl-thiol group of histone H3 is exposed. In this study we analyzed transcriptionally active/competent DNA-enriched chromatin fractions from chicken mature and immature erythrocytes for the presence of thiol-reactive nucleosomes using organomercury-agarose column chromatography and hydroxylapatite dissociation chromatography of chromatin fractions labeled with [3H]iodoacetate. In mature and immature erythrocytes, the active DNA-enriched chromatin fractions are associated with histones that are rapidly highly acetylated and rapidly deacetylated. When histone deacetylation was prevented by incubating cells with histone deacetylase inhibitors, sodium butyrate or trichostatin A, thiol-reactive H3 of unfolded nucleosomes was detected in the soluble chromatin and nuclear skeleton-associated chromatin of immature, but not mature, erythrocytes. We did not find thiol-reactive nucleosomes in active DNA-enriched chromatin fractions of untreated immature erythrocytes that had low levels of highly acetylated histones H3 and H4 or in chromatin of immature cells incubated with inhibitors of transcription elongation. This study shows that transcription elongation is required to form, and histone acetylation is needed to maintain, the unfolded structure of transcribing nucleosomes.
IFN-gamma and CD8+ T cells restore host defenses against Pneumocystis carinii in mice depleted of CD4+ T cells. (1999)

Host defenses against infection are profoundly compromised in HIV-infected hosts due to progressive depletion of CD4+ T lymphocytes and defective cell-mediated immunity. Although recent advances in antiretroviral therapy can dramatically lower HIV viral load, blood CD4+ T lymphocytes are not restored to normal levels. Therefore, we investigated mechanisms of host defense other than those involving CD4+ T lymphocytes against a common HIV-related opportunistic infection, Pneumocystis carinii (PC) pneumonia. Using CD4-depleted mice, which are permissive for chronic PC infection, we show that up-regulation of murine IFN-gamma by gene transfer into the lung tissue results in clearance of PC from the lungs in the absence of CD4+ lymphocytes. This resolution of infection was associated with a >4-fold increase in recruited CD8+ T lymphocytes and NK cells into the lungs. The role of CD8+ T cells as effector cells in this model was further confirmed by a lack of an effect of IFN-gamma gene transfer in scid mice or mice depleted of both CD4+ and CD8+ T cells. Cytokine mRNA analysis revealed that recruited, lung-derived CD8+ T cells had greater expression of IFN-gamma message in animals treated with the IFN-gamma gene. These results indicate that CD8+ T cells are capable of clearing PC pneumonia in the absence of CD4+ T cells and that this host defense function of CD8+ T cells, as well as their cytokine repertoire, can be up-regulated through cytokine gene transfer.
10 W near-diffraction-limited pulsed power from Al-free phase-locked antiguided arrays (2002)

10 W peak-pulsed power emitted in a beam pattern 2/spl times/diffraction limit is obtained from a 40-element, 200 /spl mu/m-aperture Al-free phase-locked antiguided array (/spl lambda/=0.98 /spl mu/m). 60% of the power resides in the central lobe, and the differential quantum efficiency is 54 % for 1 mm-long devices. The devices were fabricated by a two stage self-aligned etch-and-regrowth process. In the first stage, the strained InGaAs double quantum well (DQW) active region and GaAs guide layer were grown by low-pressure MOCVD. High-index GaAs material was then selectively removed to define the element regions, after which the p-InGaP cladding and GaAs contact layers were regrown.
The fidelity of the reverse transcriptases of human immunodeficiency viruses and murine leukemia virus, exhibited by the mispair extension frequencies, is sequence dependent and enzyme related (1993)

Sequence variations in HIV-1 and HIV-2 probably result in part from inaccurate DNA synthesis by viral reverse transcriptases (RTs). We have studied in vitro the fidelity of both the DNA- and RNA-dependent DNA polymerization functions of the two HIV RTs, as compared to that of murine leukemia virus (MLV) RT. The two HIV RTs were less accurate than MLV RT. The mispair extension frequencies observed previously with ribosomal RNA (rRNA) template were higher than those detected with phi X174am3 DNA template with all three RTs. In the current study we have investigated whether the nature of the copied nucleic acid (RNA vs. DNA) or the template nucleotide sequences affect the accuracy of DNA synthesis. We have analyzed the fidelity of DNA synthesis with DNA sequences identical to those of the rRNA sequences previously employed for reverse transcription. The results indicate that the fidelity of DNA synthesis depends mainly on the nucleotide sequences copied by every given RT. Yet, fidelity of DNA synthesis depends not only on the sequences copied but also on the nature of the enzymes per se. It is possible that these factors are major contributors to the high mutation rates of the two human immunodeficiency viruses.
The Timed “Up & Go”: A Test of Basic Functional Mobility for Frail Elderly Persons (1991)

This study evaluated a modified, timed version of the "Get-Up and Go" Test (Mathias et al, 1986) in 60 patients referred to a Geriatric Day Hospital (mean age 79.5 years). The patient is observed and timed while he rises from an arm chair, walks 3 meters, turns, walks back, and sits down again. The results indicate that the time score is (1) reliable (inter-rater and intra-rater); (2) correlates well with log-transformed scores on the Berg Balance Scale (r = -0.81), gait speed (r = -0.61) and Barthel Index of ADL (r = -0.78); and (3) appears to predict the patient's ability to go outside alone safely. These data suggest that the timed "Up & Go" test is a reliable and valid test for quantifying functional mobility that may also be useful in following clinical change over time. The test is quick, requires no special equipment or training, and is easily included as part of the routine medical examination.
1-Year Follow-Up of Patients Treated With Risperidone and Topiramate for a Manic Episode (2003)

Despite the limitations inherent to the open design, this naturalistic study suggests that the combination of risperidone and topiramate may be a valuable option for the short- and long-term treatment of mania.
A biocompatible affinity MEMS sensor for continuous monitoring of glucose (2009)

In this paper, we present two designs for developing a biocompatible affinity MEMS glucose sensor. Based on these designs, two devices were fabricated and characterized. These devices, consisting of a micro-cantilever or membrane situated inside microchambers, are driven by a remote magnetic field and separated from the sensing environment by a semi-permeable membrane. A change in viscosity induced by the binding of poly(acrylamide-ran-3-acrylamidophenylboronic acid) (PAA-ran-PAAPBA) copolymer with glucose is determined by the damped vibration of the cantilever or the membrane in the devices. The cantilever-based sensor has been used to measure physiologically relevant glucose concentrations from 0 to 324 mg/dL with a response time of approximately 3 minutes. This response time was further improved to 1.5 minutes using the membrane-based sensor.
Noise Reduction Using Low Weight and Constant Weight Coding Techniques (1990)

Signalling off-chip requires significant current. As a result, a chip's power-supply current changes drastically during certain output-bus transitions. These current fluctuations cause a voltage drop between the chip and circuit board due to the parasitic inductance of the power-supply package leads. Digital designers often go to great lengths to reduce this "transmitted" noise. Cray, for instance, carefully balances output signals using a technique called differential signalling to guarantee a chip has constant output current. Transmitted-noise reduction costs Cray a factor of two in output pins and wires. Coding achieves similar results at smaller costs.
Resection of hepatic and pulmonary metastases in patients with colorectal carcinoma (1998)

The results of the current study suggest that hepatic and pulmonary resection can result in long term survival in select patients with hepatic and pulmonary metastases from colorectal carcinoma because surgery remains the only potentially curative treatment.
Use of humanized severe combined immunodeficient mice for human vaccine development (2008)

The severe combined immunodeficient (SCID) mouse has no adaptive immunity, lacking mature T and B cells in the peripheral blood or the lymphoid organs. It has been used extensively in biomedical research as a valuable translational model for xeno-engraftment of human tissues and cells. This review focuses on the engraftment of human peripheral blood cells and tissues in SCID mice, as well as in the newly established and more permissive SCID mice deficient in the IL-2 receptor gamma-chain. Human immune responses could be elicited and assessed in these humanized SCID mice upon vaccination or sensitization with allogeneic tissues. A translational model is proposed to attain preclinical data for testing human vaccines.
Interleukin-10 Improves Outcome and Alters Proinflammatory Cytokine Expression after Experimental Traumatic Brain Injury (1998)

Traumatic injury to the central nervous system initiates inflammatory processes that are implicated in secondary tissue damage. These processes include the synthesis of proinflammatory cytokines, leukocyte extravasation, vasogenic edema, and blood-brain barrier breakdown. Interleukin-10 (IL-10), a cytokine with antiinflammatory properties, negatively modulates proinflammatory cascades at multiple levels. We examined the hypothesis that IL-10 treatment can improve outcome in a clinically relevant model of traumatic brain injury (TBI). IL-10 was administered via different routes and dosing schedules in a lateral fluid-percussion model of TBI in rats. Intravenous administration of IL-10 (100 micrograms) at 30 min before and 1 h after TBI improved neurological recovery and significantly reduced TNF expression in the traumatized cortex at 4 h after injury. Such treatment was associated with lower IL-1 expression in the injured hippocampus, and to a lesser extent, in the injured cortex. Subcutaneous IL-10 administration (100 micrograms) at 10 min, 1, 3, 6, 9, and 12 h after TBI also enhanced neurological recovery. In contrast, intracerebroventricular administration of IL-10 (1 or 6 micrograms) at 15 min, 2, 4, 6, and 8 h after TBI was not beneficial. These results indicate that IL-10 treatment improves outcome after TBI and suggest that this improvement may relate, in part, to reductions in proinflammatory cytokine synthesis.
Gradients of a performance index arising from network optimisation in the frequency domain (1974)

A method is given that calculates the gradients of a performance index arising from computer-aided network design in the frequency domain.
Comparing routes of delivery for nanoliposomal irinotecan shows superior anti-tumor activity of local administration in treating intracranial glioblastoma xenografts (2012)

Our results indicate that liposomal formulation plus direct intratumoral administration of therapeutic are important for maximizing the anti-tumor effects of irinotecan and support clinical trial evaluation of this therapeutic plus route of administration combination.
Identity-by-descent genomic selection using selective and sparse genotyping for binary traits (2015)

The IBD-GS approach, combined with sparse and selective genotyping, is well suited for genetic evaluation of binary traits. Genetic gain increased considerably compared with classical pedigree-based selection. Most of the improvement was achieved by selective genotyping of the sibs with the least common (minor) binary category phenotype. Furthermore, IBD-GS had greater advantage over classical pedigree-based models at low to moderate incidences of the category selected for.
Immunoglobulin variable gene analysis of human autoantibodies reveals antigen‐driven immune response to glutamate decarboxylase in type 1 diabetes mellitus (1995)

Insulin-dependent (type 1) diabetes mellitus is an organ-specific autoimmune disease frequently associated with an islet-specific humoral autoimmune response. The role of islet cell autoantibodies in the disease process is unclear; in particular, it is not known whether they are a non-specific side effect of islet cell destruction or play a role in the autoimmune network leading to type 1 diabetes. Here we report the immunoglobulin gene usage and somatic mutation rates of a panel of seven human monoclonal islet cell autoantibodies (MICA 1-7) directed towards the major islet cell autoantigen glutamate decarboxylase (GAD). These autoantibodies were produced from cells from two patients with newly diagnosed type 1 diabetes. VH1, VH4 and V lambda 2 gene segments were frequently used in the MICA, but no correlation between V gene usage and epitope recognition was found. The nonrandom ratio of replacement versus silent mutations in the variable gene region, an accumulation of replacement mutations in the complementarity determining regions, which confer antigen binding, and the high relative avidity for GAD observed for MICA 1, 3, 4, and 6, suggested that the immune response to GAD is driven by the antigen. In contrast, MICA 2, 5, and 7, revealing a lower affinity for antigen, have accumulated a large number of silent mutations. These latter antibodies may, therefore, be characteristic for later stages of the chronic autoimmune disease. Our results argue in favor of an antigen-driven autoantibody response to islets in human type 1 diabetes. They suggest that GAD is an important target of autoimmunity associated with type 1 diabetes.
Engineering firefly luciferase as an indicator of cyclic AMP‐dependent protein kinase in living cells (1992)

A bioluminescent indicator for protein kinase A has been developed by mutating V217 in firefly (Photinus pyralis) luciferase to R, and the C-terminal peroxisomal signal removed by PCR. The cDNA for normal and the RRFS mutant luciferase were inserted into pSV7d and expressed in COS-7 cells. Transient expression in approximately 5% of cells was confirmed by extraction of active luciferase, light emission from cells in the presence of luciferin, and immuno-localisation. The cyclic-AMP analogue, 8-(4-chlorophenylthio)-cyclic AMP caused a 5-10% decrease in light emission within 4 min in COS cells expressing the RRFS mutant, but not in cells expressing normal luciferase. This provides for the first time an indicator for detecting and quantifying protein kinase A activation in living cells.
Behavioral signs of ongoing pain and cold allodynia in a rat model of neuropathic pain (1994)

Previous studies by our laboratory established a rat model of neuropathic pain which displayed long-lasting heat hyperalgesia and mechanical allodynia that are sympathetically maintained. The present study was undertaken to extend our earlier findings by examining additional behavioral signs of ongoing pain and cold allodynia in our animal model and testing their sympathetic dependency. Neuropathic surgery was done by tightly ligating the L5 and L6 segmental spinal nerves of rats unilaterally. In addition to the behavioral signs of heat hyperalgesia and mechanical allodynia observed before, these rats displayed signs of ongoing pain (lasting at least 10 weeks) and cold allodynia (lasting at least 16 weeks). These behaviors were reduced markedly after surgical lumbar sympathectomy. The results of the present study, together with the previous study, suggest that our animal model exhibits neuropathic pain behaviors including ongoing pain, heat hyperalgesia, mechanical allodynia and cold allodynia. Since all of these behavioral signs are sympathetically maintained, our model represents a model for sympathetically maintained pain.
Lung resistance-related protein/major vault protein and vaults in multidrug-resistant cancer (2000)

Tumor cells that are insensitive to anticancer drugs frequently have a multidrug-resistant (MDR) phenotype. Proteins that can be involved in this phenomenon are transport-associated proteins such as P-glycoprotein, multidrug-resistance protein 1, breast cancer resistance protein, and lung resistance-related protein (LRP). LRP was identified as the major vault protein (MVP), the main component of multimeric vault particles. With the recent identification of the two minor vault proteins as telomerase-associated protein (TEP1) and vault-poly (ADP-ribose) polymerase (VPARP), and with high-resolution three-dimensional imaging, the composition of vaults is almost unraveled. Although the first direct evidence for a causal relationship between LRP/MVP expression and drug resistance has been obtained, many functional aspects of vaults in normal physiology and in MDR still need to be clarified. The current clinical data on LRP/MVP detection indicate that LRP/MVP expression can be of high clinical value to predict the response to chemotherapy of several tumor types.
Microfluidic mixing in a Y-junction open channel (2012)

In the laminar regimes typical of microfluidic systems’, mixing is governed by molecular diffusion; however this process is slow in nature. Consequently, passive or active methods are usually sought for effective mixing. In this work, open fluidic channels will be investigated; these channels are bounded on all but one face by an air/fluid interface. Firstly, it will be shown that flow in open channels can merge at a Y-junction in a stable manner; hence two fluids can be brought into contact with each other. Secondly, the mixing of these two fluids will be studied. At high flow rates (&amp;gt;300 μl/min) mixing occurs at the junction without need for additional intervention, this mixing is far swifter than can be expected from molecular diffusion. At lower flow rates, intervention is required. A major motivation for open fluidic channels is the ability to interact with the surrounding air environment; this feature is used to effect the desired mixing. It is shown that by blowing an air jet across the junction, shear stresses at the air/fluid interface causes a flow profile within the fluid inductive to rapid mixing of the fluids.
The Dolastatins. 17. Synthesis of Dolaproine and Related Diastereoisomers (1994)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTThe Dolastatins. 17. Synthesis of Dolaproine and Related DiastereoisomersGeorge R. Pettit, Sheo Bux Singh, Delbert L. Herald, Paul Lloyd-Williams, Darko Kantoci, Douglas D. Burkett, Jozsef Barkoczy, Fiona Hogan, and Terah R. WardlawCite this: J. Org. Chem. 1994, 59, 21, 6287–6295Publication Date (Print):October 1, 1994Publication History Published online1 May 2002Published inissue 1 October 1994https://pubs.acs.org/doi/10.1021/jo00100a034https://doi.org/10.1021/jo00100a034research-articleACS PublicationsRequest reuse permissionsArticle Views1729Altmetric-Citations55LEARN 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
Human hippocampal theta oscillations and the formation of episodic memories (2011)

Abstract The importance of the hippocampal theta oscillation (4–8 Hz) to memory formation has been well‐established through studies in animals, prompting researchers to propose comprehensive theories of memory and learning that rely on theta oscillations for integrating information in the hippocampus and neocortex. Yet, empirical evidence for the importance of 4–8 Hz hippocampal theta oscillations to memory formation in humans is equivocal at best. To clarify this apparent interspecies discrepancy, we recorded intracranial EEG (iEEG) data from 237 hippocampal electrodes in 33 neurosurgical patients as they performed an episodic memory task. We identified two distinct patterns of hippocampal oscillations, at ∼3 and ∼8 Hz, which are at the edges of the traditional 4–8 Hz human theta band. The 3 Hz “slow‐theta” oscillation exhibited higher power during successful memory encoding and was functionally linked to gamma oscillations, but similar patterns were not present for the 8 Hz “fast‐theta” oscillation. For episodic memory, slow‐theta oscillations in the human hippocampus appear to be analogous to the memory‐related theta oscillations observed in animals. Both fast‐theta and slow‐theta oscillations exhibit evidence of phase synchrony with oscillations in the temporal cortex. We discuss our findings in the context of recent research on the electrophysiology of human memory and spatial navigation, and explore the implications of this result for theories of cortico–hippocampal communication. © 2011 Wiley Periodicals, Inc.
Radical Photocyclization Route for Macrocyclic Lactone Ring Expansion and Conversion to Macrocyclic Lactams and Ketones (2012)

A new method for the synthesis of macrocyclic lactones, lactams, and ketones, which utilizes photoinduced intramolecular radical cyclization reactions of substrates containing tethered carboxylic acids and α,β-unsaturated carbonyl moieties, has been uncovered. Photocyclization of the carboxylic acids tethered acrylate ester, which were prepared starting from the macrocyclic lactones, gave the two-carbon elongated macrocyclic lactones via decarboxylation. Similar photoreactions of carboxylic acid tethered acryl amide or α,β-unsaturated ketone moieties, which were also prepared starting from the macrocyclic lactones, produced macrocyclic lactams or ketones, respectively. The simple approach can be readily applied to the preparation of a variety of macrocyclic lactones, lactams, and ketones with tunable ring sizes.