gebhart/patrepeval huggingface dataset:
Aerosolized GM-CSF ameliorates pulmonary alveolar proteinosis in GM-CSF-deficient mice (1999)

Surfactant proteins and phospholipids accumulate in the alveolar spaces and lung tissues of mice deficient in granulocyte-macrophage colony-stimulating factor (GM-CSF), with pathological findings resembling the histology seen in the human disease pulmonary alveolar proteinosis (PAP). Previous metabolic studies in GM-CSF-deficient [GM(−/−)] mice indicated that defects in surfactant clearance cause the surfactant accumulation in PAP. In the present study, GM(−/−) mice were treated daily or weekly with recombinant mouse GM-CSF by aerosol inhalation or intraperitoneal injection for 4–5 wk. Lung histology, alveolar macrophage differentiation, and surfactant protein B immunostaining returned toward normal levels in the GM-CSF aerosol-treated mice. Alveolar and lung tissue saturated phosphatidylcholine and surfactant protein B concentrations were significantly decreased after treatment with aerosolized GM-CSF. Cessation of aerosolized GM-CSF for 5 wk resulted in increased saturated phosphatidylcholine pool sizes that returned to pretreatment levels. In contrast, PAP did not improve in GM(−/−) mice treated daily for 5 wk with larger doses of systemic GM-CSF. Aerosolized GM-CSF improved PAP in the GM(−/−) mice, demonstrating that surfactant homeostasis can be influenced by local administration of GM-CSF to the respiratory tract.
Dextran Sulfate Sodium (DSS)‐Induced Colitis in Mice (2014)

Inflammatory bowel diseases (IBD), mainly comprising ulcerative colitis and Crohn's Disease, are complex and multifactorial diseases with unknown etiology. For the past 20 years, to study human IBD mechanistically, a number of murine models of colitis have been developed. These models are indispensable tools to decipher underlying mechanisms of IBD pathogenesis as well as to evaluate a number of potential therapeutics. Among various chemically induced colitis models, the dextran sulfate sodium (DSS)-induced colitis model is widely used because of its simplicity and many similarities with human ulcerative colitis. This model has both advantages and disadvantages that must be considered when employed. This protocol describes the DSS-induced colitis model, focusing on details and factors that could affect DSS-induced pathology.
The microcins (1984)

Microcins are antibiotics of low Mr, constitutively (non-lethally) produced by non-sporulating bacteria, such as Enterobacteriaceae. Their production depends on plasmids and is not inducible by DNA-damaging agents. Hitherto, five types of microcins have been identified by cross-immunity, biochemical and genetic criteria. Microcins have an amino acid or oligopeptide structure and show different mechanisms of action: inhibition of metabolic enzymes (type A) or of DNA replication (type B), or impairment of the cell's energy-generating system (type D). In some cases (microcin B17), a complex genetic system involving up to seven genes may be required for the synthesis. Finally, microcins may play a role in bacterial interactions in natural microbial ecosystems.
Biomass Hydropyrolysis in a Pressurized Fluidized Bed Reactor (2013)

Biomass pyrolysis and hydropyrolysis have been studied in a high-temperature, high-pressure fluidized bed reactor system. The reactor system can be operated at reaction temperatures up to 982 °C (1800 °F) and pressures up to 4 MPa (600 psi). Baseline biomass pyrolysis experiments with an inert heat transfer material were conducted at various pressures and hydrogen partial pressures to determine the effect of these variables on product yields and quality, defined by the amount of oxygen in the hydrocarbon-rich liquid product. Biomass hydropyrolysis was performed at temperatures between 375 and 400 °C at 2 MPa (300 psi) with selected hydroprocessing catalysts. The most promising catalyst was exposed to 2.9 kg of woody biomass for a total of 21.7 h time on stream over a 10 day period. The cumulative mass balance during this period was 83%, and the overall C4+ yield was 16 wt %. This corresponds to 31% of the energy in the input biomass feedstock recovered in the hydrocarbon-rich liquid that contained an average of 4.2 wt % oxygen on a dry basis.
In Vivo Activation of the p53 Pathway by Small-Molecule Antagonists of MDM2 (2004)

MDM2 binds the p53 tumor suppressor protein with high affinity and negatively modulates its transcriptional activity and stability. Overexpression of MDM2, found in many human tumors, effectively impairs p53 function. Inhibition of MDM2-p53 interaction can stabilize p53 and may offer a novel strategy for cancer therapy. Here, we identify potent and selective small-molecule antagonists of MDM2 and confirm their mode of action through the crystal structures of complexes. These compounds bind MDM2 in the p53-binding pocket and activate the p53 pathway in cancer cells, leading to cell cycle arrest, apoptosis, and growth inhibition of human tumor xenografts in nude mice.
EVIDENCE OF ACAMPROSATE PENETRATION INTO THE RAT BRAIN (1995)

Behavioural Pharmacology of Excitatory Amino Acids and their Antagonists Marseille, France, 20–23 September 1995: PDF Only
Synthesis of a DOTA−Biotin Conjugate for Radionuclide Chelation via Cu-Free Click Chemistry (2010)

A strain-induced copper-free click reaction mediated by a new and easily prepared cyclooctyne derivative was used to efficiently assemble a DOTA-biotin adduct capable of radionuclide ((68)Ga) uptake. This synthetic strategy offers a potentially general and convenient means of preparing targeted radiolabeling and radiotherapeutic agents.
Colony-stimulating factor 1-mediated regulation of a chimeric c-fms/v-fms receptor containing the v-fms-encoded tyrosine kinase domain. (1988)

A chimeric gene specifying the 308 N-terminal amino acids of the extracellular ligand binding domain of the human c-fms protooncogene joined to the remainder of the feline v-fms oncogene product encodes a functional colony-stimulating factor 1 (CSF-1) receptor. When expressed in mouse NIH 3T3 fibroblasts, the chimeric gene product was rapidly transported to the cell surface, was autophosphorylated on tyrosine only in response to human recombinant CSF-1, underwent ligand-induced but not phorbol ester-induced down-modulation, and stimulated CSF-1-dependent cell proliferation. By contrast, the C-terminally truncated glycoprotein encoded by the v-fms oncogene is partially inhibited in its transport to the plasma membrane, is constitutively phosphorylated on tyrosine, and is relatively refractory to both ligand-induced and phorbol ester-induced down-modulation. Although the v-fms oncogene can transform cells in the absence of CSF-1, its tyrosine kinase activity and turnover can be appropriately regulated by the human c-fms-encoded ligand binding domain. The results confirm that C-terminal truncation of the c-fms gene is insufficient to activate its transforming potential and suggest that an additional mutation in its distal extracellular domain is required for oncogenic activation.
Multiple sclerosis – novel insights and new therapeutic strategies (2005)

The existing view on the pathogenesis of MS is still changing. The original assumption that cell-mediated demyelination is the key event in lesion development dictating clinical disability is critically reviewed and alternative pathways have been suggested. Oligodendrocyte death, axonal loss, the role of CD8 T lymphocytes, T regulatory cells, and B lymphocytes have come into the focus of newly evolving concepts in MS pathogenesis. A deepened understanding of the immunopathogenesis of this disease translates into innovative therapeutic approaches, such as blockade of alpha4 integrins by a humanized monoclonal antibody. In various animal models cell-replacement strategies yield promising results; however, turning these findings into an effective therapy in MS patients has a long way to go.
Vitrification in low-molecular-weight mesogenic compounds (1991)

Systematic investigations have allowed us to formulate a structural model representing the relationship between vitrification and mesogenity in low-molecular-weight liquid-crystalline compounds. The tendency to transform the highly viscous mesophases into glass phases is caused mainly by the bulkiness of the molecules. The freezing of such mesophases, oriented by external influences at high temperatures, can be used for information storage.
Tumor Necrosis Factor-α Stimulates the Epithelial-to-Mesenchymal Transition of Human Colonic Organoids (2003)

An epithelial-mesenchymal transition (EMT) characterizes the progression of many carcinomas and it is linked to the acquisition of an invasive phenotype. Given that the tumor microenvironment is an active participant in tumor progression, an important issue is whether a reactive stroma can modulate this process. Using a novel EMT model of colon carcinoma spheroids, we demonstrate that their transforming-growth factor-beta1 (TGF-beta)-induced EMT is accelerated dramatically by the presence of activated macrophages, and we identify tumor necrosis factor-alpha (TNF-alpha) as the critical factor produced by macrophages that accelerates the EMT. A synergy of TNF-alpha and TGF-beta signaling promotes a rapid morphological conversion of the highly organized colonic epithelium to dispersed cells with a mesenchymal phenotype, and this process is dependent on enhanced p38 MAPK activity. Moreover, exposure to TNF-alpha stimulates a rapid burst of ERK activation that results in the autocrine production of this cytokine by the tumor cells themselves. These results establish a novel role for the stroma in influencing EMT in colon carcinoma, and they identify a selective advantage to the stromal presence of infiltrating leukocytes in regulating malignant tumor progression.
Immunodominance of Antigenic Site B over Site A of Hemagglutinin of Recent H3N2 Influenza Viruses (2012)

H3N2 influenza viruses have now circulated in the human population for 43 years since the pandemic of 1968, accumulating sequence changes in the hemagglutinin (HA) and neuraminidase (NA) that are believed to be predominantly due to selection for escape from antibodies. Examination of mutations that persist and accumulate led to identification of antigenically significant mutations that are contained in five antigenic sites (A-E) mapped on to the H3 HA. In early H3N2 isolates, antigenic site A appeared to be dominant while in the 1990s site B seemed more important. To obtain experimental evidence for dominance of antigenic sites on modern H3 HAs, we have measured antibodies in plasma of human subjects who received the 2006-07 trivalent subunit influenza vaccine (H3 component A/Wisconsin/67/05) or the 2008-09 formulation (H3 component A/Uruguay/716/07). Plasmas were tested against expressed HA of Wisconsin-like influenza A/Oklahoma/309/06 and site-directed mutants in antigenic site A (NNES121-124ITEG, N126T, N133D, TSSS135-138GSNA, K140I, RSNNS142-146PGSG), and antigenic site B (HL156-157KS, KFK158-160GST, NDQI189-192QEQT, A196V). "Native ELISA" analysis and escape mutant selection with two human monoclonal antibodies demonstrated that antibody E05 binds to antigenic site A and 1_C02 binds to site B. We find that most individuals, after vaccination in seasons 2006-07 and/or 2008-09, showed dominance of antigenic site B recognition over antigenic site A. A minority showed dominance of site A in 2006 but these were reduced in 2008 when the vaccine virus had a site A mutation. A better understanding of immunodominance may allow prediction of future antigenic drift and assist in vaccine strain selection.
&#x201C;Surgery recorder system&#x201D; for recording position and force of forceps during laparoscopic surgery (2007)

A unique concept of the total recording method to improve safeness during the minimally invasive surgery (MIS) was proposed. MIS has been increasing the number of clinical cases with wide spread of public interest in rapid recovery from surgical diseases. Then the risk of clinical accidents will also be raised for a reason that shortage in supply of standard clinical treatments will lead to complications or mortal cases associated with misjudgments of surgeons. Actually, specific accidents in MIS have been increasing, but there is no efficient methodology of quantitative analysis for accidents, even the standard format for surgical record including operative procedure. We therefore developed the surgery recorder system (Surgery Recorder in short), which gives clinical review process an objective way of identifying the causes of accidents. The concept of Surgery Recorder is based on the " flight recorder with voice / video recorder in the operating theater. Surgery Recorder records surgery information including position/orientation (P/O) and force/torque (F/T) signals of surgical tools, an endoscopic vision and surrounding sounds as well as vital data of the patient in the operating theater (A/V information). A prototype of laparoscopic forceps (SF-Mark II) for P/O and F/T sensing was also developed with less stress of the sensor weight at surgical operation. Then, two types of pig experiments in vivo by an expert were performed for investigating the rough forceps motion to diaphragm and liver. The data from SF-Mark II is useful for detecting the forceps force/motion information of the tissue damage and the simultaneous verification of the A/V information is very important to verify the surgeon's intention level. The ability of Surgery Recorder for quantitative postoperative analysis was introduced by two types of pig experiments.
Sequence-specific affinity precipitation of oligonucleotide using poly(N-isopropylacrylamide)-oligonucleotide conjugate (2000)

In this study we develop a sequence-specific precipitation separation system of oligonucleotide (ODN) using a conjugate between poly(N-isopropylacrylamide) (PNIPAM) and ODN. PNIPAM is known as a thermoresponsive polymer and dehydrates to precipitate above its phase transition temperature in an aqueous milieu. The principal advantage of this separation system using the conjugate is that the hybridization reaction between the conjugate and oligonucleotide is conducted in homogeneous solution. The conjugate was prepared by copolymerization between N-isopropylacrylamide and a vinyl-derivatized (dT)(8). The obtained conjugate efficiently precipitated (dA)(8) from solution when the solution contained more than 1.5 M NaCl. The conjugate containing 3 nmol of (dT)(8) residue was able to precipitate 1.4 nmol of (dA)(8), suggesting that the (dT)(8) residue of the conjugate formed a triple helix with (dA)(8). From an equimolar mixture of (dA)(8) and its one point mutant, the conjugate selectively precipitated (dA)(8): the highest selectivity was obtained for the isolation of (dA)(8) from the mixture consisting of (dA)(4)dT(dA)(3) and (dA)(8). When the conjugate was applied for the precipitation of five oligo(dA)s having different chain lengths, the longer oligo(dA)s tended to be precipitated by the conjugate more efficiently than the shorter ones. The conjugate could be used repeatedly for precipitation of (dA)(8) without showing any loss in precipitation efficiency.
Characterization of Cyclophosphamide Cystitis, a Model of Visceral and Referred Pain, in the Mouse: Species and Strain Differences (2003)

The simple and automatable nature of CP cystitis using hypolocomotion as a dependent measure renders it an attractive model in which to investigate the genetic and physiological bases of visceral pain. Comparison of strain sensitivity to CP induced hypolocomotion with other nociceptive assays suggests that genes specific to visceral nociception may exist.
The hypersensitive response; the centenary is upon us but how much do we know? (2007)

With the centenary of the first descriptions of 'hypersensitiveness' following pathogenic challenge upon us, it is appropriate to assess our current understanding of the hypersensitive response (HR) form of cell death. In recent decades our understanding of the initiation, associated signalling, and some important proteolytic events linked to the HR has dramatically increased. Genetic approaches are increasingly elucidating the function of the HR initiating resistance genes and there have been extensive analyses of death-associated signals, calcium, reactive oxygen species (ROS), nitric oxide, salicylic acid, and now sphingolipids. At the same time, attempts to draw parallels between mammalian apoptosis and the HR have been largely unsuccessful and it may be better to consider the HR to be a distinctive form of plant cell death. We will consider if the HR form of cell death may occur through metabolic dysfunction in which malfunctioning organelles may play a major role. This review will highlight that although our knowledge of parts of the HR is excellent, a comprehensive molecular model is still to be attained.
Human Herpesviruses in Chronic Fatigue Syndrome (1999)

We have conducted a double-blind study to assess the possible involvement of the human herpesviruses (HHVs) HHV6, HHV7, Epstein-Barr virus (EBV), and cytomegalovirus in chronic fatigue syndrome (CFS) patients compared to age-, race-, and gender-matched controls. The CFS patient population was composed of rigorously screened civilian and Persian Gulf War veterans meeting the Centers for Disease Control and Prevention's CFS case definition criteria. Healthy control civilian and veteran populations had no evidence of CFS or any other exclusionary medical or psychiatric condition. Patient peripheral blood mononuclear cells were analyzed by PCR for the presence of these HHVs. Using two-tailed Fisher's exact test analyses, we were unable to ascertain any statistically significant differences between the CFS patient and control populations in terms of the detection of one or more of these viruses. This observation was upheld when the CFS populations were further stratified with regard to the presence or absence of major axis I psychopathology and patient self-reported gradual versus acute onset of disease. In tandem, we performed serological analyses of serum anti-EBV and anti-HHV6 antibody titers and found no significant differences between the CFS and control patients.
Joint Depth and Color Camera Calibration with Distortion Correction (2012)

We present an algorithm that simultaneously calibrates two color cameras, a depth camera, and the relative pose between them. The method is designed to have three key features: accurate, practical, and applicable to a wide range of sensors. The method requires only a planar surface to be imaged from various poses. The calibration does not use depth discontinuities in the depth image, which makes it flexible and robust to noise. We apply this calibration to a Kinect device and present a new depth distortion model for the depth sensor. We perform experiments that show an improved accuracy with respect to the manufacturer's calibration.
Relative responsiveness of physician/assessor-derived and patient-derived core set measures in rheumatoid arthritis trials. (2008)

Because of their demonstrated sensitivity to change, composite measures assessing RA outcomes in clinical trials should continue to include physician/assessor-derived core set measure assessments.
Real-Time Document Image Retrieval on a Smartphone (2012)

This paper presents a novel interface running on smart phones which is capable of seamlessly linking physical and digital worlds through paper documents. This interface is based on a real-time document image retrieval method called Locally Likely Arrangement Hashing. By just only pointing a smart phone to a paper document, the user can obtain its corresponding electronic document. This can easily provide the user with the information associated with the retrieved document. This relevant information can be superimposed on the display of smart phones. Therefore, we consider that with the help of this interface, the user can utilize paper documents as a new medium to display various information.
Kinetics of selective epitaxial deposition of Si1−xGex (1992)

The kinetics of selective deposition of epitaxial Si1−xGex layers in an atmospheric-pressure reactor have been examined. Adding HCl to the SiH2Cl2/GeH4/H2 system decreases the Si component of the deposition rate more than the Ge component, increasing the Ge fraction in the deposited layer. HCl addition also decreases boron incorporation. When deposited selectively on oxide-patterned wafers, lateral transport of the depositing materials causes the deposition rate and the Ge fraction to be higher in small patterns than in large patterns and also to be higher near the edges of patterns than at their centers.
(tert-Butyldimethylsilyloxy)methyl Chloride: Synthesis and Use as N-Protecting Group in Pyrimidinones. (1988)

Synthese a partir d'ethylthiomethanol et de chloro t-butyl dimethyl silane; application a la synthese de chloro-5 phenacyl-1 phenyl-4 1H-pyrimidone-2 a partir de chloro-5 1H-pyrimidone-2 et a la synthese de benzyloxymethyl-3 thymine a partir de bis-trimethylsiloxy-2,4 methyl-5 pyrimidine
Videodensitometric quantitative angiography after coronary balloon angioplasty, compared to edge-detection quantitative angiography and intracoronary ultrasound imaging (2000)

The luminal dimensions as measured by videodensitometric quantitative angiography matched intracoronary ultrasound imaging derived dimensions more closely than edge detection quantitative angiography. Videodensitometric quantitative angiography represents an on-line alternative to intracoronary ultrasound imaging for quantitative analysis regardless of the degree of vessel damage.
Ocular Drug Delivery Targeting the Retina and Retinal Pigment Epithelium Using Polylactide Nanoparticles (2003)

Intravitreous injection of PLA NPs appears to result in transretinal movement, with a preferential localization in the RPE cells. Encapsulated Rh diffuses from the NPs and stains the neuroretina and the RPE cells. The findings support the idea that specific targeting of these tissues is feasible. Furthermore, the presence of the NPs within the RPE cells 4 months after a single injection shows that a steady and continuous delivery of drugs can be achieved.
FPGA Modeling and Optimization of a SIMON Lightweight Block Cipher (2019)

Security of sensitive data exchanged between devices is essential. Low-resource devices (LRDs), designed for constrained environments, are increasingly becoming ubiquitous. Lightweight block ciphers provide confidentiality for LRDs by balancing the required security with minimal resource overhead. SIMON is a lightweight block cipher targeted for hardware implementations. The objective of this research is to implement, optimize, and model SIMON cipher design for LRDs, with an emphasis on energy and power, which are critical metrics for LRDs. Various implementations use field-programmable gate array (FPGA) technology. Two types of design implementations are examined: scalar and pipelined. Results show that scalar implementations require 39% less resources and 45% less power consumption. The pipelined implementations demonstrate 12 times the throughput and consume 31% less energy. Moreover, the most energy-efficient and optimum design is a two-round pipelined implementation, which consumes 31% of the best scalar's implementation energy. The scalar design that consumes the least energy is a four-round implementation. The scalar design that uses the least area and power is the one-round implementation. Balancing energy and area, the two-round pipelined implementation is optimal for a continuous stream of data. One-round and two-round scalar implementations are recommended for intermittent data applications.