gebhart/patrepeval huggingface dataset:
Optimization of Procedures for Cloning by Somatic Cell Nuclear Transfer in Mice (2006)

Cloning by somatic cell nuclear transfer is a complex procedure that is dependent on correct interactions between oocyte and donor cell genome. These interactions require minimal insult to either the oocyte or the transplanted nucleus. Available data also indicate that reprogramming the donor cell genome may be slow, so that the cloned embryo expresses genes typical of the donor cell, and thus has different characteristics from normal embryos. Procedures that minimize damage to the donor genome and that address the unique characteristics of the cloned construct should enhance the efficacy of the method.
Engineered Bivalent Ligands to Bias ErbB Receptor-mediated Signaling and Phenotypes (2011)

The ErbB receptor family is dysregulated in many cancers, and its therapeutic manipulation by targeted antibodies and kinase inhibitors has resulted in effective chemotherapies. However, many malignancies remain refractory to current interventions. We describe a new approach that directs ErbB receptor interactions, resulting in biased signaling and phenotypes. Due to known receptor-ligand affinities and the necessity of ErbB receptors to dimerize to signal, bivalent ligands, formed by the synthetic linkage of two neuregulin-1β (NRG) moieties, two epidermal growth factor (EGF) moieties, or an EGF and a NRG moiety, can potentially drive homotypic receptor interactions and diminish formation of HER2-containing heterodimers, which are implicated in many malignancies and are a prevalent outcome of stimulation by native, monovalent EGF, or NRG. We demonstrate the therapeutic potential of this approach by showing that bivalent NRG (NN) can bias signaling in HER3-expressing cancer cells, resulting in some cases in decreased migration, inhibited proliferation, and increased apoptosis, whereas native NRG stimulation increased the malignant potential of the same cells. Hence, this new approach may have therapeutic relevance in ovarian, breast, lung, and other cancers in which HER3 has been implicated.
Cannabinoid receptors as new targets of antifibrosing strategies during chronic liver diseases (2007)

Chronic liver injury exposes the patient to liver fibrosis and its end stage, cirrhosis, is a major public health problem worldwide. In western countries, prevailing causes of cirrhosis include chronic alcohol consumption, hepatitis C virus infection and non-alcoholic steatohepatitis. Current treatment of hepatic fibrosis is limited to withdrawal of the noxious agent. Nevertheless, suppression of the cause of hepatic injury is not always feasible and numerous efforts are directed at the development of liver-specific antifibrotic therapies. Along these lines, the authors recently demonstrated that the endocannabinoid system shows promise as a novel target for antifibrotic therapy during chronic liver injury. Indeed, cannabinoid receptors CB1 and CB2 promote dual pro- and antifibrogenic effects, respectively. Therefore, endocannabinoid-based therapies, combining CB2 agonists and CB1 antagonists may open novel therapeutic perspectives for the treatment of chronic liver diseases.
Nitrogen containing hydrogenated amorphous carbon for thin-film field emission cathodes (1996)

Field emission measurements using 0.3 μm thick nitrogen containing hydrogenated amorphous carbon films (a-C:H:N) on n++-Si cathodes are reported. Onset emission fields as low as 4 V μm−1 have been obtained using a flat plate anode configuration. Uniform emission is observed over the entire cathode area at current densities below 7×10−2 mA cm−2. At higher current density preferential emission from spots is observed. The spot emission is imaged using the ITO coated plate anode. A model based on the a-C:H:N acting as a space charge interlayer on the n++-Si is proposed to explain the emission at low electric fields.
Recruitment of the Actin-binding Protein HIP-55 to the Immunological Synapse Regulates T Cell Receptor Signaling and Endocytosis (2004)

Actin cytoskeleton dynamics critically regulate T cell activation. We found that the cytoplasmic adaptor HIP-55, a Src/Syk-kinases substrate and member of the drebrin/Abp1 family of actin-binding proteins, localized to the T cell-antigen-presenting cell (APC) contact site in an antigen-dependent manner. Using green fluorescent protein fusion proteins, both Src homology 3 (SH3) and actin binding domains were found necessary for recruitment at the T cell-APC interface. HIP-55 was not implicated in conjugate formation and actin polymerization but regulated distal signaling events through binding and activation of hematopoietic progenitor kinase 1 (HPK1), a germinal center kinase (GCK) family kinase involved in negative signaling in T cells. Using RNA interference and overexpression experiments, the HIP-55-HPK1 complex was found to negatively regulate nuclear factor of activated T cell (NFAT) activation by the T cell antigen receptor. Moreover, we show that HIP-55, which partly co-localized with early endocytic compartments, promoted both basal and ligand-dependent T cell receptor (TCR) down-modulation, resulting in a decreased TCR expression. SH3 and actin-depolymerizing factor homology domains were required for this function. As controls, the expression of CD28 and the glycosylphosphatidylinositol-linked protein CD59 was not affected by HIP-55 overexpression. These results suggest that, in addition to binding to HPK1, HIP-55 might negatively regulate TCR signaling through down-regulation of TCR expression. Our findings show that HIP-55 is a key novel component of the immunological synapse that modulates T cell activation by connecting actin cytoskeleton and TCRs to gene activation and endocytic processes.
Optically produced true-time delays for phased antenna arrays (1997)

A device is described for generating true-time delays optically for microwave signals used in beam steering and beam shaping in phased-array antennas. The device can be adapted to provide delays from picoseconds to nanoseconds. A single, compact unit should provide parallel delays for more than 64 independent antenna elements with a greater than 6-bit resolution. The time delays are produced by multiple reflections in a mirror configuration with continuous refocusing. A single spatial light modulator selects independent optical path lengths for each of the parallel antenna elements. Amplitude control for beam shaping can be integrated into the device. The unit can be made rugged for harsh environments by use of solid-block construction. The operation of the true-time delay device is described, along with the overall system configuration. Preliminary experimental data are given.
A rapid and effective synthesis of propylene carbonate using a supercritical CO2–ionic liquid system (2003)

The synthesis of propylene carbonate from propylene oxide and carbon dioxide under supercritical conditions in the presence of 1-octyl-3-methylimidazolium tetrafluoroborate was achieved in nearly 100% yield and 100% selectivity within 5 minutes, whose TOF value is 77 times larger than those so far reported.
PHOTOSENSITIZERS: THERAPY AND DETECTION OF MALIGNANT TUMORS (1987)

Abstract. Advances in the use of photosensitizers for detection and treatment of malignant tumors during the previous reviews in this journal have been mainly in the areas of development of potentially useful new photosensitizers (e.g. phthalocyanines and chlorins), further understanding of the mechanisms of photodynamic therapy (PDT), and in dosimetry of light delivery in tissue. Perhaps the most significant advance during the past year has been the initiation of Phase III clinical trials of PDT vs standard therapy in treatment of superficial bladder cancer and obstructive endobronchial tumors. In the final analysis, only such clinical trials can determine the future of this new modality for cancer treatment.
New layered double hydroxides with the hydrotalcite structure containing Ni(II) and V(III) (1999)

Layered double hydroxides (LDH) with the hydrotalcite-like structure, but containing Ni(II) and V(III) cations in the layers, have been prepared by the constant pH method. Characterization by elemental chemical analysis, powder X-ray diffraction, differential thermal analysis, thermogravimetric analysis, FT-IR spectroscopy, temperature-programmed reduction and specific surface area assessment indicates the formation of well crystallized materials after hydrothermal treatment, without significant oxidation of V(III) species, and with interlayer, flat-oriented, carbonate anions. Reduction in H 2 takes place in a single step at ca. 400 °C [Ni(II)→Ni(0)]; V(III) is not reduced. On calcination in air, Ni 2 V 3 O 8 is formed, together with NiO, but crystallization is only evident after calcination at 750 °C. No major difference was found between samples with Ni:V molar ratios close to 2 or 4.
Direct etch method for microfludic channel and nanoheight post-fabrication by picoliter droplets (2006)

Photolithography is an expensive and significant step in microfabrication. Approaches that could change lithography would create an impact on semiconductor industry and microelectromechanical systems technologies. We demonstrate a direct etching method by ejecting etchant droplets at desired locations by using microdroplet ejector arrays. This method could be used for easy fabrication of poly(dimethylsiloxane) microfluidic channels and nanometer height postlike structures in microfluidic channels.
Repair of Large Full-Thickness Articular Cartilage Defects with Allograft Articular Chondrocytes Embedded in a Collagen Gel (1998)

Full-thickness articular cartilage defects are a major clinical problem; however, presently there is no treatment available to regeneratively repair these lesions. The current therapeutic approach is to drill the base of the defect to expose the subchondral bone with its cells and growth factors. This usually results in a repair tissue of fibrocartilage that functions poorly in the loaded joint environment. The use of phenotypically appropriate chondrocytes embedded in a collagen gel delivery vehicle may provide a method that could be used to repair full-thickness articular cartilage defects with functionally satisfactory hyaline cartilage. Allograft articular chondrocytes embedded in a type I collagen gel were transplanted into large (6 x 3 x 3 mm), full-thickness articular cartilage defects in condylar and patellar weight-bearing surfaces to develop clinically applicable methods to repair articular cartilage defects. Chondrocytes were isolated from the articular cartilage of 4-week-old New Zealand rabbits and embedded in type I collagen gels. This composite was transplanted into a full-thickness defect on the medial femoral condyle and patellar groove of adolescent host rabbits. The repair cartilage was assessed histologically by a semiquantitative scoring system and biomechanically with a microindentation technique of specimens 4-48 weeks after chondrocyte transplantation. Defects in both locations were repaired with histologically apparent hyaline cartilage observed from as early as 4 weeks until 48 weeks after transplantation. The repair cartilage in the medial femoral condyle was more irregular than in the patellar groove, but in all other respects was similar. The grafted tissue did not remodel and differentiate into the morphological zones seen in normal articular cartilage. No tidemark or subchondral bony plate formed even 48 weeks after transplantation. Biomechanically, the repaired cartilage demonstrated indentation values similar to normal articular cartilage 12 weeks after transplantation and remained the same 48 weeks after transplantation. By contrast, the control (i.e., empty) defects healed with tissue that exhibited very poor metachromatic staining and exhibited very high indentation values. Incomplete bonding of the repair tissue to the normal cartilage was seen, and the surface was significantly irregular with major discontinuities. These observations provide the basis for considering the use of allograft articular chondrocytes to repair articular cartilage defects in the weight-bearing regions of the knee.
Research challenges in wireless networks of biomedical sensors (2001)

Implanted biomedical devices have the potential to revolutionize medicine. Smart sensors, which are created by combining sensing materials with integrated circuitry, are being considered for several biomedical applications such as a glucose level monitor or a retina prosthesis. These devices require the capability to communicate with an external computer system (base station) via a wireless interface. The limited power and computational capabilities of smart sensor based biological implants present research challenges in several aspects of wireless networking due to the need for having a bio-compatible, fault-tolerant, energy-efficient, and scalable design. Further, em bedding thesesensors in humans add additional requirements. For example, the wireless networking solutions should be ultra-safe and reliable, work trouble-free in different geographical locations (although implants are typically not expected to move; they shouldn't restrict the movements of their human host), and require minimal maintenance. This necessitates application-specific solutions which are vastly different from traditional solutions.In this paper, we describe the potential of biomedical smart sensors. We then explain the challenges for wireless networking of human-embedded smart sensor arrays and our preliminary approach for wireless networking of a retina prosthesis. Our aim is to motivate vigorous research in this area by illustrating the need for more application-specific and novel approaches toward developing wireless networking solutions for human-implanted smart sensors.
Structural elements of ornithine decarboxylase required for intracellular degradation and polyamine-dependent regulation. (1992)

Mammalian ornithine decarboxylase (ODC), a key enzyme in polyamine biosynthesis, is rapidly degraded in cells, an attribute important to the regulation of its activity. Mutant and chimeric ODCs were created to determine the structural requirements for two modes of proteolysis. Constitutive degradation requires the carboxy terminus and is independent of intracellular polyamines. Truncation of five or more carboxy-terminal amino acids prevents this mode of degradation, as do several internal deletions within the 37 carboxy-most amino acids that spare the last five residues. Polyamine-dependent degradation of ODC requires a distinct region outside the carboxy terminus. The ODC of a parasite, Trypanosoma brucei, is structurally very similar to mouse ODC but lacks the carboxy-terminal domain; it is not a substrate for either pathway. The regulatory properties of enzymatically active chimeric proteins incorporating regions of the two ODCs support the conclusion that distinct domains of mouse ODC confer constitutive degradation and polyamine-mediated regulation. Mouse ODC contains two PEST regions. The first was not required for either form of degradation; major deletions within the second ablated constitutive degradation. When mouse and T. brucei ODC RNAs were translated in vitro in a reticulocyte lysate system, the effects of polyamine concentration on ODC protein production and activity were similar for the two mRNAs, which contradicts claims that this system accurately reflects the in vivo effects of polyamines on responsive ODCs.
Purification and properties of extracellular mutacin, a bacteriocin from Streptococcus sobrinus (1992)

Mutacin MT6223, a cell-free bacteriocin produced by Streptococcus sobrinus MT6223, was purified by ammonium sulphate precipitation, chromatofocusing with PBE 94 and column chromatography on SP Sephadex C-25. The specific activity of the purified mutacin was increased 1950-fold with a recovery of 9.7%. The molecular mass of the purified mutacin preparation was estimated to be 6.5 kDa. The mutacin activity was stable from pH 2-7, and was resistant to treatment at 100 degrees C for 20 min. It was inactivated by papain or ficin digestion, and was partially inhibited by alpha-chymotrypsin. The mutacin was found to be active against strains of serotypes c, e and f of Streptococcus mutans and the addition of purified mutacin MT6223 to growing cells of S. mutans MT8148 resulted in a rapid inhibition of incorporation of [3H]thymidine, [3H]uracil or L-[3H]glutamic acid into DNA, RNA or protein, respectively. Specific pathogen-free Fischer rats fed diet 2000 and infected with S. mutans MT8148R showed significantly fewer caries and lower plaque scores when mutacin was administered through drinking water. The present study demonstrates that mutacin MT6223 inhibited the growth of mutans streptococci. Thus, mutacin MT6223 may be a candidate for use in dental caries prevention.
Periodontal disease is associated with lower antioxidant capacity in whole saliva and evidence of increased protein oxidation (2003)

The aim of this cohort study was to determine whether periodontitis and gingivitis are associated with impaired salivary antioxidant status and increased oxidative injury. One hundred and twenty-nine patients attending a routine dental check-up were recruited for the study. Periodontal disease status was characterized using the Community Periodontal Index of Treatment Needs (CPITN) system. Total salivary antioxidant capacity and salivary ascorbate, urate and albumin were determined in a sample of whole unstimulated saliva. Protein carbonyl concentrations were determined as an index of oxidative injury. Patients in the lowest tertile of CPITN score exhibited decreased salivary delivery of antioxidants and specifically urate than patients in the upper tertile. Poor periodontal health was associated with increased concentrations of protein carbonyls in saliva. Women had significantly lower total antioxidant status than men, regardless of periodontal health. Periodontal disease is associated with reduced salivary antioxidant status and increased oxidative damage within the oral cavity.
Use of Lasers for Closure of Cutaneous Wounds: Experience with Nd:YAG, Argon and CO2 Lasers (1986)

The concept of tissue fusion by laser has been recently established. In this study, we have examined the skin welding by laser and tested the efficacy of four different lasers for this application. The results attest to the feasibility of the procedure and suggest that laser welding may represent an alternative for closure of cutaneous wounds.
Effects of high-numerical-aperture focusing on the state of polarization in optical and magneto-optic data storage systems (1991)

Using vector diffraction theory and an exact method for computing reflection coefficients for multilayer structures, we analyze the effects of high-numerical-aperture focusing on the state of polarization in optical data storage systems. The focused incident beam is decomposed into a spectrum of plane waves, and the reflected beam is obtained by the superposition of these plane waves after they are independently reflected from the multilayer. Plots of polarization rotation angle and ellipticity for several disk structures are presented.
Diatom Bionanotribology—Biological Surfaces in Relative Motion: Their Design, Friction, Adhesion, Lubrication and Wear (2005)

Tribology is the branch of engineering that deals with the interaction of surfaces in relative motion (as in bearings or gears): their design, friction, adhesion, lubrication and wear. Continuous miniaturization of technological devices like hard disc drives and biosensors increases the necessity for the fundamental understanding of tribological phenomena at the micro- and nanoscale. Biological systems show optimized performance also at this scale. Examples for biological friction systems at different length scales include bacterial flagella, joints, articular cartilage and muscle connective tissues. Scanning probe microscopy opened the nanocosmos to engineers: not only is microscopy now possible on the atomic scale, but even manipulation of single atoms and molecules can be performed with unprecedented precision. As opposed to this top-down approach, biological systems excel in bottom-up nanotechnology. Our model system for bionanotribological investigations are diatoms, for they are small, highly reproductive, and since they are transparent, they are accessible with different kinds of optical microscopy methods. Furthermore, certain diatoms have proved to be rewarding samples for mechanical and topological in vivo investigations on the nanoscale. There are several diatom species that actively move (e.g. Bacillaria paxillifer forms colonies in which the single cells slide against each other) or which can, as cell colonies, be elongated by as much as a major fraction of their original length (e.g. Ellerbeckia arenaria colonies can be reversibly elongated by one third of their original length). Therefore, we assume that some sort of lubrication of interactive surfaces is present in these species. Current studies in diatom bionanotribology comprise techniques like atomic force microscopy, histochemical analysis, infrared spectrometry, molecular spectroscopy and confocal infrared microscopy.
Molecular expression of PSMA mRNA and protein in primary renal tumors (1999)

Human prostate-specific membrane antigen (PSMA), a 100-kDa integral transmembrane glycoprotein, is considered to be a highly specific marker of the prostate gland, and has successfully been used as a marker of circulating prostatic epithelial cells. Extended PSMA homology has been demonstrated with a cDNA found in rat cerebral and renal tissues. In this study, we aimed to evaluate the expression of PSMA mRNA in a variety of human renal cancer tissues (n = 20) and cell lines (n = 12). Using reverse transcriptase-polymerase chain reaction, DNA sequencing, blottings, and specific anti-PSMA labelling with CYT 351 antibody, we identified PSMA mRNA and protein in normal and in neoplastic renal tissue. The sequence of the polymerase-chain-reaction products is identical to that of PSMA cDNA derived from prostate tissue. Immunological staining with the CYT 351 reveals that PSMA is expressed mainly in tubular cells. Since PSMA does not appear to be restricted to prostatic tissue, this novel biomarker may prove useful in the staging of renal cancer and in the search for the hematogenous spread of renal cells.
A Single‐Film Electrochromic Device (1990)

A novel electrochromic device utilizing a single film of Prussian blue is described, and its optical switching behavior is characterized. Light transmission through the device can be increased by the application of 2–12V across the film; the larger voltages bleach more of the Prussian blue up to a maximum of about 50%. The device is fully colored in the "off state" and has no optical memory.