gebhart/patrepeval huggingface dataset:
Computer Intensive Methods in Statistics (1993)

The computer has created new fields in statistic. Numerical and statistical problems that were untackable five to ten years ago can now be computed even on portable personal computers. A computer intensive task is for example the numerical calculation of posterior distributions in Bayesian analysis. The Bootstrap and image analysis are two other fields spawned by the almost unlimited computing power. It is not only the computing power through that has revolutionized statistics, the graphical interactiveness on modern statistical environments has given us the possibility for deeper insight into our data. On November 21 ,22 1991 a conference on computer Intensive Methods in Statistics has been organized at the Universite Catholique de Louvain, Louvain-La-Neuve, Belgium. The organizers were Jan Beirlant (Katholieke Universiteit Leuven), Wolfgang Hardie (Humboldt-Universitat zu Berlin) and Leopold Simar (Universite Catholique de Louvain and Facultes Universitaires Saint-Louis). The meeting was the Xllth in the series of the Rencontre Franco-Beige des Statisticians. Following this tradition both theoretical statistical results and practical contributions of this active field of statistical research were presented. The four topics that have been treated in more detail were: Bayesian Computing; Interfacing Statistics and Computers; Image Analysis; Resampling Methods. Selected and refereed papers have been edited and collected for this book. 1) Bayesian Computing.
Putative role of the mTOR/4E-BP1 signaling pathway in the carcinogenesis and progression of gastric cardiac adenocarcinoma (2012)

The mammalian target of rapamycin/eukaryotic translation inititiation factor 4E binding protein 1 (mTOR/4E-BP1) transduction pathway is activated in a range of malignant cancers, but its role in human gastric cardiac adenocarcinoma (GCA) has not been well defined. The present study used western blotting and reverse transcription polymerase chain reaction (RT-PCR) to assess the expression of mTOR, 4E-BP1 and eukaryotic translation initiation factor 4E (eIF4E) at the protein and mRNA levels in 33 cases of GCA and paired adjacent normal gastric mucosal tissues. The expression of mTOR at the protein level in GCA was significantly lower than that in the corresponding normal gastric mucosa (0.296 ± 0.27 vs. 1.348 ± 0.80, P<0.05), but the ratio of p-mTOR to mTOR was significantly increased in tumor tissues (1.425 ± 1.07 vs. 0.450 ± 0.24, P<0.05). The expression of 4E-BP1 was significantly decreased in GCA compared with normal tissues (p<0.05), while the levels of phosphorylated 4E-BP1 (p-4E-BP1) were markedly increased in tumor tissues (p<0.05). The levels of phosphorylated eIF4E (p‑eIF4E) were significantly higher in the tumors in comparison to the corresponding normal tissues (1.822 ± 0.63 vs. 0.997 ± 0.38, P<0.05), and the levels of p-eIF4E were closely correlated with lymph node metastasis (p<0.05). The mTOR/4E-BP1 signaling pathway is activated in GCA, with mTOR activated mainly through increased mTOR phosphorylation rather than protein overexpression.
Interleukin-6 receptor specific RNA aptamers for cargo delivery into target cells (2012)

Aptamers represent an emerging strategy to deliver cargo molecules, including dyes, drugs, proteins or even genes, into specific target cells. Upon binding to specific cell surface receptors aptamers can be internalized, for example by macropinocytosis or receptor mediated endocytosis. Here we report the in vitro selection and characterization of RNA aptamers with high affinity (Kd = 20 nM) and specificity for the human IL-6 receptor (IL-6R). Importantly, these aptamers trigger uptake without compromising the interaction of IL-6R with its natural ligands the cytokine IL-6 and glycoprotein 130 (gp130). We further optimized the aptamers to obtain a shortened, only 19-nt RNA oligonucleotide retaining all necessary characteristics for high affinity and selective recognition of IL-6R on cell surfaces. Upon incubation with IL-6R presenting cells this aptamer was rapidly internalized. Importantly, we could use our aptamer, to deliver bulky cargos, exemplified by fluorescently labeled streptavidin, into IL-6R presenting cells, thereby setting the stage for an aptamer-mediated escort of drug molecules to diseased cell populations or tissues.
Transcriptional Regulatory Networks in Saccharomyces cerevisiae (2002)

We have determined how most of the transcriptional regulators encoded in the eukaryote Saccharomyces cerevisiae associate with genes across the genome in living cells. Just as maps of metabolic networks describe the potential pathways that may be used by a cell to accomplish metabolic processes, this network of regulator-gene interactions describes potential pathways yeast cells can use to regulate global gene expression programs. We use this information to identify network motifs, the simplest units of network architecture, and demonstrate that an automated process can use motifs to assemble a transcriptional regulatory network structure. Our results reveal that eukaryotic cellular functions are highly connected through networks of transcriptional regulators that regulate other transcriptional regulators.
Structure-activity relationships of the nikkomycins (1991)

The structure-activity relationships of different nikkomycins were studied to evaluate the structural requirements for a potent chitin synthase inhibitor. We investigated the transport of the nikkomycins via the peptide transport system of the yeast Yarrowia lipolytica and determined the kinetic parameters for nikkomycin Z uptake [Km = 24 microM, Vmax = 2.2 nmol min-1 (mg dry wt)-1]. We demonstrated that the beta-methyl group of the N-terminal amino acid of dipeptide nikkomycins protects the molecule against peptidase activity in crude cell-extracts of different fungi. Furthermore, the relationship between inhibition constants for chitin synthase, transport of the nikkomycins via the peptide transport system, susceptibility to degradation by cellular proteases and whole-cell activity of the nikkomycins are discussed.
Transition-Metal-Catalyzed Reactions in Heterocyclic Synthesis (2004)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTTransition-Metal-Catalyzed Reactions in Heterocyclic SynthesisItaru Nakamura and Yoshinori YamamotoView Author Information Department of Chemistry, Graduate School of Science, Tohoku University, Sendai 980-8578, Japan Cite this: Chem. Rev. 2004, 104, 5, 2127–2198Publication Date (Web):February 21, 2004Publication History Received12 August 2003Published online21 February 2004Published inissue 1 May 2004https://pubs.acs.org/doi/10.1021/cr020095ihttps://doi.org/10.1021/cr020095iresearch-articleACS PublicationsCopyright © 2004 American Chemical SocietyRequest reuse permissionsArticle Views17913Altmetric-Citations1421LEARN 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 SUBJECTS:Catalysts,Cyclization,Heterocyclic compounds,Hydrocarbons,Inorganic carbon compounds Get e-Alerts
Selection of Drug-Resistant Bone Marrow Cells in Vivo After Retroviral Transfer of Human MDR 1 (1992)

Experiments were performed to determine if retroviral-mediated transfer of the human multidrug resistance 1 gene (MDR1) into murine bone marrow cells would confer drug resistance to the cells and whether the MDR1 gene could be used as a dominant selectable marker in vivo. When mice transplanted with bone marrow cells containing a transferred MDR1 gene were treated with the cytotoxic drug taxol, a substantial enrichment for transduced bone marrow cells was observed. This demonstration of positive selection establishes the ability to amplify clones of transduced hematopoietic cells in vivo and suggests possible applications in human therapy.
Application of electroporation for transfer of plasmid DNA to Lactobacillus, Lactococcus, Leuconostoc, Listeria, Pediococcus, Bacillus, Staphylococcus, Enterococcus and Propionibacterium (1988)

Plasmid DNA was introduced by electroporation into Bacillus, Enterococcus, Lactobacillus, Lactococcus, Leuconostoc, Listeria, Pediococcus, Propionibacterium and Staphylococcus as an alternative to competent-cell or protoplast transformation. Plasmid-containing transformants were recovered in these recipients at frequencies ranging from 10(1) to 10(5) transformants micrograms-1 of pGK12. Several parameters of the protocol, including DNA concentration, voltage, plating regimen and electroporation buffers were evaluated to determine conditions that improved transformation frequencies for Lactobacillus acidophilus. Using optimized conditions, the following plasmids were introduced into L. acidophilus: pAMB1, pC194, pGB354, pGKV1, pSA3, pTRK13, pTV1 and pVA797. The ability to transfer plasmid DNA via eletroporation will greatly facilitate the application of recombinant DNA methodology and transposon technology to Gram-positive bacteria for cloning and analysis of significant genes.
An HMM-based speech synthesis system applied to English (2002)

This paper describes an HMM-based speech synthesis system (HTS), in which the speech waveform is generated from HMM themselves, and applies it to English speech synthesis using the general speech synthesis architecture of Festival. Similarly to other data-driven speech synthesis approaches, HTS has a compact language dependent module: a list of contextual factors. Thus, it could easily be extended to other languages, though the first version of HTS was implemented for Japanese. The resulting run-time engine of HTS has the advantage of being small: less than 1 Mbyte, excluding text analysis part. Furthermore, HTS can easily change voice characteristics of synthesized speech by using a speaker adaptation technique developed for speech recognition. The relation between the HMM-based approach and other unit selection approaches is also discussed.
Reversion of recombinant toxoids: mutations in diphtheria toxin that partially compensate for active-site deletions. (1992)

Deleting an important active-site residue of diphtheria toxin, glutamic acid-148, reduces the toxin's ADP-ribosyltransferase activity by a factor of greater than 10(4). We considered using this mutation to construct a recombinant toxoid for expression by live attenuated vaccines and explored second-site mutations that might cause reversion. Activity was partially restored by substituting glutamic acid for valine-147 or by extending the deletion by five residues toward the NH2 terminus, thereby placing glutamic acid-142 immediately adjacent to tyrosine-149. In both mutants the indicated glutamic acid may occupy a spatial locus similar to that of glutamic acid-148 in the unmutated protein. Simply deleting a crucial residue does not, therefore, provide confidence that a second-site mutation could not readily restore activity to a toxoid.
Combined angiotensin converting enzyme inhibition and angiotensin AT1 receptor blockade up-regulates myocardial AT2 receptors in remodeled myocardium post-infarction (2001)

These results indicate that AT(2) receptor expression increased significantly during LV remodeling with combined therapy but not with either therapy alone. In combination with prior work demonstrating the effectiveness of combined therapy in limiting LV remodeling, this study is consistent with the hypothesis that AT(2) receptors play a cardioprotective role in LV remodeling after MI.
Tomographic Reconstruction from Experimentally Obtained Cone-Beam Projections (1987)

Direct reconstruction in three dimensions for two-dimensional projection data has been achieved by cone-beam reconstruction techniques. In this paper explicit formulas for a cone-beam convolution and back-projection reconstruction algorithm are given in a form which can be easily coded for a computer. The algorithm is justified by analyzing tomographic reconstructions of a uniformly attenuating sphere from simulated noisy projection data. A particular feature of this algorithm is the use of a one-dimensional rather than two-dimensional convolution function, greatly speeding up the reconstruction. The technique is applicable however large the cone angle of data capture and correctly reduces to the pure fan-beam reconstruction technique in the central section of the cone. The method has been applied to data captured on a cone-beam CT scanner designed for bone mineral densitometry.
Monitoring Warfarin Therapy in Patients with Lupus Anticoagulants (1997)

Lupus anticoagulants can influence prothrombin times and lead to INRs that do not accurately reflect the true level of anticoagulation. Use of the INR to standardize prothrombin times is invalid for some patients with lupus anticoagulants. To prevent supratherapeutic or subtherapeutic anticoagulation, these patients must be individually monitored with a test that is insensitive to lupus anticoagulants.
Design, Synthesis, and Biological Evaluation of Doxorubicin−Formaldehyde Conjugates Targeted to Breast Cancer Cells (2004)

The anthracycline antitumor drug doxorubicin (DOX) has been utilized for decades as a broad-spectrum chemotherapeutic. Recent literature evidence documents the role of formaldehyde in the cytotoxic mechanism, and anthracycline-formaldehyde conjugates possess substantially enhanced activity in vitro and in vivo. Targeting a doxorubicin-formaldehyde conjugate specifically to cancer cells may provide a more efficacious chemotherapeutic. The design and 11-step synthesis of doxorubicin-formaldehyde conjugates targeted to the estrogen receptor, which is commonly overexpressed in breast cancer cells, are reported. The formaldehyde is incorporated in a masked form as an N-Mannich linkage between doxorubicin and salicylamide. The salicylamide triggering molecule, previously developed to release the doxorubicin-formaldehyde active metabolite, is tethered via derivatized ethylene glycols to an E and Z mixture of 4-hydroxytamoxifen. The targeting group, E/Z-4-hydroxytamoxifen, was selected for its ability to tightly bind the estrogen receptor and antiestrogen binding sites. The targeted doxorubicin-formaldehyde conjugates' estrogen receptor binding and in vitro growth inhibition were evaluated as a function of tether length. The lead compound, DOX-TEG-TAM, bearing a triethylene glycol tether, binds the estrogen receptor with a binding affinity of 2.5% relative to E/Z-4-hydroxytamoxifen and inhibits the growth of four breast cancer cell lines with 4-fold up to 140-fold enhanced activity relative to doxorubicin.
Engineering mammalian cell line to improve sialylation (2005)

Thesis (Ph. D.)--Massachusetts Institute of Technology, Dept. of Chemical Engineering, 2005.
A new edge-defined approach for submicrometer MOSFET fabrication (1981)

A novel technique employing vertical (anisotropic) dry etching for fabricating edge-defined submicrometer MOSFETs is described, and preliminary results are presented. Three basic process techniques are employed: formation of an edge-defined submicrometer element, pattern transfer of the element into an underlying doped polysilicon gate layer, and passivation of the FET using a sidewall oxide. The submicrometer element formation technique is limited to linewidths in the 0.1 µm to 0.4 µm range. Characterization of MOSFETs, having physical channel lengths ∼0.1 µm to 0.15 µm and believed to be the world's smallest MOSFET's reported to date, is discussed.
Cerebrospinal fluid biogenic amine metabolites in fibromyalgia/fibrositis syndrome and rheumatoid arthritis (1992)

A low rate of turnover of several neurotransmitters supports the proposed hypothesis of a metabolic defect in PFS and suggests that the defect occurs at a neuroregulatory level.
Terminal Groups in Starburst Dendrimers:  Activation and Reactions with Proteins (1998)

Starburst dendrimers are novel nanoscopic synthetic polymers of defined molecular mass and geometry. These macromolecules, available in commercial quantities, contain methyl carboxylate and primary amino-terminal groups. The presence of these groups on any macromolecule limits its usefulness especially in cases where, for specific modulation of the properties of biologically active molecules, covalent bond formation is desirable between the biologically active molecules and the macromolecule. This paper describes activation of the surface groups of Starburst dendrimers for incorporation of a number of reactive electrophilic and nucleophilic groups and utilization of these reactive groups in formation of covalent bonds between dendrimers and alkaline phosphatase. The protein-dendrimer complexes have been reacted further with the Fab' fragment of an anti-creatine kinase MB isoenzyme antibody to form multifunctional dendrimer reagents. The enzymatic and immunochemical properties of these protein-dendrimer reagents have been evaluated by an immunoassay system. Nucleophilic thiols and electrophilic phenyliodoacetamido, iodoacetamido, and epoxy groups have been incorporated into amino-terminal dendrimers by their reactions with appropriate heterobifunctional reagents. Two independent sets of reactions have been used to prepare the reactive N-hydroxysuccinimidyl esters from dendrimers containing the terminal carboxyl groups. Quantitation of the reactive groups has been carried out by direct titration of these activated dendrimers and the products obtained by reactions of these dendrimers with small molecules and proteins.
Population Pharmacokinetics of Golimumab, an Anti‐Tumor Necrosis Factor‐α Human Monoclonal Antibody, in Patients With Psoriatic Arthritis (2009)

The population pharmacokinetics of subcutaneously administered golimumab (50 mg or 100 mg every 4 weeks) were characterized in patients with active psoriatic arthritis (PsA) in GO-REVEAL, a randomized, double-blind, placebo-controlled, phase 3 study. A total of 2029 serum golimumab concentrations from 337 patients were analyzed using NONMEM. A 1-compartment pharmacokinetic model with first-order absorption and elimination was chosen to describe the observed concentration-time data. For a patient of standard weight (70 kg), the population estimates (typical value +/- standard error) for golimumab pharmacokinetic parameters were as follows: apparent clearance = 1.38 +/- 0.04 L/d, apparent volume of distribution = 24.9 +/- 1.04 L, and absorption rate constant = 0.908 +/- 0.121 per day. The between-subject variability was 37.6% in apparent clearance and 37.9% in apparent volume of distribution. Body weight, antibody-to-golimumab status, baseline C-reactive protein level, and smoking status were identified as significant covariates on apparent clearance. Body weight was also a significant covariate on apparent volume of distribution. None of the concomitant medications examined (methotrexate, corticosteroids, and nonsteroidal anti-inflammatory drugs) were significant covariates on apparent clearance, although the median trough golimumab concentration in patients receiving methotrexate was higher than for those not receiving methotrexate. These significant covariates account for part of the variability in systemic exposure to golimumab observed in patients with PsA.
<title>Modular, flexible, and expandable high-performance image archiving and retrieving open-architecture system</title> (1992)

In today''s economy, it takes significant funds to establish a high-performance image archival and retrieval system for any image application. One cost effective approach is to build the system in multiple phases but there is concern that technology is advancing rapidly and the original system may not be able to take advantage of new features. The concept of an open- architecture modular, flexible and expandable system is an essential element to achieving a high-performance image archival and retrieval system within a realistic short period of time. This paper introduces a proposal for a modular, flexible, and expandable image archival and retrieval open-architecture system to stimulate discussion and thinking. It will cover the following areas: (1) data archival and retrieval requirements such as storage capacity and data management, (2) data communication and distribution requirements using local area networks and/or wide area networks, (3) the architectural requirements such as adopting industry standards for hardware and software, and (4) an example of such open-architecture system to demonstrate the feasibility of implementing a modular, flexible, and expandable high- performance image archival and retrieval system.
Relationship between cell morphology and impact strength of microcellular foamed high‐density polyethylene/polypropylene blends (2004)

Abstract Polymer blends, such as those resulting from recycling postconsumer plastics, often have poor mechanical properties. Microcellular foams have been shown to have the potential to improve properties, and permit higher‐value uses of mixed polymer streams. In this study, the effects of microcellular batch processing conditions (foaming time and temperature) and HDPE/PP blend compositions on the cell morphology (the average cell size and cell‐population density) and impact strength were studied. Optical microscopy was used to investigate the miscibility and crystalline morphology of the HDPE/PP blends. Pure HDPE and PP did not foam well at any processing conditions. Blending facilitated the formation of microcellular structures in polyolefins because of the poorly bonded interfaces of immiscible HDPE/PP blends, which favored cell nucleation. The experimental results indicated that well‐developed microcellular structures are produced in HDPE/PP blends at ratios of 50:50 and 30:70. The cell morphology had a strong relationship with the impact strength of foamed samples. Improvement in impact strength was associated with well‐developed microcellular morphology. Polym. Eng. Sci. 44:1551–1560, 2004. © 2004 Society of Plastics Engineers.
Visualization of mRNA expression in CNS using 11C-labeled phosphorothioate oligodeoxynucleotide (1999)

Antisense phosphorothioate oligodeoxynucleotide for mRNA of glial fibrillary acidic protein (GFAP) was labeled with the positron emitter 11C and administered i.v. to rats bearing glioma, which were expected to exhibit active expression of GFAP. Antisense oligodeoxynucleotide was retained in tumor cells, yielding clear images of tumors, while the control 20% mismatch oligodeoxynucleotide and sense-strand oligodeoxynucleotide were not retained in tumor cells. Findings revealed sequence-specific binding of the antisense oligodeoxynucleotide to the GFAP mRNA. Our methods can be used directly for non-invasive imaging of human gene expression using PET, a frequently used method of clinical examination.
Glomerular Transcriptome Changes Associated with Lipopolysaccharide-Induced Proteinuria (2009)

The detected changes in glomerular gene expression and their involvement in protein interaction networks provide putative markers for early and transient glomerular injury and proteinuria.