gebhart/patrepeval huggingface dataset:
Propagation prediction models for wireless communication systems (2002)

A comprehensive review of the propagation prediction models for terrestrial wireless communication systems is presented in this paper. The classic empirical models are briefly described and the focus is placed on the application of ray-tracing techniques to the development of deterministic propagation models. Schemes to increase the computational efficiency and accuracy are discussed. Traditional statistical models are also briefly reviewed for completeness. New challenges to the propagation prediction are described and some new approaches for meeting these challenges are presented.
Compression of DNA sequences (2002)

The authors propose a lossless algorithm based on regularities, such as the presence of palindromes, in the DNA. The results obtained, although not satisfactory, are far beyond classical algorithms.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Abnormalities in Structure and Expression of the Human Retinoblastoma Gene in SCLC (1988)

Small cell lung cancer (SCLC) has been associated with loss of heterozygosity at several distinct genetic loci including chromosomes 3p, 13q, and 17p. To determine whether the retinoblastoma gene (Rb) localized at 13q14, might be the target of recessive mutations in lung cancer, eight primary SCLC tumors and 50 cell lines representing all major histologic types of lung cancer were examined with the Rb complementary DNA probe. Structural abnormalities within the Rb gene were observed in 1/8 (13%) primary SCLC tumors, 4/22 (18%) SCLC lines, and 1/4 (25%) pulmonary carcinoid lines (comparable to the 20 to 40% observed in retinoblastoma), but were not detected in other major types of lung cancer. Rb messenger RNA expression was absent in 60% of the SCLC lines and 75% of pulmonary carcinoid lines, including all samples with DNA abnormalities. In contrast, Rb transcripts were found in 90% of non-SCLC lung cancer lines and in normal human lung. The finding of abnormalities of the Rb gene in SCLC and pulmonary carcinoids (both neuroendocrine tumors) suggests that this gene may be involved in the pathogenesis of a common adult malignancy.
Establishing A Resource for Care of the Aged (1984)

Nursing must take a more vigorous role in the research for care of the aged, as principal investigators, peer reviewers, and as council members.
Viral resistance patterns selected by antiretroviral drugs and their potential to guide treatment choice (1997)

Massive viral turnover and reverse transcriptase's high error rate create the potential for drug-resistant viral variants to appear rapidly under the selective pressure of antiretroviral therapy. Loss of antiviral effect in treatment-adherent persons is most commonly coincident with the appearance of viral mutants with reduced drug sensitivity. Thus, detection of viral resistance may represent an early marker of therapy failure. Similarly, control of viral replication in the plasma compartment, as defined by plasma viral load below the levels of assay quantification, is associated with a sustained therapeutic response and delayed development of viral resistance. Information on patterns of resistance to and cross-resistance between antiretroviral agents is increasingly well characterised and represents an important consideration when deciding how to combine and/or sequence antiretrovirals to achieve optimal antiviral effects. Given the limited number of antiretrovirals presently available or in advanced development, it is important not to limit future therapeutic options by using therapies early in the treatment sequence which may select for cross-resistant viral variants and hence potentially reduce the magnitude of therapeutic response when treatment is changed to another member of that drug class. However, no studies using resistance to guide clinical decision making have been reported to date and available sequencing studies have focused largely on switching or adding therapies to patients experienced with zidovudine monotherapy. Thus, no resistance driven treatment algorithm is currently available.
Analysis by HPLC and LC/MS of Pungent Piperamides in Commercial Black, White, Green, and Red Whole and Ground Peppercorns (2008)

Pepper plants accumulate pungent bioactive alkaloids called piperamides. To facilitate studies in this area, high-performance liquid chromatography (HPLC) and liquid chromatography/mass spectrometry methods were developed and used to measure the following piperamides in 10 commercial whole (peppercorns) and in 10 ground, black, white, green, and red peppers: piperanine, piperdardine, piperine, piperlonguminine, and piperettine. Structural identification of individual compounds in extracts was performed by associating the HPLC peak of each compound with the corresponding mass spectrum. The piperanine content of the peppers (in mg/g piperine equivalents) ranged from 0.3 for the ground white pepper to 1.4 in black peppercorns. The corresponding range for piperdardine was from 0.0 for seven samples to 1.8 in black peppercorns; for four isomeric piperines, from 0.7 for red to 129 in green peppercorns; for piperlonguminine, from 0.0 in red peppercorns to 1.0 in black peppercorns; and for piperyline, from 0.9 in ground black pepper to 5.9 for red peppercorn. Four well-separated stereoisomeric forms of piperettine with the same molecular weight were present in 19 peppers. The sums of the piperamides ranged from 6.6 for red to 153 for green peppercorns. In contrast to large differences in absolute concentrations among the peppers, the ratios of piperines to total piperamide were quite narrow, ranging from 0.76 for black to 0.90 for white peppercorns, with an average value of 0.84 +/- 0.04 ( n = 19). Thus, on average, the total piperamide content of the peppers consists of 84% piperines and 16% other piperamides. These results demonstrate the utility of the described extraction and analytical methods used to determine the wide-ranging individual and total piperamide contents of widely consumed peppers.
A new nephelometric assay for beta-trace protein (prostaglandin D synthase) as an indicator of liquorrhoea (2001)

The nephelometric beta-trace protein assay is a simple and rapid method for the detection of liquorrhoea with high sensitivity and specificity and may facilitate the diagnosis of fistulas leaking CSF.
The hierarchy of mutations influencing the folding of antibody domains in Escherichia coli (1999)

In a systematic study of the periplasmic folding of antibody fragments in Escherichia coli, we have analysed the expression of an aggregation-prone and previously non-functional anti-phosphorylcholine antibody, T15, as a model system and converted it to a functional molecule. Introduction of heavy chain framework mutations previously found to improve the folding of a related antibody led to improved folding of T15 fragments and improved physiology of the host E.coli cells. Manipulation of the complementarity determining regions (CDR) of the framework-mutated forms of T15 further improved folding and bacterial host physiology, but no improvement was seen in the wild type, suggesting the existence of a hierarchy in sequence positions leading to aggregation. Rational mutagenesis of the T15 light chain led to the production of functional T15 fragments for the first time, with increased levels of functional protein produced from V(H) manipulated constructs. We propose that a hierarchical analysis of the primary amino acid sequence, as we have described, provides guidelines on how correctly folding, functional antibodies might be achieved and will allow further delineation of the decisive structural factors and pathways favouring protein aggregation.
Muscleblind-like 1 interacts with RNA hairpins in splicing target and pathogenic RNAs (2007)

The MBNL and CELF proteins act antagonistically to control the alternative splicing of specific exons during mammalian postnatal development. This process is dysregulated in myotonic dystrophy because MBNL proteins are sequestered by (CUG)n and (CCUG)n RNAs expressed from mutant DMPK and ZNF9 genes, respectively. While these observations predict that MBNL proteins have a higher affinity for these pathogenic RNAs versus their normal splicing targets, we demonstrate that MBNL1 possesses comparably high affinities for (CUG)n and (CAG)n RNAs as well as a splicing target, Tnnt3. Mapping of a MBNL1-binding site upstream of the Tnnt3 fetal exon indicates that a preferred binding site for this protein is a GC-rich RNA hairpin containing a pyrimidine mismatch. To investigate how pathogenic RNAs sequester MBNL1 in DM1 cells, we used a combination of chemical/enzymatic structure probing and electron microscopy to determine that MBNL1 forms a ring-like structure which binds to the dsCUG helix. While the MBNL1 N-terminal region is required for RNA binding, the C-terminal region mediates homotypic interactions which may stabilize intra- and/or inter-ring interactions. Our results provide a mechanistic basis for dsCUG-induced MBNL1 sequestration and highlight a striking similarity in the binding sites for MBNL proteins on splicing precursor and pathogenic RNAs.
Intranasal Immunization with the Cholera Toxin B Subunit-Pneumococcal Surface Antigen A Fusion Protein Induces Protection against Colonization with Streptococcus pneumoniae and Has Negligible Impact on the Nasopharyngeal and Oral Microbiota of Mice (2006)

One of the candidate proteins for a mucosal vaccine antigen against Streptococcus pneumoniae is PsaA (pneumococcal surface antigen A). Vaccines targeting mucosal immunity may raise concerns as to possible alterations in the normal microbiota, especially in the case of PsaA, which was shown to have homologs with elevated sequence identity in other viridans group streptococci. In this work, we demonstrate that intranasal immunization with a cholera toxin B subunit-PsaA fusion protein is able to protect mice against colonization with S. pneumoniae but does not significantly alter the natural oral or nasopharyngeal microbiota of mice.
Aspartame as a Dietary Trigger of Headache (1989)

Many dietary factors have been implicated as possible precipitants of headache. There have been recent differences of opinion with regard to the effect of the artificial sweetener aspartame as a precipitant of headache. To assess the importance of aspartame as a dietary factor in headache, 190 consecutive patients of the Montefiore Medical Center Headache Unit were questioned about the effect of alcohol, carbohydrates and aspartame in triggering their headaches. Of the 171 patients who fully completed the survey, 49.7 percent reported alcohol as a precipitating factor, compared to 8.2 percent reporting aspartame and 2.3 percent reporting carbohydrates. Patients with migraine were significantly more likely to report alcohol as a triggering factor and also reported aspartame as a precipitant three times more often than those having other types of headache. The conflicting results of two recent placebo-control studies of aspartame and headache are discussed. We conclude that aspartame may be an important dietary trigger of headache in some people.
Domain switching in lead magnesium niobate-lead titanate polycrystalline sheets at single grain level (2007)

The authors provide direct evidence of non-180° domain switching in the piezoelectric response of substrate-free 40μm thick polycrystalline [Pb(Mg1∕3Nb2∕3)O3]0.63(PbTiO3)0.37 (PMN-37PT) sheets under dc electric fields through piezoresponse force microscopy (PFM) at the single grain level. The sheet’s polarization preferred pointing in the planar direction which was switched to the normal direction at electric field ranging between 1.3 and 1.9kV∕cm. An independent d31 measurement of PMN-37PT sheets deduced from the axial tip displacement measurements of a 4mm long PMN-PT/copper cantilever showed enhanced d31 values that peaked at –2700pm∕V in the same range of electric field, consistent with the PFM observation.
Phosphorylation of the C-proteins of HeLa cell hnRNP particles. Involvement of a casein kinase II-type enzyme. (1984)

The phosphorylation of the proteins of heterogeneous nuclear ribonucleoprotein particles has been investigated in HeLa cells. 32Pi labeling of intact cells indicated that, of the six major particle proteins, the most heavily phosphorylated was the C1-protein (Mr = 42,000). This protein, together with C2 (Mr = 44,000), is also phosphorylated by [gamma-32P]ATP in particle extracts and in particles that are purified by sedimentation or exclusion chromatography. The C-proteins, together with their particle-associated kinase, were partially purified from isolated particles following dissociation with micrococcal nuclease. Proteins C1 and C2 co-purify on phosphocellulose chromatography, and their peak overlaps with that of a casein kinase activity. Evidence suggesting that this kinase activity is responsible for C-protein phosphorylation includes 1) the phosphorylation of C-proteins in the fractions where they overlap with the kinase, 2) the phosphorylation of added C-protein by fractions of the casein kinase which lack detectable C-protein, and 3) the similarities in catalytic properties of the casein kinase- and C-protein-phosphorylating activities. The purified kinase activity is cyclic nucleotide and Ca2+ independent. It is stimulated by polyamines, inhibited by heparin, and utilizes either GTP or ATP with high affinity. Serine residues are the major phosphate acceptors. These properties indicate that the kinase is casein kinase II or a closely related enzyme. Moreover, purified casein kinase II from rabbit liver effectively phosphorylates C-protein. These results suggest that C-proteins may be natural substrates for nuclear casein kinase II.
Gender and ethnic classification of face images (2002)

The paper considers hybrid classification architectures for gender and ethnic classification of human faces and shows their feasibility using a collection of 3006 face images corresponding to 1009 subjects from the FERET database. The hybrid approach consists of an ensemble of RBF networks and inductive decision trees (DT). Experimental cross validation (CV) results yield on average accuracy rate of (a) 96% on the gender classification task and (b) 94% on the ethnic classification task. The benefits of the hybrid architecture include (i) robustness via query by consensus provided by the ensembles of RBF networks, and (ii) flexible and adaptive thresholds as opposed to ad hoc and hard thresholds provided by using only DT.
Biosynthetic alr alanine racemase from Salmonella typhimurium: DNA and protein sequence determination (1986)

The nucleotide sequence of the alr gene encoding the biosynthetic alanine racemase in Salmonella typhimurium is reported. The sequence was determined by the dideoxy chain termination method of Sanger mostly from recombinants derived from shotgun and specific subcloning of a 2.6-kilobase region containing the alr gene. The final bridging of nonoverlapping contiguous sequences was accomplished with the use of synthetic site-specific primers. The alr gene was found to be 1077 base pairs in length encoding a protein of 359 amino acid residues. Comparison of alr with the dadB gene encoding the catabolic alanine racemase in S. typhimurium revealed almost identical size (1077 vs. 1068 base pairs) and 52% sequence identity. The respective gene products displayed 43% homology, which includes a decapeptide bearing the pyridoxal 5'-phosphate binding site.
ATAD2 Is a Novel Cofactor for MYC, Overexpressed and Amplified in Aggressive Tumors (2009)

The E2F and MYC transcription factors are critical regulators of cell proliferation and contribute to the development of human cancers. Here, we report on the identification of a novel E2F target gene, ATAD2, the predicted protein product of which contains both a bromodomain and an ATPase domain. The pRB-E2F pathway regulates ATAD2 expression, which is limiting for the entry into the S phase of the cell cycle. We show that ATAD2 binds the MYC oncogene and stimulates its transcriptional activity. ATAD2 maps to chromosome 8q24, 4.3 Mb distal to MYC, in a region that is frequently found amplified in cancer. Consistent with this, we show that ATAD2 expression is high in several human tumors and that the expression levels correlate with clinical outcome of breast cancer patients. We suggest that ATAD2 links the E2F and MYC pathways and contributes to the development of aggressive cancer through the enhancement of MYC-dependent transcription.
Choriocarcinoma of Women Maintained in Serial Passage in Hamster and Rat (1959)

Summary1) Three choriocarcinomata from women have been successfully adapted to serial transplantation in cheek-pouch of the cortisonized hamster and one of these can be carried in previously untreated hamster. This latter strain has also been adapted to subcutaneous growth in the cortisonized, irradiated, hypophysectomized or intact female rat. 2) These heterologously maintained tumors produce in the host gonadotropic effects characteristic of human chorionic gonadotropic hormone. Biologically detectable amounts of hormone are readily demonstrable in homogenates of the growing tumor tissue and in peripheral blood of tumor-bearing hamster. The tumors exhibit no estrogenic, adrenotropic, or thyrotropic effect in the hamster. 3) Each tumor strain presents a quantitatively reproducible growth pattern which renders it adaptable to studies of the effect of chemotherapeutic and other inhibitory agents.
Improved ex vivo expansion of adult hematopoietic stem cells by overcoming CUL4-mediated degradation of HOXB4 (2013)

Direct transduction of the homeobox (HOX) protein HOXB4 promotes the proliferation of hematopoietic stem cells (HSCs) without induction of leukemogenesis, but requires frequent administration to overcome its short protein half-life (∼1 hour). We demonstrate here that HOXB4 protein levels are post-translationally regulated by the CUL4 ubiquitin ligase, and define the degradation signal sequence (degron) of HOXB4 required for CUL4-mediated destruction. Additional HOX paralogs share the conserved degron in the homeodomain and are also subject to CUL4-mediated degradation, indicating that CUL4 likely controls the stability of all HOX proteins. Moreover, we engineered a degradation-resistant HOXB4 that conferred a growth advantage over wild-type HOXB4 in myeloid progenitor cells. Direct transduction of recombinant degradation-resistant HOXB4 protein to human adult HSCs significantly enhanced their maintenance in a more primitive state both in vitro and in transplanted NOD/SCID/IL2R-γ(null) mice compared with transduction with wild-type HOXB4 protein. Our studies demonstrate the feasibility of engineering a stable HOXB4 variant to overcome a major technical hurdle in the ex vivo expansion of adult HSCs and early progenitors for human therapeutic use.
Double-blind, placebo-controlled first in human study to investigate an oral vaccine aimed to elicit an immune reaction against the VEGF-Receptor 2 in patients with stage IV and locally advanced pancreatic cancer (2012)

EudraCT No.: 2011-000222-29, NCT01486329, ISRCTN68809279.
SYNTHESIS OF ETHYL PYRROLE-2-CARBOXYLATES: A REGIOSELECTIVE CYCLIZATION OF ENAMINONES UNDER KNORR-TYPE CONDITIONS (2002)

ABSTRACT A regioselective formation of ethyl pyrrole-2-carboxylates 4 and 5 is effected by reductive condensation of enaminones 1a–f and ethyl 2-oximinoacetoacetate 2. The structures of the products have been delineated by spectroscopic methods.
Novel eco‐friendly biodegradable coir‐polyester amide biocomposites: Fabrication and properties evaluation (2001)

Abstract Biocomposites are prepared from a cheap, renewable natural fiber, coir (coconut fiber) as reinforcement with a biodegradable polyester amide (BAK 1095) matrix. In order to have better fiber‐matrix interaction the fibers are surface modified through alkali treatment, cyanoethylation, bleaching and vinyl grafting. The effects of different fiber surface treatments and fiber amounts on the performance of resulting bio‐composites are investigated. Among all modifications, cyanoethylated coir‐BAK composites show better tensile strength (35.50 MPa) whereas 7% methyl methacrylate grafted coir‐BAK composites show significant improvement in flexural strength (87.36 MPa). The remarkable achievement of the present investigation is that a low strength coir fiber, through optimal surface modifications, on reinforcement with BAK show an encouraging level of mechanical properties. Moreover, the elongation at break of BAK polymer is considerably reduced by the incorporation of coir fibers from nearly 400% (percent elongation of pure BAK) to 16‐24% (coir‐BAK biocomposites). SEM investigations show that surface modifications improve the fiber‐matrix adhesion. From biodegradation studies we find that after 52 days of soil burial, alkali treated and bleached coir‐BAK composites show significant weight loss. More than 70% decrease in flexural strength is observed for alkali treated coir‐BAK composites after 35 days of soil burial. The loss of weight and the decrease of flexural strength of degraded composites are more or less directly related.
Autolytic Transition of μCalpain upon Activation as Resolved by Antibodies Distinguishing between the Pre- and Post-Autolysis Forms1 (1992)

A novel method to observe the autolytic activation of a mammalian cytoplasmic calcium protease, mu-calpain, was developed using a set of antipeptidic antibodies capable of distinguishing between the pre- and post-autolysis forms of the enzyme. Antibodies raised against synthetic peptides designed to match the N-terminal sequences of the pre- and post-autolysis forms of the mu-calpain large subunit reacted specifically with the corresponding form of calpain and not with the other. The antibodies were specific and sensitive enough to detect the antigens in crude cell lysates. The relevance of the immunochemical detection of calpain activation was confirmed by the observation that proteolysis of a substrate protein by purified mu-calpain paralleled autolysis at various pCa as probed by these antibodies and that autolysis preceded substrate proteolysis. We also observed calcium-dependent autolysis of calpain accompanying subsequent proteolysis of substrate in intact cells using the antibodies. The method will provide a novel approach to assess the physiological targets of the enzyme by determining the local intracellular sites of calpain activation.