gebhart/patrepeval huggingface dataset:
The Performance of Small‐Pore Microporous Aluminophosphates in Low‐Temperature Solar Energy Storage: The Structure–Property Relationship (2012)

Abstract The utilization of the reversible chemical and physical sorption of water on solids provides a new thermal energy storage concept with a great potential for lossless long‐term storage. The performance of microporous aluminophosphates in heat storage applications is highlighted by a comparative thermogravimetric and calorimetric study of three known materials (SAPO‐34, AlPO 4 ‐18, APO‐Tric) and is correlated with their structural features. The maximum water sorption capacity is similar for all three samples and results in a stored energy density of 240 kWh m −3 in the 40–140 °C range. The elemental composition influences the gradual (silicoaluminophosphate SAPO‐34) or sudden (aluminophosphates AlPO 4 ‐18, APO‐Tric) water uptake, with the latter being favourable in storage systems. The driving force for the determined sorption process is the formation of highly ordered water clusters in the pores, which is enabled by rapid and reversible changes in the Al coordination and optimal pore diameters. The ease with which changes in the Al coordination can occur in APO‐Tric is related to the use of the fluoride route in the synthesis. The understanding of these fundamental structure/sorption relationships forms an excellent basis for predicting the storage potential of numerous known or new microporous aluminophosphates and other porous materials from their crystal structures.
Development of Adenovirus Capsid Proteins for Targeted Therapeutic Delivery (2013)

The outer shell of the adenovirus capsid comprises three major types of protein (hexon, penton base and fiber) that perform the majority of functions facilitating the early stages of adenovirus infection. These stages include initial cell-surface binding followed by receptor-mediated endocytosis, endosomal penetration and cytosolic entry, and intracellular trafficking toward the nucleus. Numerous studies have shown that the penton base contributes to several of these steps and have supported the development of this protein into a delivery agent for therapeutic molecules. Studies revealing that the fiber and hexon bear unexpected properties of cell entry and/or nuclear homing have supported the development of these capsid proteins, as well into potential delivery vehicles. This review summarizes the findings to date of the protein-cell activities of these capsid proteins in the absence of the whole virus and their potential for therapeutic application with regard to the delivery of foreign molecules.
A Model of Loudness Applicable to Time-Varying Sounds (2002)

Previously we described a model for calculating the loudness of steady sounds from their spectrum. Here a new version of the model is presented, which uses a waveform as its input. The stages of the model are as follows. (a) A finite impulse response filter representing transfer through the outer and middle ear. (b) Calculation of the short-term spectrum using the fast Fourier transform (FFT). To give adequate spectral resolution at low frequencies, combined with adequate temporal resolution at high frequencies, six FFTs are calculated in parallel, using longer signal segments for low frequencies and shorter segments for higher frequencies. (c) Calculation of an excitation pattern from the physical spectrum. (d) Transformation of the excitation pattern to a specific loudness pattern. (e) Determination of the area under the specific loudness pattern. This gives a value for the instantaneous loudness. The short-term perceived loudness is calculated from the instantaneous loudness using an averaging mechanism similar to an automatic gain control system, with attack and release times. Finally the overall loudness impression is calculated from the short-term loudness using a similar averaging mechanism, but with longer attack and release times. The new model gives very similar predictions to our earlier model for steady sounds. In addition, it can predict the loudness of brief sounds as a function of duration and the overall loudness of sounds that are amplitude modulated at various rates.
ACC/AHA Guidelines for Percutaneous Coronary Intervention (Revision of the 1993 PTCA Guidelines)—Executive Summary (2001)

to complement, not replace, sound medical judgment and knowledge. They are intended for operators who possess the cognitive and technical skills for performing PCI and assume that facilities and resources required to properly perform PCI are available. As in the past, the indications are categorized as Class I, II, or III based on a multifactorial assessment of risk as well as expected efficacy viewed in the context of current knowledge and the relative strength of this knowledge. Initially, this document describes the background information that forms the foundation for specific indications. Topics fundamental to coronary intervention are reviewed followed by separate discussions relating to unique technical and operational issues. Formal recommendations for the use of angioplasty are included in Section V. Indications are organized according to clinical presentation. This format is designed to enhance the usefulness of this document for the assessment and care of patients with coronary artery disease (CAD).
Droplet Microfluidics for Single-Cell Analysis (2012)

This book chapter aims at providing an overview of all the aspects and procedures needed to develop a droplet-based workflow for single-cell analysis (see Fig. 10.1). The surfactant system used to stabilize droplets is a critical component of droplet microfluidics; its properties define the type of droplet-based assays and workflows that can be developed. The scope of this book chapter is limited to fluorinated surfactant systems that have proved to generate extremely stable droplets and allow to easily retrieve the encapsulated material. The formulation section discusses how the experimental parameters influence the choice of the surfactant system to use. The circuit design section presents recipes to design and integrate different droplet modules into a whole assay. The fabrication section describes the manufacturing of microfluidic chip including the surface treatment which is pivotal in droplet microfluidics. Finally, the last section reviews the experimental setup for fluorescence detection with an emphasis on cell injection and incubation.
Mutations in AML: prognostic and therapeutic implications (2016)

Acute myeloid leukemia (AML) is a heterogeneous hematologic malignancy characterized by the proliferation and aberrant differentiation of immature clonal myeloid cells. The prognosis of AML is variable, based on clinical features such as patient age, performance status, and comorbidities, as well as leukemia-specific genetic features including cytogenetics and molecular classification. The modern application of next-generation sequencing technology has uncovered marked heterogeneity and genomic complexity within AML, based on the presence or absence of cooperating mutations within functional categories such as epigenetic regulators, cell signaling and proliferation pathways, and master hematopoietic transcription factors. Although the treatment of AML has hitherto changed little in the past 40 years, the enhanced scientific understanding of AML pathophysiology and leukemogenesis has led to the recent development of multiple targeted and selective treatment approaches, and our increasing awareness of functional AML subsets will be evermore used to inform rational and personalized treatment strategies.
Small Molecule Inhibitors of p53/MDM2 Interaction (2005)

The discovery of the key negative regulator MDM2 (mouse double minute 2, also termed HDM2 for its human equivalent) provided a great opportunity to manipulate the levels of the tumor suppressor p53 in cancer cells. Activation of p53 in tumor cells by inhibiting the interaction of MDM2 with p53 has therefore been the focus of a large effort in drug discovery. The modulation of protein-protein interactions, however, has historically been very difficult to achieve owing to the large surface area of interaction. In this article, we review the recent accomplishments in this area and our quest for a clinically viable MDM2 inhibitor.
Acinetobacter cyclohexanone monooxygenase: gene cloning and sequence determination (1988)

The gene coding for cyclohexanone monooxygenase from Acinetobacter sp. strain NCIB 9871 was isolated by immunological screening methods. We located and determined the nucleotide sequence of the gene. The structural gene is 1,626 nucleotides long and codes for a polypeptide of 542 amino acids; 389 nucleotides 5' and 108 nucleotides 3' of the coding region are also reported. The complete amino acid sequence of the enzyme was derived by translation of the nucleotide sequence. From a comparison of the amino acid sequence with consensus sequences of nucleotide-binding folds, we identified a potential flavin-binding site at the NH2 terminus of the enzyme (residues 6 to 18) and a potential nicotinamide-binding site extending from residue 176 to residue 208 of the protein. An overproduction system for the gene to facilitate genetic manipulations was also constructed by using the tac promoter vector pKK223-3 in Escherichia coli.
Anti-inflammatory Effects of Aronia Extract on Rat Endotoxin-Induced Uveitis (2004)

The results suggest that ACE has a dose-dependent anti-ocular inflammatory effect that is due to the direct blocking of the expression of the iNOS and COX-2 enzymes and leads to the suppression of the production of NO, PGE2, and TNF-alpha.
Coupled-cavity resonant photodetectors for high-performance wavelength demultiplexing applications (1997)

A new coupled-cavity resonant photodetector structure is studied to provide a flat-topped passband with steep skirts in the photoresponse. The idea is to add a low-loss cavity that is optically coupled to the absorptive cavity via an intermediate mirror. Experimental reflection spectra confirm this coupling effect. Modeling for an InGaAs/GaAs/AlGaAs design reveals that this new coupled-cavity structure will be able to show a 22 dB channel rejection ratio even when the optical channel spacing is as narrow as 2 nm. In addition, the design and processing tolerances for cavity-mode adjustment are also addressed.
Immunohistochemical detection of antigen in human primary and metastatic melanomas by the monoclonal antibody 140.240 and its possible prognostic significance (1987)

An indirect immunofluorescence technique was used to study the tissue distribution of the epitope recognized by the monoclonal antibody 140.240 which identifies a p97-like melanoma-associated oncofetal antigen. Cryostat sections of various normal and neoplastic human tissues were examined. The presence of antigenic activity was demonstrated in 20 of 39 (51%) primary skin melanomas, in 21 of 52 (40%) metastatic melanomas, and in 20 of 44 (45%) nevi. The reactive nevi were restricted to intradermal, junctional, compound and spindle cell types. Of the 110 samples of 12 major tumor types other than melanoma tested, only 1 of 6 epidermoid tumors, 1 of 4 benign breast tumors and 1 of 5 prostatic tumors gave weak staining. This antibody also reacted with sweat glands and fetal small intestine tissue, but not with other adult or fetal normal tissues. Intrapatient as well as interpatient heterogeneity in the epitope expression was present in primary as well as metastatic tumor lesions surgically removed from patients with melanoma. Evaluation of the immunohistologic data and the clinical outcome of patients with melanoma reveals that the expression of the epitope recognized by this antibody is associated with a more favorable prognosis.
Primary structures of three human neutrophil defensins. (1985)

The primary structures of three human neutrophil antimicrobial peptides (HNP) were determined. The peptides, HNP-1, HNP-2, and HNP-3, which we have termed defensins, were rich in cystine, arginine, and aromatic residues, but were devoid of free sulfhydryl groups and carbohydrate moieties. They were 29-30 residues in length and identical in sequence in all but their amino terminal residues. The defensins were homologous in sequence to peptides of similar size and biological activity previously purified from rabbit polymorphonuclear leukocytes, but unrelated to other neutrophil proteins of known sequence. 11 amino acid residues of the human defensins, including all six cysteinyl residues, were invariantly conserved in the six rabbit members of this multigene peptide family. That similarly structured antimicrobial peptides are present in both rabbit and human leukocytes supports their purported role as cidal agents in phagocyte-mediated host defense.
Decision boundary feature extraction for neural networks (1997)

In this paper, we propose a new feature extraction method for feedforward neural networks. The method is based on the recently published decision boundary feature extraction algorithm which is based on the fact that all the necessary features for classification can be extracted from the decision boundary. The decision boundary feature extraction algorithm can take advantage of characteristics of neural networks which can solve complex problems with arbitrary decision boundaries without assuming underlying probability distribution functions of the data. To apply the decision boundary feature extraction method, we first give a specific definition for the decision boundary in a neural network. Then, we propose a procedure for extracting all the necessary features for classification from the decision boundary. Experiments show promising results.
IL-21 production by CD4+ effector T cells and frequency of circulating follicular helper T cells are increased in type 1 diabetes patients (2015)

These results indicate that increased IL-21 production is likely to be an aetiological factor in the pathogenesis of type 1 diabetes that could be considered as a potential therapeutic target.
Cytoplasmic, Nuclear, and Golgi Localization of RGS Proteins (2000)

RGS proteins comprise a family of proteins named for their ability to negatively regulate heterotrimeric G protein signaling. Biochemical studies suggest that members of this protein family act as GTPase-activating proteins for certain Galpha subunits, thereby accelerating the turn-off mechanism of Galpha and terminating signaling by both Galpha and Gbetagamma subunits. In the present study, we used confocal microscopy to examine the intracellular distribution of several RGS proteins in COS-7 cells expressing RGS-green fluorescent protein (GFP) fusion proteins and in cells expressing RGS proteins endogenously. RGS2 and RGS10 accumulated in the nucleus of COS-7 cells transfected with GFP constructs of these proteins. In contrast, RGS4 and RGS16 accumulated in the cytoplasm of COS-7 transfectants. As observed in COS-7 cells, RGS4 exhibited cytoplasmic localization in mouse neuroblastoma cells, and RGS10 exhibited nuclear localization in human glioma cells. Deletion or alanine substitution of an N-terminal leucine repeat motif present in both RGS4 and RGS16, a domain identified as a nuclear export sequence in HIV Rev and other proteins, promoted nuclear localization of these proteins in COS-7 cells. In agreement with this observation, treatment of mouse neuroblastoma cells with leptomycin B to inhibit nuclear protein export by exportin1 resulted in accumulation of RGS4 in the nucleus of these cells. GFP fusions of RGS domains of RGS proteins localized in the nucleus, suggesting that nuclear localization of RGS proteins results from nuclear targeting via RGS domain sequences. RGSZ, which shares with RGS-GAIP a cysteine-rich string in its N-terminal region, localized to the Golgi complex in COS-7 cells. Deletion of the N-terminal domain of RGSZ that includes the cysteine motif promoted nuclear localization of RGSZ. None of the RGS proteins examined were localized at the plasma membrane. These results demonstrate that RGS proteins localize in the nucleus, the cytoplasm, or shuttle between the nucleus and cytoplasm as nucleo-cytoplasmic shuttle proteins. RGS proteins localize differentially within cells as a result of structural differences among these proteins that do not appear to be important determinants for their G protein-regulating activities. These findings suggest involvement of RGS proteins in more complex cellular functions than currently envisioned.
Functional Genetic Screens Identify Genes Essential for Tumor Cell Survival in Head and Neck and Lung Cancer (2013)

This study identified a wide array of druggable genes for both lung and head and neck cancer. In particular, multiple genes involved in the G2-M checkpoint were shown to be essential for tumor cell survival, indicating their potential as anticancer targets.
Crab Shell Chitin Whisker Reinforced Natural Rubber Nanocomposites. 1. Processing and Swelling Behavior (2003)

Nanocomposite materials were obtained from a colloidal suspension of chitin whiskers as the reinforcing phase and latex of both unvulcanized and prevulcanized natural rubber as the matrix. The chitin whiskers, prepared by acid hydrolysis of chitin from crab shell, consisted of slender parallelepiped rods with an aspect ratio close to 16. After the two aqueous suspensions were mixed and strirred, solid composite films were obtained either by freeze-drying and hot-pressing or by casting and evaporating the preparations. The processing and swelling behavior of composite films were evaluated. It was concluded that the whiskers form a rigid network assumed to be governed by a percolation mechanism in the evaporated samples only. Comparatively, better resistance of evaporated samples than hot-pressed ones against swelling in an organic solvent medium is good evidence for the existence of a rigid chitin network. The values of diffusion coefficient, bound rubber content, and relative weight loss also supported the presence of a three-dimensional chitin network within the evaporated samples. The mechanical behavior of the composites gives additional insight and evidence for this fact (part 2).
Nikola Tesla: why was he so much resisted and forgotten? (1998)

The amount of published material about Tesla is enormous (thus, he is less forgotten than I thought). The number, importance, and transcendence of his inventions and doings are overwhelming, yet current recognition does not seem to abound, although during his lifetime he did indeed receive many honors. Why then this state of oblivion? What happened? Can history be so blatantly distorted? Were Marconi and other well-known and reputed men so cynical as to purposefully commit acts of intellectual piracy, as claimed by Seifer in his biography of Tesla? An attempt is made to answer these questions.
Identification of a co‐repressor binding site in catabolite control protein CcpA (1998)

The catabolite control protein CcpA is the central regulator of carbon catabolite repression in Bacilli and other Gram-positive bacteria. A comparison of 12 CcpA-like sequences with regulators from the LacI/GalR family defines a CcpA subfamily based on extensive similarities found among CcpAs and not in 32 other members of the family. These amino acids are clustered in three blocks in the CcpA sequence. Their interpretation, assuming a PurR-like fold, reveals that almost all of them are surface exposed and form a continuous patch on the N-terminal subdomain of the protein core extending into the DNA reading head. We introduced nine single amino acid exchanges in the subfamily specific residues of CcpA from Bacillus megaterium. Six mutants, namely CcpA47RS, 79AE, 89YE, 295YR, 299YE and 303RD, are inactive or severely impaired in catabolite repression, underlining their relevance for CcpA function. They are negatively transdominant over wild-type CcpA demonstrating their ability to correctly fold for dimerization. Five of them are unable or impaired in binding HPr-Ser-46-P in vitro, establishing a correlation between catabolite repression efficiency and HPr-Ser-46-P binding. These results support the hypothesis that the conserved region in CcpA is the HPr-Ser-46-P binding site.
Modulation of brassinosteroid-regulated gene expression by jumonji domain-containing proteins ELF6 and REF6 in Arabidopsis (2008)

Plant steroid hormones, brassinosteroids (BRs), are of great importance for plant growth and development. BRs signal through a cell surface receptor kinase, BRI1, and a GSK3-like kinase, BIN2, to regulate the BES1/BZR1 family of transcription factors, which directly bind to target gene promoters to activate or repress gene expression and mediate BR responses. To understand how BES1 regulates target gene expression, we identified two BES1-interacting proteins, ELF6 (early flowering 6) and its homolog REF6 (relative of early flowering 6), both of which are Jumonji N/C (JmjN/C) domain-containing proteins and were previously found to regulate flowering time. The interactions between BES1 and ELF6/REF6 were confirmed by GST pull-down and BiFC (bimolecular fluorescence complementation) experiments. Mutations in ELF6 or REF6 genes in Arabidopsis lead to BR-related phenotypes, including impaired cell elongation and reduced expression of BR target genes. Chromatin immunoprecipitation (ChIP) experiments indicated that histone 3 lysine 9 (H3K9) methylation status was changed in elf6 and ref6 mutants, consistent with recent findings that many Jmj proteins are histone demethylases. Our results demonstrate that BES1 recruits other transcriptional regulators such as ELF6 and REF6 to regulate target gene expression and coordinate BR responses with other developmental processes such as control of flowering time. Jmj domain-containing histone demethylases are involved in gene expression in many developmental processes and diseases, but how these proteins affect specific pathways is not well understood. Thus, our study establishes an important mechanism by which Jmj domain proteins modulate specific gene expression by interacting with pathway-specific transcription factors such as BES1.
Expression of a Human Lactoferrin cDNA in Tobacco Cells Produces Antibacterial Protein(s) (1994)

A suspension tobacco (Nicotiana tabacum L.) cell line was transformed to express human lactoferrin, an iron-binding glycoprotein. The transgenic calli produced a protein that was significantly smaller than the full-length lactoferrin protein. Total protein extracts made from transgenic tobacco callus exhibited much higher antibacterial activity than commercially available purified lactoferrin as determined by the decrease of colony-forming units when tested with four phytopathogenic species of bacteria. Introduction of the lactoferrin gene in crop plants may provide resistance against phytopathogenic bacteria.
Identification of annexin 33 kDa in cultured cells as a binding protein of influenza viruses (1994)

The binding of three influenza A and one influenza B virus strains to proteins of three continuously cultured cell lines was studied using protein overlay and immunostaining methods. The results obtained indicated the presence of both sialic acid-dependent and -independent binding of the virus strains; virus binding to proteins in the molecular mass range from about 40 to 103 kDa was dependent on sialic acid, whereas binding to the 33 kDa protein was independent of sialic acid. The 33 kDa binding protein was identified as annexin, a widely distributed non-glycosylated calcium-dependent phospholipid-binding protein.