gebhart/patrepeval huggingface dataset:
Highly Oriented and Ordered Arrays from Block Copolymers via Solvent Evaporation (2004)

A simple process of solvent evaporation is shown to produce highly ordered arrays of cylindrical microdomains in block copolymers with long‐range lateral order (see Figure). Solvent evaporation in thin films is unidirectional, producing a self‐assembly directed normal to the film surface, akin to a zone refinement. Further control over the size and separation distance of the domains can be achieved with cosolvents.
Vitamin C-Induced Decomposition of Lipid Hydroperoxides to Endogenous Genotoxins (2001)

Epidemiological data suggest that dietary antioxidants play a protective role against cancer. This has led to the proposal that dietary supplementation with antioxidants such as vitamin C (vit C) may be useful in disease prevention. However, vit C has proved to be ineffective in cancer chemoprevention studies. In addition, concerns have been raised over potentially deleterious transition metal ion-mediated pro-oxidant effects. We have now determined that vit C induces lipid hydroperoxide decomposition to the DNA-reactive bifunctional electrophiles 4-oxo-2-nonenal, 4,5-epoxy-2(E)-decenal, and 4-hydroxy-2-nonenal. The compound 4,5-Epoxy-2(E)-decenal is a precursor of etheno-2'-deoxyadenosine, a highly mutagenic lesion found in human DNA. Vitamin C-mediated formation of genotoxins from lipid hydroperoxides in the absence of transition metal ions could help explain its lack of efficacy as a cancer chemoprevention agent.
Nanoparticles: Emerging carriers for drug delivery (2011)

The core objective of nanoparticles is to control and manipulate biomacromolecular constructs and supramolecular assemblies that are critical to living cells in order to improve the quality of human health. By definition, these constructs and assemblies are nanoscale and include entities such as drugs, proteins, DNA/RNA, viruses, cellular lipid bilayers, cellular receptor sites and antibody variable regions critical for immunology and are involved in events of nanoscale proportions. The emergence of such nanotherapeutics/diagnostics will allow a deeper understanding of human longevity and human ills that include cancer, cardiovascular disease and genetic disorders. A technology platform that provides a wide range of synthetic nanostructures that may be controlled as a function of size, shape and surface chemistry and scale to these nanotechnical dimensions will be a critical first step in developing appropriate tools and a scientific basis for understanding nanoparticles.
A V(D)J recombinase-inducible B-cell line: role of transcriptional enhancer elements in directing V(D)J recombination. (1993)

Rapid analysis of mechanisms that regulate V(D)J recombination has been hampered by the lack of appropriate cell systems that reproduce aspects of normal prelymphocyte physiology in which the recombinase is activated, accessible antigen receptor loci are rearranged, and rearrangement status is fixed by termination of recombinase expression. To generate such a system, we introduced heat shock-inducible V(D)J recombination-activating genes (RAG) 1 and 2 into a recombinationally inert B-cell line. Heat shock treatment of these cells rapidly induced high levels of RAG transcripts and RAG proteins that were accompanied by a parallel induction of V(D)J recombinase activity, strongly suggesting that RAG proteins have a primary role in V(D)J recombination. Within hours after induction, these cells began to rearrange chromosomally integrated V(D)J recombination substrates but only if the substrates contained an active transcriptional enhancer; substrates lacking an enhancer were not efficiently rearranged. Activities necessary to target integrated substrates for rearrangement were provided by two separate lymphoid-specific transcriptional enhancers, as well as an active nonlymphoid enhancer, unequivocally demonstrating that such elements enhance both transcription and V(D)J recombinational accessibility.
Structural Characterization of the SARS-Coronavirus Spike S Fusion Protein Core (2004)

The spike (S) glycoprotein of coronaviruses mediates viral entry into host cells. It is a type 1 viral fusion protein that characteristically contains two heptad repeat regions, denoted HR-N and HR-C, that form coiled-coil structures within the ectodomain of the protein. Previous studies have shown that the two heptad repeat regions can undergo a conformational change from their native state to a 6-helix bundle (trimer of dimers), which mediates fusion of viral and host cell membranes. Here we describe the biophysical analysis of the two predicted heptad repeat regions within the severe acute respiratory syndrome coronavirus S protein. Our results show that in isolation the HR-N region forms a stable alpha-helical coiled coil that associates in a tetrameric state. The HR-C region in isolation formed a weakly stable trimeric coiled coil. When mixed together, the two peptide regions (HR-N and HR-C) associated to form a very stable alpha-helical 6-stranded structure (trimer of heterodimers). Systematic peptide mapping showed that the site of interaction between the HR-N and HR-C regions is between residues 916-950 of HR-N and residues 1151-1185 of HR-C. Additionally, interchain disulfide bridge experiments showed that the relative orientation of the HR-N and HR-C helices in the complex was antiparallel. Overall, the structure of the hetero-stranded complex is consistent with the structures observed for other type 1 viral fusion proteins in their fusion-competent state.
The Efficacy of a Peptide-Nucleic Acid Solution (RETICULOSE™*) for the Treatment of Hepatitis A and Hepatitis B - A Preliminary Controlled Human Clinical Trial (1992)

To complete this preliminary study 53 patients were chosen. All patients were screened, diagnosed for Hepatitis A or Hepatitis B and separated into treatment and control groups. All of the patients selected were in the early onset stage of their infection, and diagnosed for Hepatitis A or B by appropriate laboratory tests with special attention to Anti-HAV, IGM and HepB surface Antigen to carefully differentiate those with A from those with B. The treated patients received Reticulose for a 15 day period and the control patients received placebo injections of physiological saline. Reticulose patients with Hepatitis showed positive. 18 patients with Hepatitis B and 9 patients with Hepatitis A were treated with Reticulose, compared to 17 control patients with Hepatitis B and 9 control patients with Hepatitis A treated with placebo. Based upon laboratory findings of several parameters; Prothrombin times, Serum bilirubin, white blood cell (WBC count) and clinical observations; Reticulose treated patients appeared to show significant improvement. The bilirubin levels of 83% of patients with Hepatitis B, treated with Reticulose for 15 days were in normal range in 30 days. None of the control patients were within normal range after 30 days with placebo treatment. Of Hepatitis A patients treated with Reticulose, 100% showed normal bilirubin after 30 days. Of control patients with Hepatitis A, only 22% were in normal range after 30 days. The findings in this preliminary trial lead to the conclusion that Reticulose appears to significantly reduce the recovery time and return to normal for patients with an acute episode of Hepatitis A or B. Further study is indicated.
Experiments with a dual-armed, cooperative, flexible-drivetrain robot system (2002)

The design and experimental performance of a two-armed robot are presented. The manipulators have added drivetrain flexibility to aid studying their effects on robot cooperation. The control system is a four-level hierarchy: joint, arm, object, and task levels. The joint level handles flexibility via joint-torque control. The arm level uses nonlinear end-point feedback to control tip forces and positions. The object level manages the object via object impedance control. The task level directs multistep tasks autonomously. Experiments are shown for each level, culminating with two-handed insertion of a long part into a deep hole.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Effect of Angiotensin II on the Intact Forearm Veins of Man (1963)

Angiotensin II was injected into an isolated venous segment in eighteen human subjects and administered intravenously into a systemic vein in five other subjects. Injections of angiotensin II into an intact isolated venous segment produced no constriction of the segment. Intravenous systemic infusion of angiotensin II produced a slight constriction of the isolated venous segment in three subjects (mean 44 mm H 2 O) and no constriction of the segment in two subjects. The constriction in the venous segment associated with the systemic intravenous administration of the drug could be interrupted by blocking the nerves supplying the venous segment. Thus, angiotensin II has no direct effect upon the forearm veins of man. The rise in segmental venous pressure following the intravenous infusion of angiotensin II appears to originate from reflexes located outside the venous system which influence tone of the superficial veins of the forearm of man.
Biometric identification based on Transient Evoked Otoacoustic Emission (2013)

Biometrics provides a reliable and efficient solution to identity management in many aspects of daily lives, such as application login, access control and transaction security. This paper presents a novel approach to individual identification based on a new biometric modality Transient Evoked Otoacoustic Emission (TEOAE), which is a low level acoustic signal generated by human cochlea and detected in the outer ear canal. We resort to wavelet analysis to derive the time-frequency representation of such non-stationary signal and machine learning techniques: linear discriminant analysis and softmax regression to accomplish pattern recognition. We also introduce a complete framework of the biometric system considering practical application. Experiments on a TEOAE dataset of biometric setting show the merits of the proposed method. With fusion of information from both ears an average identification rate 98.72% is achieved.
The solution structure of the Josephin domain of ataxin-3: Structural determinants for molecular recognition (2005)

The Josephin domain plays an important role in the cellular functions of ataxin-3, the protein responsible for the neurodegenerative Machado-Joseph disease. We have determined the solution structure of Josephin and shown that it belongs to the family of papain-like cysteine proteases, sharing the highest degree of structural similarity with bacterial staphopain. A currently unique structural feature of Josephin is a flexible helical hairpin formed by a 32-residue insertion, which could determine substrate specificity. By using the Josephin structure and the availability of NMR chemical shift assignments, we have mapped the enzyme active site by using the typical cysteine protease inhibitors, transepoxysuccinyl-L-eucylamido-4-guanidino-butane (E-64) and [L-3-trans-(propylcarbamyl)oxirane-2-carbonyl]-L-isoleucyl-L-proline (CA-074). We also demonstrate that the specific interaction of Josephin with the ubiquitin-like domain of the ubiquitin- and proteasome-binding factor HHR23B involves complementary exposed hydrophobic surfaces. The structural similarity with other deubiquitinating enzymes suggests a model for the proteolytic enzymatic activity of ataxin-3.
Identification of the Factor VIIa Binding Site on Tissue Factor by Homologous Loop Swap and Alanine Scanning Mutagenesis (1994)

Tissue factor (TF) is a membrane-bound glycoprotein that functions as a cofactor for coagulation factor VIIa (VIIa) and initiates blood coagulation at sites of vascular injury. On the basis of sequence alignments, TF was predicted to be a member of the cytokine receptor superfamily. Utilizing the structural information available for the cytokine receptor superfamily, we have used site-directed mutagenesis to identify the binding site on TF for VIIa. The predicted loop regions in TF were systematically replaced with the homologous loops from the gamma-interferon receptor (gamma-IFN-R), the protein most related to TF in the superfamily of cytokine receptors. Six discontinuous regions (residues 16-20, 40-46, 60-69, 101-111, 129-151, 193-207) were identified that are required for interaction with VIIa and enhancement of activity. Individual substitution of 68 residues within these loops with alanine revealed eight residues (K20, D44, W45, K46, Q110, R135, F140, V207) that are required for cofactor activity. These residues fall into two groups, those that are required only for interactions with VIIa (K46, Q110, R135, F140, V207) and those that are also required to induce the conformational change in VIIa required for enhanced activity (K20, D44, W45). The discontinuous regions of TF required for interactions with VIIa form a single binding surface for VIIa that is analogous to the interface defined by the crystal structure of the complex between growth hormone and its receptor.(ABSTRACT TRUNCATED AT 250 WORDS)
Gene disruptions using P transposable elements: an integral component of the Drosophila genome project. (1995)

Biologists require genetic as well as molecular tools to decipher genomic information and ultimately to understand gene function. The Berkeley Drosophila Genome Project is addressing these needs with a massive gene disruption project that uses individual, genetically engineered P transposable elements to target open reading frames throughout the Drosophila genome. DNA flanking the insertions is sequenced, thereby placing an extensive series of genetic markers on the physical genomic map and associating insertions with specific open reading frames and genes. Insertions from the collection now lie within or near most Drosophila genes, greatly reducing the time required to identify new mutations and analyze gene functions. Information revealed from these studies about P element site specificity is being used to target the remaining open reading frames.
From Exponential to Linear Growth in Polyelectrolyte Multilayers (2006)

There exist two types of polyelectrolyte multilayers: those whose thickness increases linearly with the number of deposition steps, which are nicely structured, and those whose thickness increases exponentially, which resembles hydrogels. This simple picture has recently slightly evolved with the finding that some exponentially growing films enter into a linear growth phase after a certain number of deposition steps. In this study, we investigate the buildup process of hyaluronic acid/poly(L-lysine) (HA/PLL) multilayers that constitute one of the best known exponentially growing systems. The films are built by using two deposition methods: the well-known dipping method and the more recent spraying method where the polyelectrolyte solutions are sprayed alternately onto a vertical substrate. The goal of this study is twofold. First, we investigate the influence of the main parameters (i.e., spraying rate and spraying time) of the spraying method on the film growth process. We find that, as for the dipping method, the film thickness first evolves exponentially with the number of deposition steps, and after a given number of deposition steps, it follows a linear evolution. We find that similar behavior is observed with the dipping method. Second, because the spraying method allows the very fine variation of the different parameters of the buildup, we use this method to investigate the exponential-to-linear transition. We find that this transition always takes place after about 12 deposition steps whatever the values of the parameters controlling the deposition process. We discuss our results in light of a model proposed by Hübsch et al. (Hübsch, E.; Ball, V.; Senger, B.; Decher, G.; Voegel, J. C.; Schaaf, P. Langmuir 2004, 20, 1980-1985) and later by Salomäki et al. (Salomäki, M.; Vinokurov, I. A.; Kankare, J. Langmuir 2005, 21, 11232-11240) in which it is assumed that the exponential-to-linear transition is due to a film restructuring that progressively forbids the diffusion of one of the polyelectrolytes constituting the film over part of the film. This "forbidden" zone then grows with the number of deposition steps so that the outer zone of the film that is still concerned with diffusion keeps a constant thickness and moves upward as the total film thickness increases.
Sum capacity of the vector Gaussian broadcast channel and uplink–downlink duality (2003)

We characterize the sum capacity of the vector Gaussian broadcast channel by showing that the existing inner bound of Marton and the existing upper bound of Sato are tight for this channel. We exploit an intimate four-way connection between the vector broadcast channel, the corresponding point-to-point channel (where the receivers can cooperate), the multiple-access channel (MAC) (where the role of transmitters and receivers are reversed), and the corresponding point-to-point channel (where the transmitters can cooperate).
Triptolide Induces Pancreatic Cancer Cell Death via Inhibition of Heat Shock Protein 70 (2007)

Pancreatic cancer is highly resistant to current chemotherapy agents. We therefore examined the effects of triptolide (a diterpenoid triepoxide) on pancreatic cancer growth and local-regional tumor spread using an orthotopic model of pancreatic cancer. We have recently shown that an increased level of HSP70 in pancreatic cancer cells confers resistance to apoptosis and that inhibiting HSP70 induces apoptosis in these cells. In addition, triptolide was recently identified as part of a small molecule screen, as a regulator of the human heat shock response. Therefore, our aims were to examine the effects of triptolide on (a) pancreatic cancer cells by assessing viability and apoptosis, (b) pancreatic cancer growth and local invasion in vivo, and (c) HSP70 levels in pancreatic cancer cells. Incubation of PANC-1 and MiaPaCa-2 cells with triptolide (50-200 nmol/L) significantly reduced cell viability, but had no effect on the viability of normal pancreatic ductal cells. Triptolide induced apoptosis (assessed by Annexin V, caspase-3, and terminal nucleotidyl transferase-mediated nick end labeling) and decreased HSP70 mRNA and protein levels in both cell lines. Triptolide (0.2 mg/kg/d for 60 days) administered in vivo decreased pancreatic cancer growth and significantly decreased local-regional tumor spread. The control group of mice had extensive local invasion into adjacent organs, including the spleen, liver, kidney, and small intestine. Triptolide causes pancreatic cancer cell death in vitro and in vivo by induction of apoptosis and its mechanism of action is mediated via the inhibition of HSP70. Triptolide is a potential therapeutic agent that can be used to prevent the progression and metastases of pancreatic cancer.
The Stimulation of Prostaglandin Production by Two Antiprogesterone Steroids in Human Endometrial Cells (1986)

Endometrial stromal cells and isolated endometrial glands obtained from women during days 6-26 of the ovarian cycle were cultured for 24 h in the presence of the progesterone antagonists 17 beta-hydroxy-11 beta-[4-dimethylaminophenyl]17 alpha-[1-propynyl] estra-4,9-dien-3-one (RU486) and 17 beta-hydroxy-11 beta-[4-dimethylaminophenyl] 17 alpha-[3-hydroxy-1-propenyl]estra-4,9-dien-3-one (ZK 98734). Both steroids stimulated prostaglandin F2 alpha (PGF2 alpha) production by stromal cells in a dose-dependent manner, in doses ranging from 10-1000 nM. Progesterone (100 nM) inhibited RU486 stimulation, except at the highest dose of antiprogestin. PGE2 was produced in smaller amounts than PGF2 alpha, but, when measurable, it also increased in the presence of RU486. In contrast, RU486 did not increase PG production by endometrial glands. In an experiment to determine the effect of pretreatment, stromal cells were incubated for 24 h with 1000 nM progesterone or RU486 (all with 100 nM 17 beta-estradiol) with either 30 or 6 microM arachidonic acid. These six batches of cells were incubated for a second 24 h with either progesterone or antiprogestin. Cells pretreated with the higher dose of arachidonic acid had a marked increase in PGF2 alpha production during the second 24 h only when also pretreated with progesterone. This finding suggests that progesterone allows an accumulation of PG precursor in a suitable accessible pool. Pretreatment with progesterone also allowed a greater conversion of PG to its 13,14-dihydro-15-keto metabolite. These results suggest that antiprogesterone steroids may act as menstrual regulators by: stimulating endogenous PG production within the endometrial stromal cells and inhibiting PG catabolism.
Heterogeneity of smooth muscle cells in atheromatous plaque of human aorta. (1990)

This study was undertaken to investigate the expression of cytoskeletal proteins and the ultrastructure of cells in normal intima and atheromatous plaque of human aorta. It has been established, using double-labeling immunofluorescence, that smooth muscle cells (SMC) in normal aortic intima contain myosin, vimentin, and alpha-actin but do not react with antibodies against desmin. In contrast, 7 of 28 atherosclerotic plaques contained many cells expressing desmin in addition to the other cytoskeletal proteins characteristic of normal intima SMC. These cells were localized predominantly in the plaque cap and had the ultrastructural features of modulated SMC, ie, well-developed endoplasmic reticulum and Golgi apparatus. Besides, some cells in the 13 atherosclerotic plaques proved to be myosin, alpha actin, and desmin negative but contained vimentin and actin as revealed by fluorescent phalloidin. These cells were found in the immediate proximity of atheromatous material and reacted with a monoclonal antibody specific to SMC surface protein (11G10) but not with monoclonal anti-muscle actin (HHF35) and anti-macrophage (HAM56) antibodies. Electron microscopy of this plaque zone revealed that the cytoplasm of these cells was filled with rough endoplasmic reticulum and a developed Golgi complex. At the same time, a certain proportion of cells in this region retained morphologic features of differentiated SMC such as the presence of a basal lamina and myofilament bundles. The revealed peculiarities of cytoskeletal protein expression and the ultrastructure of cells in human aortic atherosclerotic plaques may be explained by a phenotypic modulation of vascular SMC.
Photochromic Diarylethenes with Intralocking Arms (1994)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTPhotochromic Diarylethenes with Intralocking ArmsMasahiro Irie, Osamu Miyatake, Kingo Uchida, and Takeshi EriguchiCite this: J. Am. Chem. Soc. 1994, 116, 22, 9894–9900Publication Date (Print):November 1, 1994Publication History Published online1 May 2002Published inissue 1 November 1994https://pubs.acs.org/doi/10.1021/ja00101a010https://doi.org/10.1021/ja00101a010research-articleACS PublicationsRequest reuse permissionsArticle Views1272Altmetric-Citations207LEARN 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 Get e-Alerts