gebhart/patrepeval huggingface dataset:
Kelp distribution off California (2004)

This data set delineates kelp beds (Nereocystis leutkeana and Macrocystis spp.) along the Pacific Coast of California. Multiple years of kelp mapping data for the state have been compiled into a single coastwide data set. Due to variability in oceanographic and climatic conditions, kelp bed abundance and distribution is extremely variable from year to year. Therefore kelp bed locations and extent in a particular year may not reflect current or past conditions. In addition, the methods for mapping kelp in California have changed over time. Despite these caveats, this multi-year kelp coverage can be used to identify areas that have been known to support kelp growth, and investigate general patterns of kelp distribution on a coastwide scale.California has three coastal kelp surveys. The first survey, 1989, was a coastwide survey using the same contractor and method as Washington State. Kelp canopy data from the second survey, 1999, was created from digital image processing of scanned aerial photographs. The 2002 survey was performed with a Digital Multispectral Video (DMSV) sensor and kelp beds were delineated by digital image processing techniques.
Purification and Characterization of Recombinant Human Granulocyte Colony-Stimulating Factor (rhG-CSF) Derivatives: KW-2228 and Other Derivatives (1998)

Various derivatives of recombinant human granulocyte colony-stimulating factor (rhG-CSF) have been overproduced in Escherichia coli with the strong, inducible trp promoter. A derivative designated as KW-2228 in which the amino acids were replaced at five positions showed more potent granulopoietic activity and stability than those of wild-type both in vitro and in vivo. The purification involved a sequential renaturation process and three-step chromatography. Refolding succeeded in very high yield using a urea system. The purity of KW-2228 was greater than 99% as measured by SDS-PAGE and HPLC analysis. According to circular dichroism and nuclear magnetic resonance spectroscopy, rhG-CSF and KW-2228 have very similar conformations. This suggests that the substitution of five amino acids does not appreciably change the conformation of hG-CSF. KW-2228 ([Ala1, Thr3, Tyr4, Arg5, and Ser17]-hG-CSF) and derivative A ([Ala1, Thr3, Tyr4, Arg5]-hG-CSF) are easily crystallized and they show similar in vitro activity. On the other hand, neither rhG-CSF nor derivative B ([Ser17]-hG-CSF) are crystallized under the same conditions. Thus, the four amino acid substitution (Ala1, Thr3, Tyr4, Arg5) of the N-terminal sequence may facilitate crystallization. The change of Cys17 to Ser may not influence the stability and activity of hG-CSF.
Studies of Charge Resonance Bands Formed in .ALPHA.- and .GAMMA.-Styrylpyridinium Tetraphenylborate Derivatives. (2001)

The charge resonance (CR) interactions in α-substituted-(4-nitrostyryl)pyridinium derivatives have been investigated. The CR bands of dimer radical cation in α-substituted bichromophoric compounds were observed with a peak around 1010nm upon irradiation at 405nm in acetonitrile (ACN) at room temperature. These bands were weak because of their restricted geometrical conformation as compared with γ-substituted one. The CR band of dimer radical cation in α-substituted monochromophoric compound was observed at 993nm in 1, 2-dimethoxyethane. No CR band for this compound in ACN as a polar solvent strongly suggested that radical is difficult to be generated because of increased distance between the tetraphenylborate anion as a donor to the styrylpyridinium chromophore as an acceptor.
Épreuves réversibles donnant la sensation du relief (1908)

Pas de Résumé disponible
Extra Precision Glide:  Docking and Scoring Incorporating a Model of Hydrophobic Enclosure for Protein−Ligand Complexes (2006)

A novel scoring function to estimate protein-ligand binding affinities has been developed and implemented as the Glide 4.0 XP scoring function and docking protocol. In addition to unique water desolvation energy terms, protein-ligand structural motifs leading to enhanced binding affinity are included: (1) hydrophobic enclosure where groups of lipophilic ligand atoms are enclosed on opposite faces by lipophilic protein atoms, (2) neutral-neutral single or correlated hydrogen bonds in a hydrophobically enclosed environment, and (3) five categories of charged-charged hydrogen bonds. The XP scoring function and docking protocol have been developed to reproduce experimental binding affinities for a set of 198 complexes (RMSDs of 2.26 and 1.73 kcal/mol over all and well-docked ligands, respectively) and to yield quality enrichments for a set of fifteen screens of pharmaceutical importance. Enrichment results demonstrate the importance of the novel XP molecular recognition and water scoring in separating active and inactive ligands and avoiding false positives.
Fatty acid transduction of nitric oxide signaling: Nitrolinoleic acid potently activates endothelial heme oxygenase 1 expression (2006)

Nitroalkenes are a class of cell signaling mediators generated by NO and fatty acid-dependent redox reactions. Nitrated fatty acids such as 10- and 12-nitro-9,12-octadecadienoic acid (nitrolinoleic acid, LNO 2 ) exhibit pluripotent antiinflammatory cell signaling properties. Heme oxygenase 1 (HO-1) is up-regulated as an adaptive response to inflammatory mediators and oxidative stress. LNO 2 (1–10 μM) induced HO-1 mRNA and protein up to 70- and 15-fold, respectively, in human aortic endothelial cells. This induction of HO-1 occurred within clinical LNO 2 concentration ranges, far exceeded responses to equimolar amounts of linoleic acid and oxidized linoleic acid, and rivaled that induced by hemin. Ex vivo incubation of rat aortic segments with 25 μM LNO 2 resulted in a 40-fold induction of HO-1 protein that localized to endothelial and smooth muscle cells. Actinomycin D inhibited LNO 2 induction of HO-1 in human aortic endothelial cells, and LNO 2 activated a 4.5-kb human HO-1 promoter construct, indicating transcriptional regulation of the HO-1 gene. The peroxisome proliferator-activated receptor γ (PPARγ) receptor antagonist GW9662 did not inhibit LNO 2 -mediated HO-1 induction, and a methyl ester derivative of LNO 2 with diminished PPARγ binding capability also induced HO-1, affirming a PPARγ-independent mechanism. The NO scavengers 2-(4-carboxyphenyl)-4,4,5,5-tetramethylimidazoline-1-oxyl-3-oxide and oxymyoglobin partially reversed induction of HO-1 by LNO 2 , revealing that LNO 2 regulates HO-1 expression by predominantly NO-independent mechanisms. In summary, the metabolic and inflammatory signaling actions of nitroalkenes can be transduced by robust HO-1 induction.
Novel Therapeutic Approach for the Treatment of Alzheimer's Disease by Peripheral Administration of Agents with an Affinity to β-Amyloid (2003)

Plaques containing beta-amyloid (Abeta) peptides are one of the pathological features of Alzheimer's disease, and the reduction of Abeta is considered a primary therapeutic target. Amyloid clearance by anti-Abeta antibodies has been reported after immunization, and recent data have shown that the antibodies may act as a peripheral sink for Abeta, thus altering the periphery/brain dynamics. Here we show that peripheral treatment with an agent that has high affinity for Abeta (gelsolin or GM1) but that is unrelated to an antibody or immune modulator reduced the level of Abeta in the brain, most likely because of a peripherally acting effect. We propose that in general, compounds that sequester plasma Abeta could reduce or prevent brain amyloidosis, which would enable the development of new therapeutic agents that are not limited by the need to penetrate the brain or evoke an immune response.
Cell sorting by deterministic cell rollingâ â¡ (2012)

This communication presents the concept of âdeterministic cell rollingâ, which leverages transient cell-surface molecular interactions that mediate cell rolling to sort cells with high purity and efficiency in a single step.
Mortality in Prader-Willi Syndrome (2006)

Persons with Prader-Willi syndrome have been known to have a high mortality rate. However, intellectual disability, which usually accompanies Prader-Willi syndrome, is also associated with a higher mortality rate than in the general population. In this study, the death rates in a longitudinal cohort of people with Prader-Willi syndrome are compared with those for an epidemiologically derived control sample of people with intellectual disability from other causes. We found that those with Prader-Willi syndrome had a higher mortality rate than did controls. After the protective effect of mild intellectual disability or average intellectual function was accounted for, the hazard ratio for Prader-Willi syndrome versus controls was 6.07. Obesity and its complications were factors contributing to the mortality identified in this study.
The Plant Homeo Domain finger protein, VIN3-LIKE 2, is necessary for photoperiod-mediated epigenetic regulation of the floral repressor, MAF5 (2010)

In facultative photoperiodic flowering plants, noninductive photoperiods result in a delay in flowering, but such plants eventually flower, illustrating plasticity in an important developmental transition, flowering. The model plant, Arabidopsis, has a facultative photoperiod response. Although the inductive flowering promotion pathway has been extensively studied, the pathway to flowering in noninductive photoperiods is not well understood. Here, we show that a Plant Homeo Domain finger-containing protein, VIN3-LIKE 2 (VIL2), is necessary to maintain the epigenetically repressed state of MAF5 and permit more rapid flowering in noninductive photoperiods in Arabidopsis. Levels of both VIL2 mRNA and protein are under diurnal fluctuation and maintain the repressed state at MAF5 chromatin in a photoperiod-specific manner. VIL2 binds preferentially to dimethylated histone H3 Lys-9 (H3K9me2) peptides in vitro and VIL2 is required for the maintenance of H3K9me2 at MAF5 chromatin in vivo. Furthermore, VIL2 is required for the maintenance of trimethylated histone H3 Lys-27 at MAF5 through the physical association with a component of polycomb repression complex 2. Thus, the repression of MAF5 by VIL2 provides a mechanism to promote flowering in noninductive photoperiods, which contributes to the facultative nature of the Arabidopsis photoperiodic response.
Effects of Beraprost Sodium, a Prostacyclin Analogue, on Diabetic Neuropathy in Streptozotocin-Induced Diabetic Rats (1996)

The effects of beraprost sodium (BPS), a stable prostacyclin analogue, on motor nerve conduction velocity and nerve blood flow of the sciatic nerve were investigated in streptozotocin-induced diabetic rats, and they were compared with the effects of epalrestat (aldose reductase inhibitor). Treatment with BPS for 4 weeks significantly inhibited the decrease in motor nerve conduction velocity and nerve blood flow dose-dependently, but epalrestat had no effect on nerve blood flow. Morphological changes of the myelinated fibers of the sciatic nerve were observed macroscopically. The mean axonal area and the mean circularity index of diabetic control rats were significantly less than that of normal rats, while after 6 weeks of BPS treatment, these decreases of the axonal area and the circularity index were inhibited. The enlargement of the mean lumen area of microvessels in the diabetic rats was significantly inhibited after 6 weeks of BPS treatment. Additionally, augmentation of the washed platelet aggregation in diabetic rats was significantly normalized by BPS. It was suggested that BPS is effective on diabetic neuropathy via amelioration of the decrease of blood supply to the structure. The effects of BPS on platelets might also contribute to the improvement of neuronal circulatory deficiency.
Effects of policosanol 20 versus 40 mg/day in the treatment of patients with type II hypercholesterolemia: a 6-month double-blind study. (2001)

Policosanol is a well defined mixture of higher aliphatic primary alcohols isolated from sugar cane wax with cholesterol-lowering effects proven for a dose range from 5-20 mg/day in patients with type II hypercholesterolemia and dyslipidemia associated with noninsulin dependent diabetes mellitus. This randomized, double-blind study investigated the cholesterol-lowering efficacy and tolerability of policosanol 20 mg/day compared with 40 mg/day. Changes in low-density lipoprotein (LDL)-cholesterol levels were predefined as the primary efficacy endpoint. Patients with type II hypercholesterolemia were enrolled in the study and instructed to continue a step I cholesterol-lowering diet for 6 weeks and those eligible to be included (89) were randomly allocated to receive under double-blind conditions placebo (n = 30), policosanol 20 mg/day (n = 29) or 40 mg/day (n = 30). After 24 weeks, policosanol at 20 and 40 mg/day significantly (p < 0.00001) lowered LDL-cholesterol by 27.4% and 28.1%, total cholesterol (p < 0.00001) by 15.6% and 17.3%, and the LDL-cholesterol/high-density lipoprotein (HDL)-cholesterol ratio by 37.2% and 36.5%, respectively The ratio of total cholesterol/HDL-cholesterol was lowered by 27.1% and 27.5%, while HDL-cholesterol levels increased (p < 0.001) by 17.6% and 17.0%, respectively. Compared with baseline, policosanol 20 mg/day lowered triglycerides (p < 0.05) by 12.7%, while they were lowered (p < 0.01) by 15.6% at a dose of policosanol 40 mg/day All the above-mentioned significant differences were also different from placebo and no significant changes occurred in any lipid profile parameters in the placebo group. Based on the mean values of LDL-cholesterol levels at study completion, the mean percent reductions from baseline were 27.4% and 28.1% for the 20 and 40 mg/day groups, respectively. Thus, the effects of both policosanol doses on the main efficacy variable were practically identical. Consistent with the data obtained for LDL-cholesterol, both doses were similarly effective in changing all the other lipid profile parameters. No unexpected adverse effects were observed and there were no significant between-group differences regarding safety indicator values or reported adverse effects. In conclusion, although the tolerability profile remains excellent, according to the present results policosanol at a dose of 40 mg/day does not offer significant additional cholesterol-lowering efficacy over the 20 mg/day dose.
The peptide p2Ca is immunodominant in allorecognition of Ld by beta chain variable region V beta 8+ but not V beta 8- strains. (1994)

An explanation for the vigorous allograft rejection that results from the recognition by CD8+ T cells of allogeneic major histocompatibility complex (MHC) molecules has long eluded immunologists. Recent evidence has demonstrated that alloreactivity involves recognition of both the allogeneic MHC molecule and its associated peptide ligand, suggesting the current theory that the strength of the allogeneic response results from the participation of numerous peptides. However, I report here that a single peptide, p2Ca, is immunodominant in allorecognition of the murine MHC class I molecule H-2Ld. The majority of Ld-alloreactive T-cell clones are specific for Ld-p2Ca and this immunodominance is not due to peptide cross-reactivity. Generation of Ld-alloreactive cytotoxic T lymphocytes in a strain tolerant to p2Ca did not affect the peptide immunodominance, demonstrating that tolerance to p2Ca is MHC-restricted. The p2Ca-specific clones express beta chain variable region V beta 8 T-cell receptors, however, Ld-alloreactive cytotoxic T lymphocytes generated in V beta 8- mice are not dominated by recognition of p2Ca, suggesting that the T-cell receptor repertoire is a factor in determining peptide immunodominance.
Shame-Based Versus Pride-Based Reporting (2002)

The emphasis or tone of an organization’s performance reporting system can be described on a continuum from “shame-based” to “pride-based,” in which the former emphasizes areas of comparative weakness, and the latter emphasizes areas of accomplishment. Natural human proclivities (eg, bad news sells; criticism is easier and seen as more savvy and valuable) act to make shame-based reporting the more dominant form. Yet that form can have debilitating effects on organizational self-image and motivation, and can effect the disengagement of the audience from the reporting process. A balanced reporting style is portrayed as most organizationally healthy with acknowledgment that the maintenance of that style requires diligence to combat our individual and collective tendencies to evolve toward a more shame-based emphasis.
Design of cyclically permutable codes for PN code acquisition in WCDMA TDD mode (2002)

The acquisition problem in the wideband-CDMA (WCDMA) system proposed by the 3rd Generation Partnership Project (3GPP) to the ITU consists of determining both the timing and the identity of the particular scrambling code being received. A fast search mechanism to tackle this problem, based on cyclically permutable (CP) codes is proposed by Sriram and Hosur (see IEEE Inter. Conf. on Communications (ICC), June 1999) for the frequency-division-duplex (FDD) component of WCDMA. The CP codes for the FDD mode of WCDMA are not optimum for the time-division duplex (TDD) mode and have to be redesigned. In this paper we design optimum CP codes for the TDD mode. The new CP codes can also identify both frame timing and long code group information using only one synchronization slot. Thus, they can be used for GSM to WCDMA TDD mode handover. The new CP codes have been incorporated into the 3GPP WCDMA TDD standard.
Regulation of insulin gene expression by the IDDM associated, insulin locus haplotype (1995)

A 4.1 kb genomic region, spanning the insulin (INS) gene, confers genetic susceptibility to Type 1 or insulin-dependent diabetes mellitus (IDDM). Ten polymorphisms within this region form two predominant, complementary haplotypes. We have been studying the effects of these polymorphisms on the levels of insulin mRNA. Cloned genomic DNA fragments representing these two separate haplotypes were transiently transfected into a rodent pancreatic beta cell line, HIT-T15. These studies revealed that insulin mRNA levels were consistently higher in the transfectants expressing the diabetic haplotype. Over-expression of insulin mRNA may provide the basic mechanism for the diabetic susceptibility encoded at the INS locus.
Nucleophilic displacement of primary amino groups via 1-substituted 4-tosylimidazoles (1982)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTNucleophilic displacement of primary amino groups via 1-substituted 4-tosylimidazolesEdward C. Taylor, John L. LaMattina, and Chi Ping TsengCite this: J. Org. Chem. 1982, 47, 11, 2043–2047Publication Date (Print):May 1, 1982Publication History Published online1 May 2002Published inissue 1 May 1982https://pubs.acs.org/doi/10.1021/jo00132a013https://doi.org/10.1021/jo00132a013research-articleACS PublicationsRequest reuse permissionsArticle Views396Altmetric-Citations14LEARN 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
Targeting Hsp90 with small molecule inhibitors induces the over-expression of the anti-apoptotic molecule, survivin, in human A549, HONE-1 and HT-29 cancer cells (2010)

We showed for the first time that down-regulation of survivin is not a definite therapeutic function of Hsp90 inhibitors. Instead, targeting Hsp90 with small molecule inhibitors will induce the over-expression of survivin in certain cancer cell lines and subsequently enhances the ability of cell survival in drug-treated situations. The current study suggests that dual inhibition of Hsp90 and survivin may be warranted.
Redox-dependent Regulation of Nuclear Import of the Glucocorticoid Receptor (1999)

A number of transcription factors including the glucocorticoid receptor (GR) are regulated in a redox-dependent fashion. We have previously reported that the functional activity of the GR is suppressed under oxidative conditions and restored in the presence of reducing reagents. In the present study, we have used a chimeric human GR fused to the Aequorea green fluorescent protein and demonstrated that both ligand-dependent and -independent nuclear translocation of the GR is impaired under oxidative conditions in living cells. Substitution of Cys-481 for Ser within NL1 of the human GR resulted in reduction of sensitivity to oxidative treatment, strongly indicating that Cys-481 is one of the target amino acids for redox regulation of the receptor. Taken together, we may conclude that redox-dependent regulation of nuclear translocation of the GR constitutes an important mechanism for modulation of glucocorticoid-dependent signal transduction.
Transsulfuration depends on heme in addition to pyridoxal 5'-phosphate. Cystathionine beta-synthase is a heme protein. (1994)

The first committed step of transsulfuration is catalyzed by cystathionine beta-synthase (CBS), a known pyridoxal 5'-phosphate (PLP) enzyme. The inferred amino acid sequences of rat liver CBS and rat liver hemoprotein H-450 are identical. We now confirm the presence of heme b in rat and human liver CBS. Heme almost entirely accounts for the visible spectrum of CBS rather than PLP. Human CBS, expressed in Escherichia coli, acquires heme b from the host bacteria. delta-Aminolevulinate supplementation during bacterial growth increases both the heme saturation and the specific activity of the homogeneous enzyme more than 3-fold. 1 mol of the 63-kDa CBS subunit binds 1 mol of each (heme and PLP). The presence of heme is required for PLP binding, and the amount of PLP bound is limited by the heme content. Removal of PLP, but not heme, from CBS is reversible. These findings suggest that heme is functionally incorporated into CBS only during protein folding. This report describes the first instance of an enzyme that depends upon both heme and PLP for its function.
Assessment of Alcohol Withdrawal: the revised clinical institute withdrawal assessment for alcohol scale (CIWA‐Ar) (1989)

A shortened 10-item scale for clinical quantitation of the severity of the alcohol withdrawal syndrome has been developed. This scale offers an increase in efficiency while at the same time retaining clinical usefulness, validity and reliability. It can be incorporated into the usual clinical care of patients undergoing alcohol withdrawal and into clinical drug trials of alcohol withdrawal.