gebhart/patrepeval huggingface dataset:
Expression Atlas update—an integrated database of gene and protein expression in humans, animals and plants (2015)

Expression Atlas (http://www.ebi.ac.uk/gxa) provides information about gene and protein expression in animal and plant samples of different cell types, organism parts, developmental stages, diseases and other conditions. It consists of selected microarray and RNA-sequencing studies from ArrayExpress, which have been manually curated, annotated with ontology terms, checked for high quality and processed using standardised analysis methods. Since the last update, Atlas has grown seven-fold (1572 studies as of August 2015), and incorporates baseline expression profiles of tissues from Human Protein Atlas, GTEx and FANTOM5, and of cancer cell lines from ENCODE, CCLE and Genentech projects. Plant studies constitute a quarter of Atlas data. For genes of interest, the user can view baseline expression in tissues, and differential expression for biologically meaningful pairwise comparisons-estimated using consistent methodology across all of Atlas. Our first proteomics study in human tissues is now displayed alongside transcriptomics data in the same tissues. Novel analyses and visualisations include: 'enrichment' in each differential comparison of GO terms, Reactome, Plant Reactome pathways and InterPro domains; hierarchical clustering (by baseline expression) of most variable genes and experimental conditions; and, for a given gene-condition, distribution of baseline expression across biological replicates.
Multifunctional Fe<sub>2</sub>O<sub>3</sub>–Au Nanoparticles with Different Shapes: Enhanced Catalysis, Photothermal Effects, and Magnetic Recyclability (2016)

We investigate Au-decorated Fe2O3 nanoparticle catalysts, Fe2O3–Au, where the supporting Fe2O3 nanoparticles are of different shapes: spheres, rings, and tubes. The decoration procedure for the Fe2O3–Au nanoparticles is identical for each shape, and is analogous to the synthesis of pure Au nanoparticles (AuNPs). These similarities allows for direct comparison between the different shapes and the pure AuNPs. The morphological, optical, and magnetic characterizations reveal that the Fe2O3–Au nanoparticles are hybrid structures exhibiting both plasmonic and magnetic properties. The different shape Fe2O3–Au nanoparticles and the AuNPs are evaluated for their ability to catalytically reduce 4-nitrophenol. Remarkably, it is found that Fe2O3–Au nanoparticles are more efficient catalysts than AuNPs because they can achieve the same, or better, catalytic reaction rates using significantly smaller quantities of Au, which is the catalytically active material. Taking into account the Au-loadings, the Fe2O3 rings and tubes are superior to the Fe2O3 spheres as catalytic supports due to their γ-Fe2O3 crystal phase. It is also shown that the Fe2O3–Au nanoparticles have the additional benefit for catalysis in that they can be recovered and reused via magnetic collection. Furthermore, the Fe2O3–Au nanoparticles and AuNPs are found to efficiently transduce heat from light through plasmonic absorbance, and this phenomenon is exploited to demonstrate the photothermal catalytic reduction of 4-nitrophenol.
[Expression of tumor metastasis gene MTA 1 in hepatocellular carcinoma: clinical implications]. (2000)

The overexpression of MTA 1 correlates closely with the invasion process of HCC.
Increased fracture rate in women with breast cancer: a review of the hidden risk (2011)

It is likely that a combined fracture risk assessment (eg, as in the WHO FRAX algorithm) will more accurately identify both women with postmenopausal osteoporosis and women with breast cancer who require bone-protective therapy.
Cryopreservation of zebra fish spermatozoa using methanol (1982)

We describe a method for cryopreservation of milt from individual Brachydanio rerio using methanol and powdered milk as cryoprotectants. Motility was positively correlated with hatching, which averaged 51 ± 35.6% in a typical experiment. Variablity in motility and hatching was not correlated with sperm volume or age of the fish, and is believed to be due to differences in sperm quality between individuals, as well as technical constraints imposed by the short duration of motility in thawed spermatozoa.
Directoryless Shared Memory Coherence using Execution Migration (2011)

We introduce the concept of deadlock-free migration-based coherent shared memory to the NUCA family of architectures. Migration-based architectures move threads among cores to guarantee sequential semantics in large multicores. Using a execution migration (EM) architecture, we achieve performance comparable to directory-based architectures without using directories: avoiding automatic data replication significantly reduces cache miss rates, while a fast network-level thread migration scheme takes advantage of shared data locality to reduce remote cache accesses that limit traditional NUCA performance.
Performance of equalization techniques in a radio interference environment (1991)

The performance of equalization techniques for digital radio systems in the presence of sinusoidal and modulated interference signals is investigated. Linear and nonlinear equalizers, as well as synchronous and T/2-spaced structures, are considered. It is shown that synchronous decision-feedback equalizers are powerful countermeasure devices for radio channels affected by both selective fading and sinusoidal interferers, and that both T/2-spaced linear and nonlinear equalizers can provide a significant improvement of the adjacent channel interference margin, whether the channel is selective or not, especially in the case of multicarrier interleaved frequency arrangements.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Studies on Fungal Products. VI. Biological Effects of Ergosterol-5, 8-peroxide (1982)

Ergosterol-5, 8-peroxide (I) was isolated from a variation of Cercospora kikuchii obtained by irradiation with light. It showed potent cytotoxicity (IC50=3.5 μg/ml) against mouse lymphemia L-1210/v/c in vitro, but exhibited no significant antitumor activity against both leukemia P-388 in CDF1 mouse and sarcoma 180 in dd mouse. Peroxide I also did not affect on both gram-positive and gram-negative bacteria.
Aqueous Suspensions of Natural Swelling Clay Minerals. 1. Structure and Electrostatic Interactions (2011)

In this article, we present a general overview of the organization of colloidal charged clay particles in aqueous suspension by studying different natural samples with different structural charges and charge locations. Small-angle X-ray scattering experiments (SAXS) are first used to derive swelling laws that demonstrate the almost perfect exfoliation of clay sheets in suspension. Using a simple approach based on geometrical constraints, we show that these swelling laws can be fully modeled on the basis of morphological parameters only. The validity of this approach was further extended to other clay data from the literature, in particular, synthetic Laponite. For all of the investigated samples, experimental osmotic pressures can be properly described by a Poisson-Boltzmann approach for ionic strength up to 10(-3) M, which reveals that these systems are dominated by repulsive electrostatic interactions. However, a detailed analysis of the Poisson-Boltzmann treatment shows differences in the repulsive potential strength that are not directly linked to the structural charge of the minerals but rather to the charge location in the structure for tetrahedrally charged clays (beidellite and nontronites) undergoing stronger electrostatic repulsions than octahedrally charged samples (montmorillonites, laponite). Only minerals subjected to the strongest electrostatic repulsions present a true isotropic to nematic phase transition in their phase diagrams. The influence of ionic repulsions on the local order of clay platelets was then analyzed through a detailed investigation of the structure factors of the various clay samples. It appears that stronger electrostatic repulsions improve the liquidlike positional local order.
Influence of aggregate content on the behavior of fly ash based geopolymer concrete (2012)

Concrete made using geopolymer technology is environmental friendly and could be considered as part of the sustainable development. Even though aggregate constitutes major volume in geopolymer concrete, only limited study related to this parameter has been reported. This paper presents the summary of study carried out to understand the influence of aggregate content on the engineering properties of geopolymer concrete. Influence of other parameters on engineering properties of geopolymer concrete such as curing temperature, period of curing, ratio of sodium silicate to sodium hydroxide, ratio of alkali to fly ash and molarity of sodium hydroxide are also discussed in this paper. Based on the study carried out, it could be concluded that a geopolymer concrete with proper proportioning of total aggregate content and ratio of fine aggregate to total aggregate, along with the optimum values of other parameters, can have better engineering properties than the corresponding properties of ordinary cement concrete.
The Session Initiation Protocol (SIP): An Evolutionary Study (2012)

The Session Initiation Protocol (SIP) was devel- oped to control multi-media sessions on the Internet. Shortly after its debut as a standard in 1999, SIP was adopted by the 3rd Generation Partnership Project (3GPP) as the preferred signaling protocol for the Internet Multimedia Subsystem (IMS). This adoption provided a boost to the nascent protocol as traditional telecommunication services were interpreted in the context of the new protocol and as SIP introduced richer services in the form of instant messaging and rich presence to traditional telephony. In this paper, we study the evolution of the protocol from its roots to its use in operational networks today and the issues it faces in such networks. We also provide a glimpse to the continued progression of SIP in Peer-to-Peer (P2P) networks and take a critical look at where SIP has succeeded, and more importantly, where it has failed to meet expectations.
A new orally active anti-rheumatic drug targets IL-15 and IL-17 (2007)

Over production of interleukin (IL)-15 and IL-17 was observed in synovial fluids of rheumatoid arthritis (RA) patients. IL-15 activates T cells and induces IL-17 production whereas IL-17 stimulates synoviocytes to release several mediators of inflammation including IL-6, TNF-alpha, IL-8, and CCL2. Thus, it is presumed that IL-15 and IL-17 play important roles in the pathogenesis of RA. Based on these results, we investigated a new anti-rheumatic drug targets IL-15 and IL-17 and found a new pyrazoleanilide derivative, Y-320 that inhibits IL-15-induced IL-17 production by T cells at 10-nM order. Therapeutic treatment with Y-320 (0.3 to 3 mg/kg orally) significantly inhibited the progression of arthritis and joint destruction in type II collagen-induced arthritis (CIA) in DBA/1J mice. Y-320 inhibited the elevation of IL-17 mRNA expression in the joint of CIA mice. Concomitant treatment with Y-320 and anti-mouse TNF-alpha antibody showed a synergistic effect in mouse CIA. Moreover, therapeutic treatment with Y-320 (0.3 and 1 mg/kg orally) ameliorated CIA in cynomolgus monkeys. Our results suggest that Y-320, a small molecule inhibitor for IL-17 production, is a candidate for the new class of orally active anti-rheumatic drug.
Effects of Glycerol and Moisture Redistribution on Mechanical Properties of White Bread (2002)

ABSTRACT Effects of glycerol and moisture redistribution on mechanical properties of bread were investigated. Firmness increased in all bread crumb over storage time but firming rate was dependent on the initial moisture content, storage method (stored with and without crust), and the presence of glycerol. Faster firming was observed when bread crumb had low initial moisture content and high glycerol level, and was stored with crust. The effect of glycerol was more pronounced when stored with crust, suggesting a critical role of water loss. Firmness showed a good correlation ( r 2 = 0.95) with the scale factor (C 1 ) from a mathematical model. Recoverable work rapidly decreased in first three days of storage and then remained relatively unchanged thereafter. Hardening of aged bread (but not fresh bread) by glycerol may be explained by local dehydration of bread polymer due to osmotic dehydration or competition for water, which in turn promote more rapid amorphous network formation but less amylopectin recrystallization.
Thermal Behavior of Natural Zeolites (2001)

Research Article| January 01, 2001 Thermal Behavior of Natural Zeolites David L. Bish; David L. Bish Los Alamos National Laboratory, Hydrology, Geochemistry, and Geology, MS D469, Los Alamos, New Mexico 87545 Search for other works by this author on: GSW Google Scholar J. William Carey J. William Carey Los Alamos National Laboratory, Hydrology, Geochemistry, and Geology, MS D469, Los Alamos, New Mexico 87545 Search for other works by this author on: GSW Google Scholar Author and Article Information David L. Bish Los Alamos National Laboratory, Hydrology, Geochemistry, and Geology, MS D469, Los Alamos, New Mexico 87545 J. William Carey Los Alamos National Laboratory, Hydrology, Geochemistry, and Geology, MS D469, Los Alamos, New Mexico 87545 Publisher: Mineralogical Society of America First Online: 09 Mar 2017 © The Mineralogical Society Of America Reviews in Mineralogy and Geochemistry (2001) 45 (1): 403–452. https://doi.org/10.2138/rmg.2001.45.13 Article history First Online: 09 Mar 2017 Cite View This Citation Add to Citation Manager Share Icon Share Facebook Twitter LinkedIn MailTo Tools Icon Tools Get Permissions Search Site Citation David L. Bish, J. William Carey; Thermal Behavior of Natural Zeolites. Reviews in Mineralogy and Geochemistry 2001;; 45 (1): 403–452. doi: https://doi.org/10.2138/rmg.2001.45.13 Download citation file: Ris (Zotero) Refmanager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentBy SocietyReviews in Mineralogy and Geochemistry Search Advanced Search The open framework structures of zeolites, containing variable amounts of extra-framework cations and water molecules, are very responsive to changes in temperature and/or water-vapor pressure. Several coupled changes occur in water content and structure whenever a zeolite is subjected to a change in environment. The structural changes include modifications in the unit-cell size and geometry, movement of extraframework cations, and even statistical breakage of the Al-Si framework. The water content in some zeolites is a smoothly varying function of temperature and water-vapor pressure, whereas in others there appear to be distinct transitions between different hydration levels. The response of zeolites... You do not have access to this content, please speak to your institutional administrator if you feel you should have access.
Improvement of Superconducting Properties in ROEBEL Assembled Coated Conductors (RACC) (2009)

Assembling coated conductors (CC) into flat ROEBEL bars (RACC-cable) is a practical method to reach high transport currents in a low AC loss cable design which is suitable for application in windings. Electrical machinery as large transformers and generators/motors need a few kA transport current. The aim of the presented work was demonstrating the possibility of a strong increase of the transport current of such RACC-cables. So far 1 kA was achieved We present a changed cable design with 3-fold layered strands, an unchanged transposition pitch of 18.8 cm which finally leads to 45 coated conductors in the cable. A 1.1 m long sample (equivalent to 6 transposition lengths) was prepared. Cu stabilized coated conductors purchased from SuperPower were used formatting the ROEBEL strands and assembling the new cable. The new cable reached a record transport current of 2628 A at 77 K in self field (5 muV/cm criterion). A special feature of the cable was the use of 3 slightly different current carrying (plusmn10%) batches of strand material. Although current sharing and redistribution effects could be observed, the behavior of the cable was found to be absolutely stable under all operation conditions. The self field degradation of the critical currents, being of the order of 60% at 77 K could be modeled satisfactory by means of a Biot-Savart-Law approach.
Red cell metabolism and function : proceedings of the First International Conference on Red Cell Metabolism and Function, held at the University of Michigan, Ann Arbor, October 1-3, 1969 (1970)

I. Relationship Between Red Cell Metabolism and Function.- Session 1 - A. Chanutin, Chairman.- Binding of Organic Phosphates to Hemoglobin A and Hemoglobin F.- Effect of Glutathione and Some Other Substances on the Oxygen Dissociation Curve of Hemoglobin and Experimental Therapy of Hemmorrhagic Shock with Solutions Enriched with Glutathione.- Variation in 2, 3-Diphosphoglycerate and ATP Levels in Human Erythrocytes and Effects on Oxygen Transport.- Binding of 2,3-Diphosphoglycerate (DPG) to Oxyhemoglobin Levels and Effect of DPG on Oxygen Affinity of Normal and Abnormal Blood.- Session 2 - C.-H. deVerdier, Chairman.- Dependence of Oxyhemoglobin Dissociation and Intraerythrocytic 2,3-Diphosphoglycerate on Acid-Base Status of Blood I. In vitro Studies of Reduced and Oxygenated Blood.- II. Clinical and Experimental Studies.- Erythrocyte Glycolytic Intermediates and Cofactors Correlated with the Haemoglobin Concentration in Human Neonates and Adults.- Studies of Red Cell Glycolysis and Interactions with Carbon Monoxide, Smoking, and Altitude.- II. Metabolic Control Mechanisms in the Red Cell.- Session 3 - A. Chanutin, Chairman.- General Features of Metabolic Control as Applied to the Erythrocyte.- The Enzymes 2,3-Diphosphoglycerate Metabolism in the Human Red Cell.- Metabolism of 2,3-Diphosphoglycerate in Red Blood Cells Under Various Experimental Conditions.- III. Interaction of the Cardiac, Pulmonary, and Erythrocyte Systems in Respiratory Homeostasis.- Session 4 - R. Grover, Chairman.- The Respiratory Function of the Blood.- Systemic Oxygen Transport.- Adaptation to Hypoxia.- Adaptation of the Red Blood Cell to Muscular Exercise.- A Comparison of Mechanisms of Oxygen Transport Among Several Mammalian Species.- IV. Erythrocyte Function after Blood Storage.- Session 5 - G. Bartlett, Chairman.- Patterns of Phosphate Compounds in Red Blood Cells of Man and Animals.- Biological Alterations Occurring During Red Cell Preservation.- The Prediction of Poststorage Red Cell Viability from ATP Levels.- Application of a Mechanized Method for the Determination of Different Glycolytic Intermediates in the Routine Quality Control of Red Cells.- Red Cell 2,3-DPG, ATP, and Creatine Levels in Preserved Cells and in Patients with Red Cell Mass Deficits or with Cardiopulmonary Insufficiency.- The Hemoglobin Function of Blood Stored at 4 C.- Appendix - Discussion of Papers in Order of Presentation.
A High‐Performance Ytterbium‐Based Nanoparticulate Contrast Agent for In Vivo X‐Ray Computed Tomography Imaging (2011)

Enlightening particles: A contrast agent for in vivo X-ray computed tomography (CT) imaging is composed of an Yb-based nanoparticle (NP) that is stabilized with oleic acid and modified with the biocompatible polymer DSPE-PEG 2000 (see picture). The contrast agent exhibits long circulation time in vivo and low toxicity and is also much more effective than a clinical iodinated agent.
Research and Development on the Modification of Stroma-Free Hemoglobin for Use as a Blood Substitute. (1984)

Chemical modification of stroma-free hemoglobin (SFH) using a series of ribose phosphates has been achieved. The P50 is 50-70% improved and the intravascular retention time increased by two to eight times (species dependent). The dial modified SFH has normal oxygen carrying capacity and maximally altered energetics. It is stable at 4 C liquid storage and maximum met-Hb is 4.5%. Details of the reactions indicate a significant yield 90% can be obtained by iteration of the reaction steps. Extensive pruification is not needed. Keywords include: Blood substitutes; strome-free hemoglobin; ribose phosphate-dial; hexandial monophosphate; oxy-hemoglobin dissociation; retention time; hemoglobin modification.
Lymphotoxin α induces apoptosis, necroptosis and inflammatory signals with the same potency as tumour necrosis factor (2013)

Both of the TNF superfamily ligands, TNF and LTα, can bind and signal through TNFR1 and TNFR2, yet mice mutant for each have different phenotypes. Part of this difference is because LTα but not TNF can activate Herpes Virus Entry Mediator and also heterotrimerise with LTβ to activate LTβR, which is consistent with the similar phenotypes of the LTα and LTβR deficient mice. However, it has also been reported that the LTα3 homotrimer signals differently than TNF through TNFR1, and has unique roles in initiation and exacerbation of some inflammatory diseases. Our modeling of the TNF/TNFR1 interface compared to the LTα3/TNFR1 structure revealed some differences that could affect signalling by the two ligands. To determine whether there were any functional differences in the ability of TNF and LTα3 to induce TNFR1-dependent apoptosis or necroptosis, and if there were different requirements for cIAPs and Sharpin to transmit the TNFR1 signal, we compared the ability of cells to respond to TNF and LTα3. Contrary to our hypothesis, we were unable to discover differences in signalling by TNFR1 in response to TNF and LTα3. Our results imply that the reasons for the conservation of LTα are most likely due either to differential regulation, the ability to signal through Herpes Virus Entry Mediator or the ability of LTα to form heterotrimers with LTβ.
Synthesis and photophysical properties of soluble low‐bandgap thienothiophene polymers with various alkyl side‐chain lengths (2011)

Abstract We report the facile synthesis and characterization of a class of thienothiophene polymers with various lengths of alkyl side chains. A series of 2‐alkylthieno[3,4‐ b ]thiophene monomers (Ttx) have been synthesized in a two‐step protocol in an overall yield of 28–37%. Poly(2‐alkylthieno[3,4‐ b ]thiophenes) (PTtx, alkyl: pentyl, hexyl, heptyl, octyl, and tridecyl) were synthesized by oxidative polymerization with FeCl 3 or via Grignard metathesis (GRIM) polymerization methods. The polymers are readily soluble in common organic solvents. The polymers synthesized by GRIM polymerization method (PTtx‐G) have narrower molecular weight distribution ( Đ ) with lower molecular weight ( M n ) than those synthesized by oxidative polymerization (PTtx‐O). The band structures of the polymers with various lengths of alkyl side chains were investigated by UV–vis spectroscopy, cyclic voltammetry, and ultraviolet photoelectron spectroscopy. These low‐bandgap polymers are good candidates for organic transistors, organic light‐emitting diodes, and organic photovoltaic cells. © 2011 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem, 2011
Electro-optic switch constructed with a poled silica-basedwaveguide on a Si substrate (1996)

2×2 electro-optic switching is demonstrated in an integrated Mach–Zehnder interferometer constructed with thermally poled GeO2-doped silica-based channel waveguides on a Si substrate.