gebhart/patrepeval huggingface dataset:
Mechanisms of resistance to fungicides in field strains of Botrytis cinerea (2002)

Field strains of Botrytis cinerea Pers ex Fr, the causal agent of grey mould diseases, were collected from French vineyards between 1993 and 2000. Several phenotypes have been characterized according to the inhibitory effects of fungicides towards germ-tube elongation and mycelial growth. Two types of benzimidazole-resistant strains (Ben R1 and Ben R2) could be detected; negative cross-resistance to phenylcarbamates (e.g. diethofencarb) was only found in Ben R1. Benzimidazole resistance was related to point mutations at codon 198 (Ben R1) or 200 (Ben R2) of the beta-tubulin gene. Most dicarboximide-resistant strains were also weakly resistant to aromatic hydrocarbon fungicides (e.g. dicloran) but remained sensitive to phenylpyrroles (e.g. fludioxonil). These resistant field strains (Imi R1) contained a single base pair mutation at position 365 in a two-component histidine kinase gene, probably involved in the fungal osmoregulation. Three anilinopyrimidine-resistant phenotypes have been identified. In the most resistant one (Ani R1), resistance was restricted to anilinopyrimidines, but no differences were observed in the amino-acid sequences of cystathionine beta-lyase (the potential target site of these fungicides) from Ani R1 or wild-type strains. In the two other phenotypes (Ani R2 and Ani R3), resistance extended to various other groups of fungicide, including dicarboximides, phenylpyrroles and sterol biosynthesis inhibitors. This multi-drug resistance was probably determined by over-production of ATP-binding cassette transporters. The hydroxyanilide fenhexamid is a novel botryticide whose primary target site is the 3-keto reductase involved in sterol C-4 demethylations. Apart from the multi-drug-resistant strain Ani R3, three other fenhexamid-resistant phenotypes have been recognized. For two of them (Hyd R1 and Hyd R2) fenhexamid-resistance seemed to result from P450-mediated detoxification. Reduced sensitivity of the target site could be the putative resistance mechanism operating in the third resistant phenotype (Hyd R3). Increased sensitivity to inhibitors of sterol 14 alpha-demethylase recorded in Hyd R1 strains was related to two amino-acid changes at positions 15 and 105 of this enzyme.
Non‐association between Rfp‐Y major histocompatibility complex‐like genes and susceptibility to Marek’s disease virus‐induced tumours in 63× 72 F2 intercross chickens (1997)

Marek's disease (MD) is a lymphoproliferative disease caused by a member of the herpesvirus family, and the best understood genetic resistance to MD involves the chicken major histocompatibility complex (MHC) B-complex. Preliminary observations have suggested that MHC-like Rfp-Y genes might also influence the incidence of MD. This study describes the differentiation and definition of unique Rfp-Y genes in inbred lines 6(3) and 7(2), lines that possess identical B-complex genes, but that are resistant or susceptible to MD, respectively. To assess if Rfp-Y genes affect susceptibility to MD, 265 6(3) x 7(2) F2 chickens were challenged with the JM strain of MD virus at 1 week of age and were evaluated for MD lesions at up to 10 weeks of age. Genotyping of the F2 chickens for Rfp-Y haplotypes was performed by restriction fragment length polymorphism analysis of genomic DNA using TaqI and a B-FIV probe. Analysis of variance and interval mapping procedures were used to determine association between the Rfp-Y haplotypes and the phenotypic MD values of the F2 chickens. The cosegregation analysis of 265 F2 chickens indicated that there was no association between Rfp-Y haplotypes and MD susceptibility. Furthermore, the fact that the Rfp-Y haplotypes fit the 1:2:1 segregation ratio and the Rfp-Y allele frequencies did not differ significantly from 0.5 in the full population or in selected subpopulations (of either 40 MD-resistant or 39 MD-susceptible chickens) also indicated that Rfp-Y haplotypes do not significantly influence MD susceptibility. We conclude that Rfp-Y haplotypes do not play a major role in determining the genetic susceptibility to MD in 6(3) x 7(2) F2 White Leghorn chickens.
MicroRNAs in Cancer (2008)

Within the past few years, studies on microRNA (miRNA) and cancer have burst onto the scene. Profiling of the miRNome (global miRNA expression levels) has become prevalent, and abundant miRNome data are currently available for various cancers. The pattern of miRNA expression can be correlated with cancer type, stage, and other clinical variables, so miRNA profiling can be used as a tool for cancer diagnosis and prognosis. miRNA expression analyses also suggest oncogenic (or tumor-suppressive) roles of miRNAs. miRNAs play roles in almost all aspects of cancer biology, such as proliferation, apoptosis, invasion/metastasis, and angiogenesis. Given that many miRNAs are deregulated in cancers but have not yet been further studied, it is expected that more miRNAs will emerge as players in the etiology and progression of cancer. Here we also discuss miRNAs as a tool for cancer therapy.
Evaluating preclinical medical students by using computer-based problem-solving examinations (1989)

A study was designed to determine the feasibility of creating and administering computer-based problem-solving examinations for evaluating second-year medical students in immunology and to determine how students would perform on these tests relative to their performances on concurrently administered objective and essay examinations. The results indicate that problem-solving questions of uniform difficulty can be created and that correct solution of the problems correlates with the early selection of the most relevant data. The mean scores on the three types of tests were not significantly different. The scores on the essay and objective examinations were most highly correlated, those on the computer-based and objective examinations were minimally correlated, and those on the computer-based and essay examinations were not correlated.
An infectious molecular clone of a Japanese genotype 1b hepatitis C virus (1999)

We describe an infectious molecular clone of a Japanese genotype 1b strain of hepatitis C virus (HCV-N). The molecularly cloned sequence of HCV-N was compared with alignments of other HCV sequences, leading to the identification of 15 unique, nonconservative amino acid substitutions within the HCV-N open reading frame (ORF). These were repaired to the consensus genotype 1b residue, and the infectivity of RNA transcribed from the repaired clone was assessed by intrahepatic inoculation of a chimpanzee. Viral RNA was first detected in the serum of this chimpanzee 3 weeks following inoculation, and was intermittently present over the next 14 weeks. A strong and persistent anti-HCV serological response developed 13 weeks following inoculation, with seroconversion in the recombinant immunoblot assay (RIBA). A weaker, transient serological response, characterized by seroconversion in a third-generation enzyme-linked immunosorbent assay (ELISA) but not RIBA, occurred between weeks 1 and 5. This may have represented an anamnestic response to HCV antigens translated directly from the intrahepatically inoculated RNA, because the animal previously had undergone 2 unsuccessful attempts at rescue of HCV by intrahepatic RNA inoculation. There was neither biochemical nor histological evidence of liver disease. Although this is within the range of expected outcomes in an HCV-naive chimpanzee, prior immunologic priming may have modified the infection in this animal. The HCV-N clone is the first infectious molecular clone of HCV that is comprised entirely of genotype 1b sequence, and it contains an ORF sequence that is significantly divergent from that of a previously described genotype 1a/1b chimera.
OXYGEN DEPRIVATION OF THE CORNEA BY CONTACT LENSES AND LID CLOSURE (1964)

Harrisburg, Pennsylvania *Submitted on February 10, 1964, for publication in the November, 1964, issue of the American Journal of Optometry and Archives of American Academy of Optometry. †Optometrist. Fellow, American Academy of Optometry. ‡Optometrist. Green and Division Street Harrisburg, Pennsylvania
Impaired fetal T cell development and perinatal lethality in mice lacking the cAMP response element binding protein (1998)

CREB, the cAMP response element binding protein, is a key transcriptional regulator of a large number of genes containing a CRE consensus sequence in their upstream regulatory regions. Mice with a hypomorphic allele of CREB that leads to a loss of the CREBalpha and delta isoforms and to an overexpression of the CREBbeta isoform are viable. Herein we report the generation of CREB null mice, which have all functional isoforms (CREBalpha, beta, and delta) inactivated. In contrast to the CREBalpha delta mice, CREB null mice are smaller than their littermates and die immediately after birth from respiratory distress. In brain, a strong reduction in the corpus callosum and the anterior commissures is observed. Furthermore, CREB null mice have an impaired fetal T cell development of the alpha beta lineage, which is not affected in CREBalpha delta mice on embryonic day 18.5. Overall thymic cellularity in CREB null mice is severely reduced affecting all developmental stages of the alpha beta T cell lineage. In contrast gamma delta T cell differentiation is normal in CREB mutant mice.
Expanding the use of monoclonal antibody therapy of cancer by using ionising radiation to upregulate antibody targets (2014)

We show that single-dose radiation enhances mAb therapy. These findings highlight a mechanism for combining radiation with immunotherapy and expand the patient population that can be treated with targeted therapy.
Identification of lactococci and enterococci by colony hybridization with 23S rRNA-targeted oligonucleotide probes (1990)

Specific sequences of 23S rRNA of Lactococcus lactis, Enterococcus faecalis, Enteroccus faecium, and Enterococcus malodoratus/Enterococcus avium were identified, and complementary oligonucleotide probes were synthesized. The specificity of the probes was evaluated by dot blot and colony hybridizations. The probes can be used for the specific detection and identification of colonies of the corresponding species in mixed cultures.
Susceptibility loci for bipolar affective disorder on chromosome 18? A review and a study of Danish families (1997)

Chromosome 18 is one of the most promising chromosomes in the search for susceptibility genes for bipolar disorder based on results from cytogenetic, linkage, and association studies. Susceptibility loci on chromosome 18p and 18q have been suggested for bipolar affective disorder. We present a review of published studies which suggests that it is presently unclear whether one or more susceptibility loci on chromosome 18 exist, and that their more accurate localization is unknown. The present study investigated 27 DNA markers on chromosome 18 in two Danish families with bipolar affective disorder. We found positive lod scores in the larger family for markers on chromosome 18q12, especially for the affection status model which only includes bipolar patients. The highest lod score found was for marker D18S67, 1.83 at 0.05 recombination fraction.
5′-Phosphonates of Ribonucleosides and 2′-Deoxyribonucleosides: Synthesis and Antiviral Activity (1993)

Abstract 5′-Phosphonates of natural 2′-deoxynucleosides and ribonucleosides were synthesized by condensation of 3′-O-acylated 2′-deoxynucleosides or 2′,3′-substituted (2′,3′-O-isopropylidene, 2′,3′-O-methoxymethylene or 2′,3′-O-ethoxymethylene) ribonucleosides. As condensing agents, either N,N′-dicyclohexylcarbodiimide or 2,4,6-triisopropylbenzenesulphonyl chloride were used. Nucleoside 5′-ethoxycarbonylphosphonates were converted into corresponding nucleoside 5′-aminocarbonylphosphonates by action of ammonia in methanol or aqueous ammonia. 5′-Hydrogenphosphonothioates of thymidine and 3′-deoxythymidine were obtained by reaction of phosphinic acid in the presence of pivaloyl chloride with 3′-O-acetylthymidine or 3′-deoxythymidine, respectively, followed by addition of powedered sulfur. 5′-O-methylenephosphonates of thymidine and 2′-deoxyadenosine were prepared by intramolecular reaction of corresponding 3′-O-iodomethylphosphonates under basic conditions. All compounds were tested for inhibition of several viruses, including HSV-2 and CMV, but showed no activity. A few compounds insignificantly inhibited HIV-1 reproduction. Thymidine 5′-hydrogenphosphonate neutralized anti-HIV action of 3′-azido-3′-deoxythymidine (AZT) and it indirectly showed that even some nucleoside 5′-phosphonates could be partly hydrolyzed in cell culture to corresponding nucleosides. 5′-Phosphonates of modified 2′-deoxynucleosides in which one group in a phosphate residue is substituted for hydrogen, alkyl or other groups, have shown to be potent biologically
A 250mV 7.5&#x03BC;W 61dB SNDR CMOS SC &#x0394;&#x03A3; modulator using a near-threshold-voltage-biased CMOS inverter technique (2011)

One of the most continuous trends in solid-state circuits is the decrease in power supply as a direct consequence of technology scaling. The fact that V <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">t</sub> does not scale linearly with supply voltage has encouraged several low-voltage design techniques recently. The received voltage level in a wireless power transfer system decays rapidly with distance and also medical portable systems are calling for low-voltage circuitries.
The cysteine proteinases of the pineapple plant. (1990)

The pineapple plant (Ananas comosus) was shown to contain at least four distinct cysteine proteinases, which were purified by a procedure involving active-site-directed affinity chromatography. The major proteinase present in extracts of plant stem was stem bromelain, whilst fruit bromelain was the major proteinase in the fruit. Two additional cysteine proteinases were detected only in the stem: these were ananain and a previously undescribed enzyme that we have called comosain. Stem bromelain, fruit bromelain and ananain were shown to be immunologically distinct. Enzymic characterization revealed differences in both substrate-specificities and inhibition profiles. A study of the cysteine proteinase derived from the related bromeliad Bromelia pinguin (pinguinain) indicated that in many respects it was similar to fruit bromelain, although it was found to be immunologically distinct.
Radioimmunoguided surgery after primary treatment of locally advanced breast cancer. (1996)

RIGS appears to be a safe and reliable technique. However, the MAbs used in this study are not sufficiently specific. RIGS represents a technique for which the full potential for intraoperative assessment of breast cancer lesions can be reached when more specific antibodies become readily available.
Targeted degradation of sense and antisense C9orf72 RNA foci as therapy for ALS and frontotemporal degeneration (2013)

Expanded hexanucleotide repeats in the chromosome 9 open reading frame 72 (C9orf72) gene are the most common genetic cause of ALS and frontotemporal degeneration (FTD). Here, we identify nuclear RNA foci containing the hexanucleotide expansion (GGGGCC) in patient cells, including white blood cells, fibroblasts, glia, and multiple neuronal cell types (spinal motor, cortical, hippocampal, and cerebellar neurons). RNA foci are not present in sporadic ALS, familial ALS/FTD caused by other mutations (SOD1, TDP-43, or tau), Parkinson disease, or nonneurological controls. Antisense oligonucleotides (ASOs) are identified that reduce GGGGCC-containing nuclear foci without altering overall C9orf72 RNA levels. By contrast, siRNAs fail to reduce nuclear RNA foci despite marked reduction in overall C9orf72 RNAs. Sustained ASO-mediated lowering of C9orf72 RNAs throughout the CNS of mice is demonstrated to be well tolerated, producing no behavioral or pathological features characteristic of ALS/FTD and only limited RNA expression alterations. Genome-wide RNA profiling identifies an RNA signature in fibroblasts from patients with C9orf72 expansion. ASOs targeting sense strand repeat-containing RNAs do not correct this signature, a failure that may be explained, at least in part, by discovery of abundant RNA foci with C9orf72 repeats transcribed in the antisense (GGCCCC) direction, which are not affected by sense strand-targeting ASOs. Taken together, these findings support a therapeutic approach by ASO administration to reduce hexanucleotide repeat-containing RNAs and raise the potential importance of targeting expanded RNAs transcribed in both directions.
Chemical Modifications on Proteins Using Glutaraldehyde (2004)

In this work the effect of crosslinking the enzyme esperase (E.C. 3.4.21.62) and the proteins bovine serum albumin and casein with the bifunctional compound glutaraldehyde on molecular mass increase was studied. Two common techniques for measuring molecular mass of proteins were used: SEC and SDS-PAGE. These techniques revealed that the proteins bovine albumin and casein, when subjected to chemical crosslinking with glutaraldehyde, volume fraction 0.25%, increased their molecular mass by 20- and 40-fold, respectively. It was also observed that M-r increased proportionally to the increase of glutaraldehyde concentration in the solution, and that the addition of glutaraldehyde should be done slowly, in small amounts, in order to attain bigger protein aggregates. When the proteolytic enzyme esperase was subjected to glutaraldehyde, no increase in its M-r was achieved. Several assumptions can be made to explain these results, the most reasonable being the low amount of free lysine groups available for crosslinking. This study confirms that glutaraldehyde is not an adequate crosslinker for esperase.
Cloning and expression of a Ca(2+)-inhibitable adenylyl cyclase from NCB-20 cells. (1992)

A cDNA that encodes an adenylyl cyclase [ATP pyrophosphate-lyase (cyclizing), EC 4.6.1.1] has been cloned from NCB-20 cells, in which adenylyl cyclase activity is inhibited by Ca2+ at physiological concentrations. The cDNA clone (5.8 kilobases) was isolated by polymerase chain reaction (PCR) using degenerate primers designed by comparison of three adenylyl cyclase sequences (types I, II, and III) and subsequent library screening. Northern analysis revealed expression of mRNA (6.1 kilobases) corresponding to this cDNA in cardiac tissue, which is a prominent source of Ca(2+)-inhibitable adenylyl cyclase. The clone encodes a protein of 1165 amino acids, whose hydrophilicity profile was very similar to those of other mammalian adenylyl cyclases that have recently been cloned. A noticeable difference between this protein and other adenylyl cyclases was a lengthy aminoterminal region before the first transmembrane span. Transient expression of this cDNA in the human embryonic kidney cell line 293 revealed a 3-fold increase in cAMP production in response to forskolin compared with control transfected cells. In purified plasma membranes from transfected cells, increased adenylyl cyclase activity was also detected, which was susceptible to inhibition by submicromolar Ca2+. Thus, this adenylyl cyclase seems to represent the Ca(2+)-inhibitable form that is encountered in NCB-20 cells, cardiac tissue, and elsewhere. Its identification should permit a determination of the structural features that determine the mode of regulation of adenylyl cyclase by Ca2+.
A matching pursuit enhanced three-dimensional wavelet transform coder (2005)

This paper presents a video coding approach that is based on a motion compensated three-dimensional wavelet transform, bitplane context based entropy coding with prescanning and matching pursuit approximation of temporal high frequency subbands. This approach to video coding is novel despite of the fact it is a mixture of existing techniques. Experimental results reveal its high competitiveness when compared to the existing MPEG-2 video compression standard.
Decay of UV-induced fiber Bragg gratings (1994)

Ultraviolet photosensitivity in germanium-doped silicate glasses is currently an area of significant interest. In particular, UV- induced Bragg phase gratings in optical fibers have recently been demonstrated in numerous applications, such as short single-frequency fiber lasers, hybrid semiconductor-fiber lasers, polarization- and transverse-mode converters, and fiber sensors. Although these phase gratings are often described as permanent structures, the degree of permanence has not been adequately investigated. Many applications of fiber gratings, such as precise wavelength-control devices for communications systems, require extremely high tolerances on the optical properties of the gratings over long times. Some applications might also require operation at elevated temperatures, thus posing additional environmental wear.
Scaling Laws in Supramolecular Polymer Networks (2011)

The linear rheological properties of networks formed by adding bis-Pd(II) cross-linkers to poly(4-vinylpyridine) (PVP) solution are examined, and the scaling law relationships between the zero shear viscosity (η(0)) of the networks versus the concentration of PVP solution (C(PVP)), the concentration of cross-linkers (C(X)), and the number density of elastically active chains (v(phantom)) are experimentally determined. The scaling law relationships are compared to the theoretical expectations of the Sticky Rouse and Sticky Reptation models (Macromolecules2001, 34, 1058-1068), and both qualitative and quantitative differences are observed.
Exit pupil expander with a large field of view based on diffractive optics (2009)

Abstract— The field of view is an important parameter of a near‐to‐eye display. To achieve an immersive viewing experience, the field of view should be as high as possible. Presently, in most of the commercially available devices the field of view is between 15° and 30°. In this paper, a large‐field‐of‐view exit pupil expander that is based on diffractive optics was demonstrated. Usually these types of diffractive expanders cannot have a field of view much more than 25°. Here, an exit pupil expander with an extended field of view, based on two stacked plates, was demonstrated. The expander is designed for green light and it achieves a field of view of more than 40°.
Glycosidases of the asparagine-linked oligosaccharide processing pathway (1994)

Journal Article Glycosidases of the asparagine-linked oligosaccharide processing pathway Get access Kelley Moremen, Kelley Moremen Complex Carbohydrate Research Center and Department of Biochemistry, University of GeorgiaAthens, GA 30602, USA Search for other works by this author on: Oxford Academic PubMed Google Scholar Robert B. Trimble, Robert B. Trimble 1Wadsworth Center for Laboratory and Research, New York State Department of Health and SUNY at Albany School of Public HealthAlbany, NY 12201-0509, USA Search for other works by this author on: Oxford Academic PubMed Google Scholar Annetté Herscovics Annetté Herscovics 2McGill Cancer Centre, McGill UniversityMontreal, Quebec, H3G 1Y6, Canada Search for other works by this author on: Oxford Academic PubMed Google Scholar Glycobiology, Volume 4, Issue 2, April 1994, Pages 113–125, https://doi.org/10.1093/glycob/4.2.113 Published: 01 April 1994 Article history Received: 08 December 1993 Accepted: 09 December 1993 Published: 01 April 1994