gebhart/patrepeval huggingface dataset:
Attractiveness of binary blends of floral odorant compounds to moths in Florida, USA (2008)

Abstract Evaluation of combinations of flower odor compounds in the field revealed several compounds that were attractive or co‐attractive with phenylacetaldehyde (PAA) to pest noctuid and pyralid moths. A number of moth species responded positively to the key floral odorant PAA. The floral odorants cis ‐jasmone, linalool, benzyl acetate, limonene, β‐myrcene, methyl salicylate, and methyl 2‐methoxybenzoate all increased captures of some moths when added to traps with PAA, but responses varied among the moth species that were trapped. For example, soybean looper moths, Pseudoplusia includens (Walker) (Lepidoptera: Noctuidae), most strongly responded to PAA + β‐myrcene, but benzyl acetate, cis ‐jasmone, and limonene also increased captures of these moths when these compounds were used in traps along with PAA. Velvetbean caterpillar moths, Anticarsia gemmatalis Hübner (Lepidoptera: Noctuidae), responded most strongly to PAA + linalool, but β‐myrcene, cis ‐jasmone, and limonene also increased captures of these moths in traps over numbers trapped with PAA. Positive responses to floral compound blends were also noted for golden looper [ Argyrogramma verruca (F.)], grass looper [ Mocis disseverans (Walker)], tobacco budworm [ Heliothis virescens (F.)], southern armyworm [ Spodoptera eridania (Stoll) (all Lepidoptera: Noctuidae)], and melonworm [ Diaphania hyalinata (L.) (Lepidoptera: Pyralidae)]. Overall, PAA + β‐myrcene appeared to be the strongest floral compound combination for pest species trapped, compared to PAA or other compound blends.
Removal of elevated circulating angiopoietin-2 by plasma exchange – A pilot study in critically ill patients with thrombotic microangiopathy and anti-glomerular basement membrane disease (2010)

In critically ill patients, the massive release of angiopoietin-2 (Ang-2) from Weibel-Palade bodies interferes with protective angiopoietin-1 (Ang-1)/Tie2 signalling in endothelial cells, thus leading to vascular inflammation and subsequent organ-dysfunction. We hypothesised that plasma exchange (PE) is efficient for lowering excess Ang-2 levels in critically ill patients with thrombocytic microangiopathy (TMA) or anti-glomerular basement membrane (anti-GBM) disease. Plasma Ang-1 and Ang-2 were measured by immuno-luminometric assays in patients with TMA (n=9) or anti-GBM disease (n=4) before and after up to four PE sessions. Twenty apparently healthy volunteers served as controls. Median (IQR) plasma levels of Ang-2 were markedly increased in patients with TMA (7.3 (2.4-21.1) ng/ml) and anti-GBM disease (5.8 (3.4-7.0) ng/ml) compared to healthy controls (1.0 (0.9-1.4) ng/ml, p <0.001). Moreover, Ang-1 plasma levels were decreased in both, TMA (1.02 (0.62-1.62) ng/ml) and anti-GBM disease patients (0.74 (0.59-3.62) ng/ml) compared to healthy controls (2.5 (1.93-3.47) ng/ml, p <0.005). During a total of 32 treatments, PE effectively lowered elevated mean (SD) Ang-2 plasma levels by 36.7 ± 19.6% per treatment (p <0.0001), whereas low Ang-1 plasma levels remained unchanged (0.3 ± 58.5%; p=0.147). Ang-2 levels declined to almost normal values during ≤4 PE treatments (Friedman´s test p<0.0001). PE is an effective method to remove excess circulating Ang-2. It remains to be elucidated if the removal of Ang-2 is crucial to ameliorate endothelial damage in critically ill patients with severely altered endothelial integrity.
Mycophenolate mofetil treatment of severe renal disease in pediatric onset systemic lupus erythematosus. (2001)

MMF may represent a valuable alternative to traditional cytotoxic agents for children with class V lupus nephritis, but was less effective in attenuating disease progression in class IV glomerulonephritis. MMF had a steroid sparing effect and appeared to be effective in controlling serologic disease activity in pediatric onset SLE. Adverse events such as infections may limit its use and remain a concern.
Whole-cell based hybrid materials for green energy production, environmental remediation and smart cell-therapy (2011)

This critical review highlights the advances that have been made over recent years in the domain of whole-cell immobilisation and encapsulation for applications relating to the environment and human health, particularly focusing on examples of photosynthetic plant cells, bacteria and algae as well as animal cells. Evidence that encapsulated photosynthetic cells remain active in terms of CO(2) sequestration and biotransformation (solar driven conversion of CO(2) into biofuels, drugs, fine chemicals etc.), coupled with the most recent advances made in the field of cell therapy, reveals the need to develop novel devices based on the preservation of living cells within abiotic porous frameworks. This review shall corroborate this statement by selecting precise examples that unambiguously demonstrate the necessity and the benefits of such smart materials. As will be described, the handling and exploitation of photosynthetic cells are enhanced by entrapment or encapsulation since the cells are physically separated from the liquid medium, thereby facilitating the recovery of the metabolites produced. In the case of animal cells, their encapsulation within a matrix is essential in order to create a physical barrier that can protect the cells auto-immune defenders upon implantation into a living body. For these two research axes, the key parameters that have to be kept in mind when designing hybrid materials will be identified, concentrating on essential aspects such as biocompatibility, mechanical strength and controlled porosity (264 references).
Effect of 25-hydroxycholesterol and bile acids on the regulation of cholesterol metabolism in Hep G2 cells (1989)

The effect of 25-hydroxycholesterol (25-OH-cholesterol) and chenodeoxycholic (CDC) acid on apoprotein secretion, low-density lipoprotein receptor activity, and [3H]triacylglycerol secretion in Hep G2 cells was studied. Both 25-OH-cholesterol and CDC acid increased the secretion of apolipoprotein (apo) E by Hep G2 cells. The secretion of apo A-I was slightly lowered (less than 10% disease). The maximal increase in apo E secretion was observed in culture medium containing 2 micrograms of 25-OH-cholesterol/ml or 10 micrograms of CDC acid/ml plus 10% fetal calf serum. Cholesterol, 7-OH-cholesterol and other bile acids were ineffective in inducing increases in apo E secretion. Another cholesterol synthesis inhibitor, mevinolin, was also ineffective in generating an increase in apoprotein secretion. The data indicated a specific interaction between 25-OH-cholesterol or CDC acid and apo E secretion in Hep G2 cells. Cholesterol synthesis, as measured by the incorporation of [14C]acetic acid into sterols, was repressed in Hep G2 cells in the presence of 25-OH-cholesterol (17% of control value). CDC acid, on the other hand, increased [14C]acetic acid incorporation (156% of control value). The number of LDL receptors in Hep G2 cells was decreased after incubation with 25-OH-cholesterol (62% of control value), but increased significantly after incubation with CDC acid (149% of control value). The secretion of [3H]triacylglycerol by Hep G2 cells incubated with 25-OH-cholesterol was greatly increased (248% of control value). On the contrary, CDC acid did not cause any increase in [3H]triacylglycerol secretion. The above results suggest that 25-OH-cholesterol and CDC acid have different effects on lipid metabolism in Hep G2 cells. The mRNA levels of apo E increased in cells preincubated with 25-OH-cholesterol and CDC acid, which suggested that the increase in apo E secretion is at least partly due to an increase in synthesis.
Intermolecular Interactions between Protein C Inhibitor and Coagulation Proteases (1995)

Protein C inhibitor (PCI) inhibits multiple plasma serine proteases. To determine which residues contribute to its specificity of inhibition, 19 mutations in the reactive site loop of PCI (from Thr352 to Arg357) were generated and assayed with thrombin, activated protein C (APC), and factor Xa. To identify the intermolecular interactions responsible for these kinetics, a molecular model of PCI was generated using alpha 1-protease inhibitor and ovalbumin as templates. This model of PCI was docked with thrombin, followed by extensive energy minimization, to determine a lowest energy complex. The resulting docked complex was used as a template to form molecular models of PCI-APC and PCI-factor Xa complexes. The best inhibitors of thrombin contained Pro or Gly at the P2 position in place of Phe353, with 2- and 7-fold increases in activity, respectively. These substitutions reduced steric interactions with the 60-insertion loop unique to thrombin. The best inhibitors of APC and factor Xa contained Arg at the P3 position in place of Thr352, with 2- and 5-fold increases in inhibition rates, respectively. The molecular model predicts that Arg in this position could form a salt bridge with Glu217 of each protease. Changing Arg357 at the P3' position had little effect on protease inhibition, consistent with the observation in the model that this residue points toward the body of PCI, forming a salt bridge with Glu220. Given its broad specificity of inhibition, PCI has proven very useful in understanding the nature of serpin-protease interactions using multiple mutations in a serpin assayed with multiple proteases.
持續學習，助己助人 : 傑出第三龄人士湯潔霞女士分享 (2015)

對11位退休人士來說，2015年4月23日是一個尤其令人振奮和值得紀念的大日子。皆因他們當日於香港電燈有限公司 (港燈) 與香港社會服務聯會 (社聯) 合辦的第四屆「傑出第三齡人士選舉2015」中獲獎，其努力向上、積極樂觀的態度與表現得到社會的肯定。 「從事玩具包裝，退休後終身學習，大學圓夢，更勝莘莘學子」為大會對其中一位傑出第三齡人士得獎者湯潔霞女士的描述。湯女士對終身學習以至服務社會都充滿熱誠，我們很高興可邀請她向本通訊之讀者分享她的第三齡生活和得獎感受。
Adrienne Rich, Ruth Whitman, and Their Jewish Elders (1991)

Adrienne Rich's portraits of her paternal, Jewish elders confirm the view that elders who suppress their ties to Judaism suffer psychologically as they age; however, Rich's depiction of her Jewish mother-in-law shows that elders who maintain their ties can also suffer depression in later stages. In contrast, Ruth Whitman shows that her Jewish grandmothers maintained ties and were content in old age; at the same time, her paternal Jewish grandfather aged peacefully even though he rebelled against Judaism. The portraits drawn by these poets come from a breadth of thinking that tolerates ambiguities, goes beyond generalities to individual differences, and permits sympathy in the midst of criticism.
Metabolic complications of protease inhibitors: what have we learned so far? (1999)

Reports of success with protease inhibitor-based HAART are appearing at the same time as reports of puzzling metabolic effects. These effects include loss of peripheral subcutaneous fat, truncal obesity, hyperlipidemia, and frank diabetes. There is no consensus on how often these problems manifest themselves. Patients taking protease inhibitors (PIs) also appear to be at higher risk of developing coronary disease, although more study is needed. Another question explored is whether PI-related complications can be reversed.
Cloning of the Novel Human Myeloid-Cell-Specific C/EBP-ε Transcription Factor (1997)

Chicken NF-M transcription factor, in cooperation with either c-Myb or v-Myb, is active in the combinatorial activation of myeloid-cell-specific genes in heterologous cell types, such as embryonic fibroblasts. In humans, similar effects were observed with homologous members of the CCAAT/enhancer-binding protein (C/EBP) family of transcriptional regulators, especially the human homolog of chicken NF-M, C/EBP-beta (NF-IL6). However, the NF-IL6 gene is expressed in a variety of nonmyeloid cell types and is strongly inducible in response to inflammatory stimuli, making it an unlikely candidate to have an exclusive role as a combinatorial differentiation switch during myelopoiesis in human cells. By using a reverse transcription-PCR-based approach and a set of primers specific for the DNA-binding domains of highly homologous members of the C/EBP family of transcriptional regulators, we have cloned a novel human gene encoding a member of the C/EBP gene family, identified as the human homolog of CRP1, C/EBP-epsilon. A 1.2-kb cDNA encoding full-length human C/EBP-epsilon was cloned from a promyelocyte-late myeloblast-derived lambda gt11 library. Molecular analysis of the cDNA and genomic clones indicated the presence of two exons encoding a protein with an apparent molecular mass of 32 kDa and a pI of 9.5. Primer extension analysis of C/EBP-epsilon mRNA detected a single major transcription start site approximately 200 bp upstream of the start codon. The putative promoter area is similar to those of several other myeloid-cell-specific genes in that it contains no TATAAA box but has a number of purine-rich stretches with multiple sites for the factors of the Ets family of transcriptional regulators. Northern blot analyses indicated a highly restricted mRNA expression pattern, with the strongest expression occurring in promyelocyte and late-myeloblast-like cell lines. Western blot and immunoprecipitation studies using rabbit anti-C/EBP-epsilon antibodies raised against the N-terminal portion of C/EBP-epsilon (amino acids 1 to 115) showed that C/EBP-epsilon is a 32-kDa nuclear phosphoprotein. The human C/EBP-epsilon protein exhibited strong and specific binding to double-stranded DNA containing consensus C/EBP sites. Cotransfection of the C/EBP-epsilon sense and antisense expression constructs together with chloramphenicol acetyltransferase reporter vectors containing myeloid-cell-specific c-mim and human myeloperoxidase promoters suggested a role for C/EBP-epsilon transcription factor in the regulation of a subset of myeloid-cell-specific genes. Transient tranfection of a promyelocyte cell line (NB4) with a C/EBP-epsilon expression plasmid increased cell growth by sevenfold, while antisense C/EBP-epsilon caused a fivefold decrease in clonal growth of these cells.
Reprogramming of H3K27me3 Is Critical for Acquisition of Pluripotency from Cultured Arabidopsis Tissues (2012)

In plants, multiple detached tissues are capable of forming a pluripotent cell mass, termed callus, when cultured on media containing appropriate plant hormones. Recent studies demonstrated that callus resembles the root-tip meristem, even if it is derived from aerial organs. This finding improves our understanding of the regeneration process of plant cells; however, the molecular mechanism that guides cells of different tissue types to form a callus still remains elusive. Here, we show that genome-wide reprogramming of histone H3 lysine 27 trimethylation (H3K27me3) is a critical step in the leaf-to-callus transition. The Polycomb Repressive Complex 2 (PRC2) is known to function in establishing H3K27me3. By analyzing callus formation of mutants corresponding to different histone modification pathways, we found that leaf blades and/or cotyledons of the PRC2 mutants curly leaf swinger (clf swn) and embryonic flower2 (emf2) were defective in callus formation. We identified the H3K27me3-covered loci in leaves and calli by a ChIP-chip assay, and we found that in the callus H3K27me3 levels decreased first at certain auxin-pathway genes. The levels were then increased at specific leaf genes but decreased at a number of root-regulatory genes. Changes in H3K27me3 levels were negatively correlated with expression levels of the corresponding genes. One possible role of PRC2-mediated H3K27me3 in the leaf-to-callus transition might relate to elimination of leaf features by silencing leaf-regulatory genes, as most leaf-preferentially expressed regulatory genes could not be silenced in the leaf explants of clf swn. In contrast to the leaf explants, the root explants of both clf swn and emf2 formed calli normally, possibly because the root-to-callus transition bypasses the leaf gene silencing process. Furthermore, our data show that PRC2-mediated H3K27me3 and H3K27 demethylation act in parallel in the reprogramming of H3K27me3 during the leaf-to-callus transition, suggesting a general mechanism for cell fate transition in plants.
Objects2action: Classifying and Localizing Actions without Any Video Example (2015)

The goal of this paper is to recognize actions in video without the need for examples. Different from traditional zero-shot approaches we do not demand the design and specification of attribute classifiers and class-to-attribute mappings to allow for transfer from seen classes to unseen classes. Our key contribution is objects2action, a semantic word embedding that is spanned by a skip-gram model of thousands of object categories. Action labels are assigned to an object encoding of unseen video based on a convex combination of action and object affinities. Our semantic embedding has three main characteristics to accommodate for the specifics of actions. First, we propose a mechanism to exploit multiple-word descriptions of actions and objects. Second, we incorporate the automated selection of the most responsive objects per action. And finally, we demonstrate how to extend our zero-shot approach to the spatio-temporal localization of actions in video. Experiments on four action datasets demonstrate the potential of our approach.
CATALYSIS FOR CONTROL OF AUTOMOTIVE EMISSIONS (1972)

Abstract In recent years, concern over our environment has led to substantial action by the executive and legislative branches of government on both the state and federal levels. A major environmental concern is that of air pollution. The sources of air pollution are mainly industrial or stationary sources, which includes a wide variety of manufacturing facilities and power plants, and automobiles. In many urban areas, due to their sheer number, the automobiles are major contributors to air pollution.
Synthesis and screening of anti-cancer, antioxidant, and anti-inflammatory activities of novel galloyl pyrazoline derivatives (2009)

A novel series of galloyl-2-pyrazoline derivatives were synthesized and screened for their cytotoxic effect against hepatocellular carcinoma (Hep-G2) and colon carcinoma (HCT-116) cells using the MTT assay, proliferative effect on the immune cells RAW macrophage 264.7 using the MTT assay, anti-inflammatory activity through measurement of the accumulation of nitrites using Griess reagent, and for their antioxidant activity through scavenging of the 1,1-diphenyl-2-picrylhydrazyl (DPPH) radical. Most of the tested compounds had a concomitant weak cytotoxic effect against both Hep-G2 and HCT-116 cells, except 5-(2-furyl)-4,5-dihydro-1-(3,4,5-trihydroxybenzoyl)-3-(3,4-dimethoxyphenyl)-1H-pyrazole (IC50 8.4 μg/mL and 18.6 μg/mL) and 5-(4-cyanophenyl)-4,5-dihydro-1-(3,4,5-trihydroxybenzoyl)-3-(3,4-dimethoxy-phenyl)-1H-pyrazole (IC50 15.2 μg/mL, 31.5 μg/mL), which exhibited a cytotoxic effect against Hep-G2 and HCT-116 cells, respectively, while only 5-(2,6-dichlorophenyl)-4,5-dihydro-1-(3,4,5-trihydroxybenzoyl)-3-(3,4-dimethoxyphenyl)-1H-pyrazole was a significant dose-dependent inducer of macrophage proliferation. On the other hand, all of the tested compounds were significant inhibitors of LPS-stimulated NO generation and potential scavengers of the DPPH radical, except 1-(3,4,5-trihydroxybenzoyl)-4,5-dihydro-5-(4-methoxyphenyl)-3-(3,4-dimethoxyphenyl)-1H-pyrazole.
Cathepsin S Signals via PAR2 and Generates a Novel Tethered Ligand Receptor Agonist (2014)

Protease-activated receptor-2 is widely expressed in mammalian epithelial, immune and neural tissues. Cleavage of PAR2 by serine proteases leads to self-activation of the receptor by the tethered ligand SLIGRL. The contribution of other classes of proteases to PAR activation has not been studied in detail. Cathepsin S is a widely expressed cysteine protease that is upregulated in inflammatory conditions. It has been suggested that cathepsin S activates PAR2. However, cathepsin S activation of PAR2 has not been demonstrated directly nor has the potential mechanism of activation been identified. We show that cathepsin S cleaves near the N-terminus of PAR2 to expose a novel tethered ligand, KVDGTS. The hexapeptide KVDGTS generates downstream signaling events specific to PAR2 but is weaker than SLIGRL. Mutation of the cathepsin S cleavage site prevents receptor activation by the protease while KVDGTS retains activity. In conclusion, the range of actions previously ascribed to cysteine cathepsins in general, and cathepsin S in particular, should be expanded to include molecular signaling. Such signaling may link together observations that had been attributed previously to PAR2 or cathepsin S individually. These interactions may contribute to inflammation.
<i>p</i>‐Hydroxyphenylpyruvate dioxygenase inhibitor‐resistant plants (2005)

The enzyme p-hydroxyphenylpyruvate dioxygenase (HPPD) catalyzes the formation of homogentisic acid, the aromatic precursor of plastoquinone and vitamin E. HPPD is the specific target of several herbicide families: isoxazoles, triketones and pyroxazoles. Its inhibition results in the depletion of the plant plastoquinone and vitamin E pools, leading to bleaching symptoms. These herbicides are very potent for the selective pre- and in some cases post-emergence control of a wide range of broadleaf and grass weeds in maize and rice. Their herbicidal potential raised interest in the development of highly resistant transgenic crops. This goal was first achieved by over-expression of a bacterial HPPD in crop plants, and an increased level of resistance was obtained by using a mutant enzyme. A second strategy based on bypassing HPPD in the production of homogentisate was then developed. Recently, a third strategy of resistance based on the increase of p-hydroxyphenylpyruvate substrate flux has been developed. This was achieved by the introduction of the yeast prephenate dehydrogenase gene (PDH) into transgenic plants already overexpressing HPPD. In addition to a high level of herbicide resistance, a massive accumulation of vitamin E, mainly tocotrienols, was observed in leaves of the transgenic HPPD-PDH plants.
Global View of the <i>Clostridium thermocellum</i> Cellulosome Revealed by Quantitative Proteomic Analysis (2007)

A metabolic isotope-labeling strategy was used in conjunction with nano-liquid chromatography-electrospray ionization mass spectrometry peptide sequencing to assess quantitative alterations in the expression patterns of subunits within cellulosomes of the cellulolytic bacterium Clostridium thermocellum, grown on either cellulose or cellobiose. In total, 41 cellulosomal proteins were detected, including 36 type I dockerin-containing proteins, which count among them all but three of the known docking components and 16 new subunits. All differential expression data were normalized to the scaffoldin CipA such that protein per cellulosome was compared for growth between the two substrates. Proteins that exhibited higher expression in cellulosomes from cellulose-grown cells than in cellobiose-grown cells were the cell surface anchor protein OlpB, exoglucanases CelS and CelK, and the glycoside hydrolase family 9 (GH9) endoglucanase CelJ. Conversely, lower expression in cellulosomes from cells grown on cellulose than on cellobiose was observed for the GH8 endoglucanase CelA; GH5 endoglucanases CelB, CelE, CelG; and hemicellulases XynA, XynC, XynZ, and XghA. GH9 cellulases were the most abundant group of enzymes per CipA when cells were grown on cellulose, while hemicellulases were the most abundant group on cellobiose. The results support the existing theory that expression of scaffoldin-related proteins is coordinately regulated by a catabolite repression type of mechanism, as well as the prior observation that xylanase expression is subject to a growth rate-independent type of regulation. However, concerning transcriptional control of cellulases, which had also been previously shown to be subject to catabolite repression, a novel distinction was observed with respect to endoglucanases.