gebhart/patrepeval huggingface dataset:
Development of Metal Embedded Microsensors by Diffusion Bonding and Testing in Milling Process (2008)

This paper presents a new method to embed microthin film sensors into metallic structures by diffusion bonding. The experiments were carried out using AISI 304 stainless steel substrates with a bonding temperature of 800°C and a pressure of 4 MPa, which the developed thin film system was able to sustain. The success of embedding was validated by sensor functionality tests and metallurgical characterization. This sensor embedding method can be extended to other engineering metallic materials. To demonstrate the applications of the embedded microsensors, a PdCr thin film strain gauge array that is suitable for in situ measuring of temperatures and strains in manufacturing processes was designed and fabricated for testing in the vertical end milling process. Time- and spatial-resolved signals were obtained during the milling process. The signals were decomposed to a static part, which apparently resulted from temperature changes, and the dynamic part, which resulted from dynamic strains induced by material removal during cutting. The milling tests demonstrated the ability of using this method to measure real-time temperatures and strains within the workpiece, which will be very valuable to the fundamental understanding of various manufacturing processes. It can also be used for bench marking numerical modeling and simulations.
Cytochromes P450 (2011)

There are 244 cytochrome P450 genes (and 28 pseudogenes) in the Arabidopsis genome. P450s thus form one of the largest gene families in plants. Contrary to what was initially thought, this family diversification results in very limited functional redundancy and seems to mirror the complexity of plant metabolism. P450s sometimes share less than 20% identity and catalyze extremely diverse reactions leading to the precursors of structural macromolecules such as lignin, cutin, suberin and sporopollenin, or are involved in biosynthesis or catabolism of all hormone and signaling molecules, of pigments, odorants, flavors, antioxidants, allelochemicals and defense compounds, and in the metabolism of xenobiotics. The mechanisms of gene duplication and diversification are getting better understood and together with co-expression data provide leads to functional characterization.
Radio Frequency Tag Encoded Combinatorial Library Method for the Discovery of Tripeptide-Substituted Cinnamic Acid Inhibitors of the Protein Tyrosine Phosphatase PTP1B (1995)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTRadio Frequency Tag Encoded Combinatorial Library Method for the Discovery of Tripeptide-Substituted Cinnamic Acid Inhibitors of the Protein Tyrosine Phosphatase PTP1BEdmund J. Moran, Sepehr Sarshar, John F. Cargill, Manouchehr M. Shahbaz, Anna Lio, Adnan M. M. Mjalli, and Robert W. ArmstrongCite this: J. Am. Chem. Soc. 1995, 117, 43, 10787–10788Publication Date (Print):November 1, 1995Publication History Published online1 May 2002Published inissue 1 November 1995https://pubs.acs.org/doi/10.1021/ja00148a039https://doi.org/10.1021/ja00148a039research-articleACS PublicationsRequest reuse permissionsArticle Views659Altmetric-Citations227LEARN 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-AlertscloseSupporting Info (2)»Supporting Information Supporting Information Get e-Alerts
Cloning and expression in Pseudomonas aeruginosa of a gene involved in the production of alginate (1984)

Pseudomonas aeruginosa strains isolated from patients with cystic fibrosis commonly produce a capsule-like exopolysaccharide called alginate. The alginate-producing (Alg+) phenotype results in a mucoid colony morphology and is an unstable trait. A mutant of P. aeruginosa FRD (a cystic fibrosis isolate) was obtained which was temperature sensitive for alginate production ( Algts ). At elevated growth temperatures (41 degrees C), no alginate was detected in culture supernatants of the Algts mutant, but yields of alginate increased as the temperature of incubation was reduced. The mutation responsible for the Algts phenotype, alg-50(Ts), has been mapped to a region of the FRD chromosome closely linked to trp-2. The alg-50(Ts) marker did not map near the met-l-linked chromosomal mutations responsible for the instability of the Alg+ phenotype. A broad host range cosmid cloning system based upon derivatives of plasmid RK2 was used to construct a P. aeruginosa clone bank. After transfer of the clone bank to the Algts mutant, hybrid plasmids were obtained which complemented the Algts defect. Deletion mapping of the original 20.3 kilobases of P. aeruginosa DNA cloned showed that a 4.7-kilobase fragment would complement the alg-50(Ts) mutation.
The regulation of protein phosphorylation (2009)

Phosphorylation plays essential roles in nearly every aspect of cell life. Protein kinases regulate signalling pathways and cellular processes that mediate metabolism, transcription, cell-cycle progression, differentiation, cytoskeleton arrangement and cell movement, apoptosis, intercellular communication, and neuronal and immunological functions. Protein kinases share a conserved catalytic domain, which catalyses the transfer of the gamma-phosphate of ATP to a serine, threonine or tyrosine residue in protein substrates. The kinase can exist in an active or inactive state regulated by a variety of mechanisms in different kinases that include control by phosphorylation, regulation by additional domains that may target other molecules, binding and regulation by additional subunits, and control by protein-protein association. This Novartis Medal Lecture was delivered at a meeting on protein evolution celebrating the 200th anniversary of Charles Darwin's birth. I begin with a summary of current observations from protein sequences of kinase phylogeny. I then review the structural consequences of protein phosphorylation using our work on glycogen phosphorylase to illustrate one of the more dramatic consequences of phosphorylation. Regulation of protein phosphorylation is frequently disrupted in the diseased state, and protein kinases have become high-profile targets for drug development. Finally, I consider recent advances on protein kinases as drug targets and describe some of our recent work with CDK9 (cyclin-dependent kinase 9)-cyclin T, a regulator of transcription.
Killing of human myelomonocytic leukemia and lymphocytic cell lines by Actinobacillus actinomycetemcomitans leukotoxin (1988)

The purified leukotoxin of Actinobacillus actinomycetemcomitans kills human leukemic cell lines (e.g., HL-60, U937, and KG-1) and human T- and B-cell lines (e.g., JURKAT, MOLT-4, Daudi, and Raji) in a dose- and time-dependent manner. The 50% effective doses for these cell lines are similar to those established for human polymorphonuclear leukocytes and monocytes. In contrast, other human and nonhuman tumor cell lines are not susceptible to the leukotoxin. These human leukemia and lymphoid cell lines will serve as useful model systems with which to study the molecular specificity and mechanism(s) of action of the actinobacillus leukotoxin.
CD47 in the Immune Response: Role of Thrombospondin and SIRP-&amp;#945; Reverse Signaling (2008)

The past decades have been marked by spectacular progress towards understanding how dendritic cells (DCs) interact with T cells to elicit protective immune responses to fight infectious diseases and cancer. DCs that are lying at the interface between innate and adaptive immunity, are educated in peripheral tissues prior to their journey to the secondary lymphoid organs (SLO) whereby they dictate different classes of T cell responses. Uncontrolled or unwanted inflammatory responses are the price to pay to eliminate pathogens. However, if not self-limited, they may induce collateral damages that result in chronic inflammation often associated with autoimmune disorders. CD47 and its two ligands, i.e. thrombospondin 1 (TSP-1) and SIRP-alpha, were identified as a previously unappreciated inhibitory axis of DC and T cell functions. TSP-1 is predominantly a negative regulator of DC and T cell function while basal SIRP-alpha ligation on APC by CD47 enforces tolerance. Yet, CD47/SIRP-alpha interaction positively controls DC and innate cell transendothelial migration. Due to the promiscuity of the protein interactions for CD47 and its ligands, it is quite interesting to note that deletion of the CD47 gene in mice largely agrees with the in vitro data with human cells. In fact, the well-conserved tissue distribution of CD47 and SIRP-alpha across species may facilitate the transition from bench to bedside. We thus propose CD47/TSP-1/SIRP-alpha axis as an important sensor to maintain homeostasis and regulate innate and adaptive immune responses.
Segmented silicon-micromachined microelectromechanical deformable mirrors for adaptive optics (2002)

Deformable mirrors improve optical efficiency of a system by correcting the wave front aberration caused by imperfections in the system components or by turbulent atmosphere in case of telescope optics. Micromachined mirror technology has the potential to substantially reduce the cost of adaptive optics systems. First, a brief review of the work in this field is presented with the goal of informing the reader of the challenges in the micromachined adaptive optics and the implementation tradeoffs including stress-induced curvature of multilayer mirrors. Then, recent results on the silicon micromachined, hybrid integrated microelectromechanical deformable mirrors for adaptive optics developed at the University of Colorado are presented. Various microfabrication processes including surface micromachining, bulk micromachining, and flip-chip assembly are implemented to fabricate high optical fill factor and large-stroke piston-type micromirror arrays. The achieved micromirror deflection for some designs is in the range of 2 to 3.5 /spl mu/m, which results in the operating wavelength within infrared spectrum. Techniques to integrate microlenses on top of the micromirrors using self-aligned solder or transfer of ultrasmooth mirror plates on top of the micromirror actuators using flip-chip create high optical fill factor devices. Experimental results of aberration correction with such devices are presented.
Realization of a collective decoding of code-word states (1998)

A physical model for the optimum collective decoding that attains the minimum average error probability in distinguishing code-word states is presented. This model is based on a cavity QED technique which is available at present. It will open a possibility for a quantum decoder that realizes the superadditivity in classical capacity of quantum channel which was demonstrated in M. Sasaki, preceeding paper, Phys. Rev. A 58, 146 (1998).
Cooperativity in long-range gene regulation by the λ CI repressor (2004)

Effective repression of cI transcription from PRM by the bacteriophage lambda CI repressor requires binding sites (OL) located 2.4 kb from the promoter. A CI tetramer bound to OL1.OL2 interacts with a tetramer bound near PRM (OR1.OR2), looping the intervening DNA. We previously proposed that in this CI octamer:DNA complex, the distant OL3 operator and the weak OR3 operator overlapping PRM are juxtaposed so that a CI dimer at OL3 can cooperate with a CI dimer binding to OR3. Here we show that OL3 is necessary for effective repression of PRM and that the repressor at OL3 appears to interact specifically with the repressor at OR3. The OL3-CI-OR3 interaction involves the same CI interface used for short-range dimer-dimer interactions and does not occur without the other four operators. The long-range interactions were incorporated into a physicochemical model, allowing estimation of the long-range interaction energies and showing the lysogenic state to be ideally poised for CI negative autoregulation. The results establish the lambda system as a powerful tool for examining long-range gene regulatory interactions in vivo.
&lt;title&gt;Spectral Subtraction And Data Manipulation Using Spectra From Digitized Libraries&lt;/title&gt; (1981)

Historically, infrared spectra libraries have been used mainly for qualitative analysis and functional group assignments with some limited use for quantitative analysis. The latter application mainly uses reference libraries for selecting an absorption band free from other interfering bands for quantitative methods development. The marrying of digital computers to infrared spectrometers has expanded the uses of reference libraries. In addition to the above applications, requirements now include computerized searches for reducing the task of unknown identification, rapid recall of reference spectra for viewing, and even digitized spectrum recall for spectral subtraction when a sample is not available for actually measuring the reference spectrum. All of these applications for spectral libraries cannot necessarily be achieved with the same data base, but for a library to be useful for qualitative analysis, it certainly needs to contain as large a number of reference compounds as it possibly can. In addition, the library user must be able to view the full reference spectra as rapidly as possible.
Solution-Processed Ultraviolet Photodetectors Based on Colloidal ZnO Nanoparticles (2008)

A "visible-blind" solution-processed UV photodetector is realized on the basis of colloidal ZnO nanoparticles. The devices exhibit low dark currents with a resistance >1 TOmega and high UV photocurrent efficiencies with a responsivity of 61 A/W at an average intensity of 1.06 mW/cm(2) illumination at 370 nm. The characteristic times for the rise and fall of the photocurrent are <0.1 s and about 1 s, respectively. The photocurrent of the device is associated with a light-induced desorption of oxygen from the nanoparticle surfaces, thus removing electron traps and increasing the free carrier density which in turn reduces the Schottky barrier between contacts and ZnO nanoparticles for electron injection. The devices are promising for use in large-area UV photodetector applications.
Surface-enhanced spectroscopy (1985)

In 1978 it was discovered, largely through the work of Fleischmann, Van Duyne, Creighton, and their coworkers that molecules adsorbed on specially prepared silver surfaces produce a Raman spectrum that is at times a millionfold more intense than expected. This effect was dubbed surface-enhanced Raman scattering (SERS). Since then the effect has been demonstrated with many molecules and with a number of metals, including Cu, Ag, Au, Li, Na, K, In, Pt, and Rh. In addition, related phenomena such as surface-enhanced second-harmonic generation, four-wave mixing, absorption, and fluorescence have been observed. Although not all fine points of the enhancement mechanism have been clarified, the majority view is that the largest contributor to the intensity amplification results from the electric field enhancement that occurs in the vicinity of small, interacting metal particles that are illuminated with light resonant or near resonant with the localized surface-plasmon frequency of the metal structure. Small in this context is gauged in relation to the wavelength of light. The special preparations required to produce the effect, which include among other techniques electrochemical oxidation-reduction cycling, deposition of metal on very cold substrates, and the generation of metal-island films and colloids, is now understood to be necessary as a means of producing surfaces with appropriate electromagnetic resonances that may couple to electromagnetic fields either by generating rough films (as in the case of the former two examples) or by placing small metal particles in close proximity to one another (as in the case of the latter two). For molecules chemisorbed on SERS-active surface there exists a "chemical enhancement" in addition to the electromagnetic effect. Although difficult to measure accurately, the magnitude of this effect rarely exceeds a factor of 10 and is best thought to arise from the modification of the Raman polarizability tensor of the adsorbate resulting from the formation of a complex between the adsorbate and the metal. Rather than an enhancement mechanism, the chemical effect is more logically to be regarded as a change in the nature and identity of the adsorbate.
Guided and magnetic self-assembly of tunable magnetoceptive gels (2014)

Self-assembly of components into complex functional patterns at microscale is common in nature, and used increasingly in numerous disciplines such as optoelectronics, microfabrication, sensors, tissue engineering and computation. Here, we describe the use of stable radicals to guide the self-assembly of magnetically tunable gels, which we call 'magnetoceptive' materials at the scale of hundreds of microns to a millimeter, each can be programmed by shape and composition, into heterogeneous complex structures. Using paramagnetism of free radicals as a driving mechanism, complex heterogeneous structures are built in the magnetic field generated by permanent magnets. The overall magnetic signature of final structure is erased via an antioxidant vitamin E, subsequent to guided self-assembly. We demonstrate unique capabilities of radicals and antioxidants in fabrication of soft systems with heterogeneity in material properties, such as porosity, elastic modulus and mass density; then in bottom-up tissue engineering and finally, levitational and selective assembly of microcomponents.
A B Cell Superantigen–Induced Persistent “Hole” in the B-1 Repertoire (2000)

The bacterial toxin protein A from Staphylococcus aureus (SpA) interacts with B cell antigen receptors encoded by variable region heavy chain (V(H)) clan III genes via a V region framework surface that has been highly conserved during the evolution of the adaptive immune system. We have investigated the consequences of exposure to this prototypic B cell superantigen, and found that treatment of neonates or adults induces a T cell-independent deletion of a large supraclonal set of susceptible B cells that includes clan III/V(H) S107 family-expressing lymphocytes. In studies of different SpA forms, the magnitude of the induced deletion directly correlated with the V(H)-specific binding affinity/avidity. Upon cessation of SpA exposure, the representation of conventional splenic (B-2 subset) lymphocytes normalized; however, we found that the V(H) family-restricted deficit of peritoneal B-1 cells persisted. SpA treatment also induced a persistent loss of splenic S107-mu transcripts, with a loss of certain natural antibodies and specific tolerance to phosphorylcholine immunogens that normally recruit protective antimicrobial responses dominated by the S107-expressing B-1 clone, T15. These studies illustrate how a B cell superantigen can exploit a primordial Achilles heel in the immune system, for which B-1 cells, an important source of natural antibodies and host immune responses, have special susceptibility.
Preparation and Characterization of a New Class of Starch-Stabilized Bimetallic Nanoparticles for Degradation of Chlorinated Hydrocarbons in Water (2005)

Dechlorination of TCE and PCBs using bimetallic nanoparticles has received increasing interest in recent years. However, due to the extremely high reactivity, nanoparticles prepared using current methods tend to either react with surrounding media or agglomerate, resulting in the formation of much larger flocs and significant loss in reactivity. To overcome these drawbacks, we developed a simple and green approach for synthesizing palladized iron (Fe-Pd) nanoparticles. We modified the conventional methods by applying a water-soluble starch as a stabilizer. The starched nanoparticles displayed much less agglomeration but greater dechlorination power than those prepared without a stabilizer. TEM analyses indicated that the starched nanoparticles were present as discrete particles as opposed to dendritic flocs for nonstarched particles. The mean particle size was estimated to be 14.1 nm with a standard deviation of 11.7 nm, which translated to a surface area of approximately 55 m2 g(-1). While starched nanoparticles remained suspended in water for days, nonstarched particles agglomerated and precipitated within minutes. The starched nanoparticles exhibited markedly greater reactivity when used for dechlorination of TCE or PCBs in water. At a dose of 0.1 g L(-1), the starched particles were able to destroy 98% of TCE (C0 = 25 mg L(-1)) within 1 h. While trace amounts (<25 microg L(-1)) of 1,1-DCE were detected in the initial stage (<20 min) of degradation, no other intermediate byproducts such as vinyl chloride, cis-, or trans-dichloroethene were detected. The starched nanoparticles at approximately 1 g L(-1) were able to transform over 80% of PCBs (C0 = 2.5 mg L(-1)) in less than 100 h, as compared to only 24% with nonstarched Fe-Pd nanoparticles. The application of an innocuous stabilizer may substantially enhance the performances of palladized iron nanoparticles for environmental applications.
Recent Progress in Gene Therapy for Hemophilia (2012)

Hemophilia A and B are X-linked monogenic disorders caused by deficiencies in coagulation factor VIII (FVIII) and factor IX (FIX), respectively. Current treatment for hemophilia involves intravenous infusion of clotting factor concentrates. However, this does not constitute a cure, and the development of gene-based therapies for hemophilia to achieve prolonged high level expression of clotting factors to correct the bleeding diathesis are warranted. Different types of viral and nonviral gene delivery systems and a wide range of different target cells, including hepatocytes, skeletal muscle cells, hematopoietic stem cells (HSCs), and endothelial cells, have been explored for hemophilia gene therapy. Adeno-associated virus (AAV)-based and lentiviral vectors are among the most promising vectors for hemophilia gene therapy. Stable correction of the bleeding phenotypes in hemophilia A and B was achieved in murine and canine models, and these promising preclinical studies prompted clinical trials in patients suffering from severe hemophilia. These studies recently resulted in the first demonstration that long-term expression of therapeutic FIX levels could be achieved in patients undergoing gene therapy. Despite this progress, there are still a number of hurdles that need to be overcome. In particular, the FIX levels obtained were insufficient to prevent bleeding induced by trauma or injury. Moreover, the gene-modified cells in these patients can become potential targets for immune destruction by effector T cells, specific for the AAV vector antigens. Consequently, more efficacious approaches are needed to achieve full hemostatic correction and to ultimately establish a cure for hemophilia A and B.