gebhart/patrepeval huggingface dataset:
Structure, Expression, and Hormonal Control of Genes from the Mosquito, Aedes aegypti, Which Encode Proteins Similar to the Vitelline Membrane Proteins of Drosophila melanogaster (1993)

Genomic and cDNA clones of a gene expressed after a blood meal in the mosquito, Aedes aegypti, were identified as having significant similarity to the vitelline membrane protein genes of Drosophila melanogaster. The predicted protein had unusually high contents of alanine, histidine, and proline and contained a region of hydrophobic amino acids that was highly conserved in the predicted protein of the D. melanogaster vitelline membrane protein genes. The 15a gene was expressed from 5 to 40 hr after a blood meal. It was expressed only in the follicle cells of the ovary, particularly in the cells surrounding the oocyte. The 15a gene was expressed in ovaries of the blood-fed, decapitated female in response to an injection of 20-hydroxyecdysone, and in ovaries from non-blood-fed females incubated with the hormone, even in the presence of cycloheximide. A second gene, with weaker homology to 15a, is presumably another member of a family of related genes, as is the case with D. melanogaster vitelline membrane protein genes. This second gene contained a coding sequence similar to a decapeptide recently isolated from mosquito ovaries as an "oostatic factor" (Borovsky et al., FASEB J. 4, 3015-3020, 1990).
Introduction of Human DNA into Mouse Eggs by Injection of Dissected Chromosome Fragments (1989)

A procedure has been developed for introducing exogenous DNA into mouse eggs by injection of chromosome fragments. Chromosome fragments were dissected from human metaphase spreads and microinjected into the pronuclei of fertilized mouse eggs. Many of the injected eggs subsequently exhibited normal pre- and postimplantation development. Embryos obtained from eggs injected with centromeric fragments retained human centromeric DNA as demonstrated by in situ hybridization analysis. From eggs injected with noncentromeric fragments, a mouse was obtained whose tail tissue exhibited the presence of human DNA. This procedure should facilitate incorporation of very large (more than 10 megabases) DNA fragments into cells and embryos without the need for cloned sequences.
Formation of an Aminoreductone during the Maillard Reaction of Lactose with Nα-Acetyllysine or Proteins (1998)

When lactose is heated with Nα-acetyllysine or other amines for a short time, e.g. 15 min under reflux, a main product can be detected by HPLC/DAD. The product has a UV maximum at 319 nm, indicating an aminoreductone structure (AR). AR was isolated and identified as 1-[Nε-(Nα-acetyllysinyl)]-1,2-dehydro-4-deoxy-3-hexulose. The analogous derivative of butylamine has previously been obtained from maltose. The product is the main UV absorbing material for several hours of heating and at various reaction temperatures. When lactose is heated with milk proteins, such as β-lactoglobulin, formation of AR can be observed by measuring a new UV maximum of the modified protein at 319 nm. Since AR can also be found after a short heating time and since it is the main product at various reaction conditions, it was concluded that the new product can be of importance for the Maillard reaction during milk processing. Keywords: Maillard reaction; lactose; milk products; aminoreductone
Bragg reflector of GaAlAs/AlAs layers with wide bandwidth applicable to light emitting diodes (1993)

Reflective spectra of the Bragg reflectors applied to GaAs infrared light emitting diodes were simulated. Bragg reflectors are composed of alternating Al0.2Ga0.8As/AlAs layers where the ratio of high- and low-refractive indices is as small as 1.16. The reflectance bandwidth can be broadened by employing chirped structures where the optical thicknesses of the respective layers are changed arithmetically. On the other hand, for chirped Bragg reflectors, resonant reflection drops appeared at some wavelengths. These drops can be corrected by inserting periodic alternating layers. The reflectance band of 80% reflectivity is 2.7 times as wide as that of the conventional reflector of the periodic sequence in the case of 66 layer stack.
Low frequency approach to target identification (1975)

The paper presents a low frequency method for target identification, and its effectiveness is demonstrated for a large variety of objects varying in complexity from spheres and cubes to modern airplanes. A study of the selection of a discrete set of frequencies provides low misclassification error. A number of classification methods are examined using this discrete set of frequencies. It is shown that simple objects can be adequately classified by a linear discriminant method. For more complex targets, such as aircraft, a nearest neighbor approach is required. The introduction of phase and orthogonal polarization components are both found to further decrease misclassification error. A discussion of the trade off between the increased complexity and improved performance of various classification alternatives is provided.
Mechanism of substrate selection by a highly specific CRISPR endoribonuclease (2012)

Bacteria and archaea possess adaptive immune systems that rely on small RNAs for defense against invasive genetic elements. CRISPR (clustered regularly interspaced short palindromic repeats) genomic loci are transcribed as long precursor RNAs, which must be enzymatically cleaved to generate mature CRISPR-derived RNAs (crRNAs) that serve as guides for foreign nucleic acid targeting and degradation. This processing occurs within the repetitive sequence and is catalyzed by a dedicated Cas6 family member in many CRISPR systems. In Pseudomonas aeruginosa, crRNA biogenesis requires the endoribonuclease Csy4 (Cas6f), which binds and cleaves at the 3' side of a stable RNA stem-loop structure encoded by the CRISPR repeat. We show here that Csy4 recognizes its RNA substrate with an ~50 pM equilibrium dissociation constant, making it one of the highest-affinity protein:RNA interactions of this size reported to date. Tight binding is mediated exclusively by interactions upstream of the scissile phosphate that allow Csy4 to remain bound to its product and thereby sequester the crRNA for downstream targeting. Substrate specificity is achieved by RNA major groove contacts that are highly sensitive to helical geometry, as well as a strict preference for guanosine adjacent to the scissile phosphate in the active site. Collectively, our data highlight diverse modes of substrate recognition employed by Csy4 to enable accurate selection of CRISPR transcripts while avoiding spurious, off-target RNA binding and cleavage.
A One-Year Trial of Lamivudine for Chronic Hepatitis B (1998)

In a one-year study, lamivudine was associated with substantial histologic improvement in many patients with chronic hepatitis B. A daily dose of 100 mg was more effective than a daily dose of 25 mg.
Contribution of hydrogen to methane production and control of hydrogen concentrations in methanogenic soils and sediments (1999)

Hydrogen is, with acetate, one of the most important intermediates in the methanogenic degradation of organic matter and serves as substrate for methanogenic archaea. Hydrogen should theoretically account for 33% of total methanogenesis when carbohydrates or similar forms of organic matter are degraded. Many methanogenic environments show both much lower and much higher contributions of H2 to CH4 production than is considered normal. While the lower contributions are relatively easily explained (e.g. by the contribution of homoacetogenesis), the mechanisms behind higher contributions are mostly unclear. In methanogenic environments H2 is rapidly turned over, its concentration being the result of simultaneous production by fermenting plus syntrophic bacteria and consumption by methanogenic archaea. The steady-state concentration observed in most methanogenic environments is close to the thermodynamic equilibrium of H2-dependent methanogenesis. The threshold is usually equivalent to a Gibbs free energy of −23 kJ mol−1 CH4 that is necessary to couple CH4 production to the generation of 1/3 ATP. Methanogenesis from H2 is inhibited if the H2 concentration decreases below this threshold. Concentrations of H2 can only be decreased below this threshold if a H2-consuming reaction with a lower H2 threshold (e.g. sulfate reduction) takes over at a rate that is equal to or higher than that of methanogenesis. The instantaneous and complete inhibition of H2-dependent CH4 production that is often observed upon addition of sulfate can only be explained if a comparably high sulfate reduction potential is cryptically present in the methanogenic environment.
A Vault Nanoparticle Vaccine Induces Protective Mucosal Immunity (2009)

Vault nanoparticles containing immunogenic proteins delivered to the respiratory tract by the i.n. route can act as "smart adjuvants" for inducing protective immunity at distant mucosal surfaces while avoiding destructive inflammation.
Tolerance Induction by Veto CTLs in the TCR Transgenic 2C Mouse Model. I. Relative Reactivity of Different Veto Cells (2004)

Several bone marrow cells and lymphocyte subpopulations, known as veto cells, were shown to induce transplantation tolerance across major histocompatibility Ags. Due to the low frequency of the effector T cells against which the veto cells inhibitory activity is aimed, the fate of the effector cells was traditionally followed indirectly by functional limiting dilution assays, which are cumbersome and depend on numerous parameters. In the present study the fate of the effector T cells was monitored directly by FACS, using TCR transgenic mouse CD8(+) T cells in which the transgene is directed against H-2(d) (the 2C model). This assay is validated by demonstrating the potency, selectivity, radiation sensitivity, and contact dependency of anti-third-party CTLs previously demonstrated by the limiting dilution assay. In contrast to veto CTLs, nonactivated CD8(+) T cells lack veto activity. Comparison by FACS in the 2C model revealed a hierarchy of veto cells, in the order of veto CTLs activated NK cells, activated CD4(+) T cells, and activated B cells. The latter cells as well as nonactivated CD4(+) or NK cells were shown to be completely devoid of veto activity.
Comparison between spectral analysis and the phenylephrine method for the assessment of baroreflex sensitivity in chronic heart failure (1999)

Baroreflex sensitivity assessed by means of the phenylephrine test plays a prognostic role in patients with previous myocardial infarction, but the need for drug injection limits the use of this technique. Recently, several non-invasive methods based on spectral analysis of systolic arterial pressure and heart period have been proposed, but their agreement with the phenylephrine test has not been investigated in patients with heart failure. The two methods (phenylephrine test and spectral analysis) were compared in a group of 49 patients with chronic congestive heart failure both at rest and during controlled breathing. The linear correlation and the limits of agreement between the phenylephrine test slope and the α-index [αc; corrected by the coherence function between the interbeat interval (RR interval) and systolic arterial pressure] were evaluated. Only 16 patients had a measurable α-index at rest in both the low-frequency (LF) and high-frequency (HF) bands; the αc-index allowed measurements in all patients. It correlated moderately with the phenylephrine test slope at rest (r = 0.71 and P&lt; 0.001 in LF; r = 0.57 and P&lt; 0.001 in HF) and during controlled breathing (r = 0.51 and P&lt; 0.001 in LF; r = 0.63 and P&lt; 0.001 in HF). Multivariate regression analysis showed that only αcLF during rest and αcHF during controlled breathing contributed significantly to baroreflex gain estimation. However, the agreement between methods was weak; the normalized limits of agreement and bias were -162 to 243% (0.46 ms/mmHg) for αcLF and -185 to 151% (-0.99 ms/mmHg) for αcHF. Thus the comparison between baroreflex sensitivity measurements obtained by the phenylephrine test and spectral analysis showed a moderate correlation between the two methods; however, despite the linear association, a consistent lack of agreement between the two techniques was found. Because both systematic and random factors contribute to the difference, these two techniques cannot be considered as alternatives for the assessment of heart failure.
Thiohydrazides and acetylene esters, A new route to 1,3,4‐thiadiazoles (1980)

Abstract Aromatic thiohydrazides react with dimethyl acetylenedicarboxylate or methyl propiolate to yield carbomethoxymethyl‐substituted 1,3,4‐thiadiazoles. In a 2:1 ratio of methyl propiolate to aromatic thiohydrazide, 1,3,4‐thiadiazoles with acrylate ester side chains are formed.
Draft genome of spinach and transcriptome diversity of 120 Spinacia accessions (2017)

Spinach is an important leafy vegetable enriched with multiple necessary nutrients. Here we report the draft genome sequence of spinach (Spinacia oleracea, 2n=12), which contains 25,495 protein-coding genes. The spinach genome is highly repetitive with 74.4% of its content in the form of transposable elements. No recent whole genome duplication events are observed in spinach. Genome syntenic analysis between spinach and sugar beet suggests substantial inter- and intra-chromosome rearrangements during the Caryophyllales genome evolution. Transcriptome sequencing of 120 cultivated and wild spinach accessions reveals more than 420 K variants. Our data suggests that S. turkestanica is likely the direct progenitor of cultivated spinach and spinach domestication has a weak bottleneck. We identify 93 domestication sweeps in the spinach genome, some of which are associated with important agronomic traits including bolting, flowering and leaf numbers. This study offers insights into spinach evolution and domestication and provides resources for spinach research and improvement.
Expression of CXCR4, the receptor for stromal cell-derived factor-1 on fetal and adult human lymphohematopoietic progenitors (1999)

Stromal cell-derived factor-1 (SDF-1) is a CXC chemokine produced by stromal cells that acts as a chemoattractant for human CD34+ progenitor cells. We investigated the expression of CXCR4, the receptor for SDF-1, on CD34+ cells from different hematopoietic sites and developmental stages. CXCR4 was detected by flow cytometry on 37 % of fetal bone marrow (BM) [gestation weeks (gw) 14-23] and 40% of adult BM CD34+ cells. Interestingly, in fetal liver CD34+ cells, CXCR4 was expressed at lower levels at later stages (9%, gw 20-23) compared to early stages of development (39%, gw 7.5-18), suggesting a development-related change in the migratory capacity of progenitors. CXCR4 was detected at similar levels on both phenotypically primitive and committed progenitors from fetal and adult sites. However, B cell lineage progenitor and precursor cells expressed CXCR4 at the highest density (80% of BM CD34+/CD10+ pro-B cells are CXCR4+). CXCR4 was also expressed in the fetal thymus in early T cell precursors and found to be down-regulated during T cell maturation. Finally, we found that stem cell factor, alone or in combination with other cytokines, can up-modulate CXCR4 expression on CD34+ cells by three- to fourfold. In conclusion, our results suggest that CXCR4 may play an important role in the local and systemic trafficking of human CD34+ cells as well as in human B lymphopoiesis and that its expression can be modulated by cytokines.
Selective Primary Health Care (1979)

Priorities among the infectious diseases affecting the three billion people in the less developed world have been based on prevalence, morbidity, mortality and feasibility of control. With these priorities in mind a program of selective primary health care is compared with other approaches and suggested as the most cost-effective form of medical intervention in the least developed countries. A flexible program delivered by either fixed or mobile units might include measles and diphtheria-pertussis-tetanus vaccination, treatment for febrile malaria and oral rehydration for diarrhea in children, and tetanus toxoid and encouragement of breast feeding in mothers. Other interventions might be added on the basis of regional needs and new developments. For major diseases for which control measures are inadequate, research is an inexpensive approach on the basis of cost per infected person per year.
Isolation of an iron-molybdenum cofactor from nitrogenase (1977)

A method for the isolation of an iron-molybdenum cofactor (FeMoCo) from component I of nitrogenase is described. This method is used to isolate FeMoCo from aerobic, anaerobic, facultative, and photosynthetic nitrogen-fixing organisms. The Fe/Mo ratio in the FeMoCo from Azotobacter vinelandii and Clostridium pasteurianum is 8:1. The FeMoCo contains six atoms of acid-labile sulfide per eight Fe atoms. Crystalline component I from A. vinelandii contains 2 Mo, 33 Fe, and 27 acid-labile sulfide atoms per molecular weight of 250,000. The specific activity of FeMoCo is 425 nmol of C(2)H(4) formed/min per nmol of Mo. There is better than 98% reconstitution between FeMoCo and inactive component I in A. vinelandii mutant strain UW45. The FeMoCo yield from component I is about 90%. FeMoCo from nitrogenase component I of C. pasteurianum, Klebsiella pneumoniae, Bacillus polymyxa, and Rhodospirillum rubrum activates inactive component I in an extract from mutant strain UW45 and follows saturation kinetics. The FeMoCo in various nitrogen-fixing organisms seems to be very similar. Wild-type A. vinelandii derepressed for nitrogenase synthesis in tungsten-containing medium and K. pneumoniae mutant strain UN109 are also activated in vitro by FeMoCo. The FeMoCo is very sensitive to oxygen, but is stable even at room temperature as long as it is kept anaerobic and in N-methylformamide, the solvent used for its isolation. FeMoCo is unstable in an aqueous environment, even though it is kept strictly anaerobic. Knowledge of the structure of this cofactor should be useful for understanding the role of molybdenum at the active site of nitrogenase, role of ligands close to molybdenum in electron and proton transfer, and the catalytic mechanism of nitrogen fixation. The FeMoCo might be used as a model for synthesizing catalysts for chemical nitrogen fixation.
MODELING LIGNIN LIQUEFACTION 1. CATALYTIC HYDROPROCESSING OF LIGNIN-RELATED METHOXYPHENOLS AND INTERAROMATIC UNIT LINKAGES (1987)

ABSTRACT The reactions of two sets of lignin model compounds over a sulfided CoOMoO3/γ-Al2O3 catalyst were studied. The first set mimicked lignin methoxyphenol residues and comprised 4-methyl-guaiacol, 4-methyl catechol, eugenol and vanillin. Deoxygenation and hydrogenation were facile and led to ultimate molar yields of single-ring products as high as 0.70. The selectivity to single-ring products increased with increases in temperature, o-hydroxydiphenylmethane, phenyl ether and o,o’-biphenol constituted the second set that mimicked thermally stable lignin bonds.Fragmentation of o-hydroxydiphenylmethane and phenyl ether occurred readily; o,o’-biphenol reacted to dibenzofuran. These results suggest that the single-ring products obtained from catalytic liquefaction of lignins should be more desirable than those obtained from pyrolysis because of both higher yields and reduced complexity.
Excess Mortality Related to Alcohol and Smoking Among Hospital-Treated Patients With Psoriasis (1999)

Patients with moderate to severe psoriasis are at increased risk for death. Alcohol is a major cause for this excess mortality.
S-Nitroglutathione, a Product of the Reaction between Peroxynitrite and Glutathione That Generates Nitric Oxide (1998)

Peroxynitrite (ONOO-) has been shown in studies on vascular relaxation and guanylate cyclase activation to react with glutathione (GSH), generating an intermediate product that promotes a time-dependent production of nitric oxide (NO). In this study, reactions of ONOO- with GSH produced a new substance, which was characterized by liquid chromatography, ultraviolet spectroscopy, and electrospray tandem mass spectrometry. The mass spectrometric data provided evidence that the product of this reaction was S-nitroglutathione (GSNO2) and that S-nitrosoglutathione (GSNO) was not a detectable product of this reaction. Further evidence was obtained by comparison of the spectral and chromatographic properties with synthetic standards prepared by reaction of GSH with nitrosonium or nitronium borofluorates. Both the synthetic and ONOO-/GSH-derived GSNO2 generated a protonated ion, GSNO2H+, at m/z 353, which was unusually resistant to decomposition under collision activation, and no fragmentation was observed at collision energy of 25 eV. In contrast, an ion at m/z 337 (GSNOH+), generated from the synthetic GSNO, readily fragmented with the abundant loss of NO at 9 eV. Reactions of ONOO- with GSH resulted in the generation of NO, which was detected by the head space/NO-chemiluminescence analyzer method. The generation of NO was inhibited by the presence of glucose and/or CO2 in the buffers employed. Synthetic GSNO2 spontaneously generated NO in a manner that was not significantly altered by glucose or CO2. Thus, ONOO- reacts with GSH to form GSNO2, and GSNO2 decomposes in a manner that generates NO.
H and T subunits of acetylcholinesterase from Torpedo, expressed in COS cells, generate all types of globular forms. (1992)

We analyzed the production of Torpedo marmorata acetylcholinesterase (AChE) in transfected COS cells. We report that the presence of an aspartic acid at position 397, homologous to that observed in other cholinesterases and related enzymes (Krejci, E., N. Duval, A. Chatonnet, P. Vincens, and J. Massoulié. 1991. Proc. Natl. Acad. Sci. USA. 88:6647-6651), is necessary for catalytic activity. The presence of an asparagine in the previously reported cDNA sequence (Sikorav, J.L., E. Krejci, and J. Massoulié. 1987. EMBO (Eur. Mol. Biol. Organ.) J. 6:1865-1873) was most likely due to a cloning error (codon AAC instead of GAC). We expressed the T and H subunits of Torpedo AChE, which differ in their COOH-terminal region and correspond respectively to the collagen-tailed asymmetric forms and to glycophosphatidylinositol-anchored dimers of Torpedo electric organs, as well as a truncated T subunit (T delta), lacking most of the COOH-terminal peptide. The transfected cells synthesized similar amounts of AChE immunoreactive protein at 37 degrees and 27 degrees C. However AChE activity was only produced at 27 degrees C and, even at this temperature, only a small proportion of the protein was active. We analyzed the molecular forms of active AChE produced at 27 degrees C. The H polypeptides generated glycophosphatidylinositol-anchored dimers, resembling the corresponding natural AChE form. The cells also released non-amphiphilic dimers G2na. The T polypeptides generated a series of active forms which are not produced in Torpedo electric organs: G1a, G2a, G4a, and G4na cellular forms and G2a and G4na secreted forms. The amphiphilic forms appeared to correspond to type II forms (Bon, S., J. P. Toutant, K. Méflah, and J. Massoulié. 1988. J. Neurochem. 51:776-785; Bon, S., J. P. Toutant, K. Méflah, and J. Massoulié. 1988. J. Neurochem. 51:786-794), which are abundant in the nervous tissue and muscles of higher vertebrates (Bon, S., T. L. Rosenberry, and J. Massoulié. 1991. Cell. Mol. Neurobiol. 11:157-172). The H and T catalytic subunits are thus sufficient to account for all types of known AChE forms. The truncated T delta subunit yielded only non-amphiphilic monomers, demonstrating the importance of the T COOH-terminal peptide in the formation of oligomers, and in the hydrophobic character of type II forms.
Stent-assisted Intracranial Recanalization for Acute Stroke: Early Results (2006)

Stent-assisted recanalization for acute stroke resulting from intracranial thrombotic occlusion is associated with a high recanalization rate and low intracranial hemorrhage rate. These initial results suggest that stenting may be an option for recalcitrant cerebral arterial occlusions.