gebhart/patrepeval huggingface dataset:
Lanthanide-binding helix-turn-helix peptides: Solution structure of a designed metallonuclease (2003)

A designed lanthanide-binding chimeric peptide based on the strikingly similar geometries of the EF-hand and helix-turn-helix (HTH) motifs was investigated by NMR and CD spectroscopy and found to retain the same overall solution structure of the parental motifs. CD spectroscopy showed that the 33-mer peptide P3W folds on binding lanthanides, with an increase in alpha-helicity from 20% in the absence of metal to 38% and 35% in the presence of excess Eu(III) and La(III) ions, respectively. The conditional binding affinities of P3W for La(III) (5.9 +/- 0.3 microM) and for Eu(III) (6.2 +/- 0.3 microM) (pH 7.8, 5 mM Tris) were determined by tryptophan fluorescence titration. The La(III) complex of peptide P3, which differs from P3W by only one Trp-to-His substitution, has much less signal dispersion in the proton NMR spectra than LaP3W, indicating that the Trp residue is a critical hydrophobic anchor for maintaining a well-folded helix-turn-helix structure. A chemical-shift index analysis indicates the metallopeptide has a helix-loop-helix secondary structure. A structure calculated by using nuclear Overhauser effect and other NMR constraints reveals that P3W not only has a tightly folded metal-binding loop but also retains the alpha-alpha corner supersecondary structure of the parental motifs. Although the solution structure is undefined at both the N and C termini, the NMR structure confirms the successful incorporation of a metal-binding loop into a HTH sequence.
Preparation of gradient copolymers via ATRP using a simultaneous reverse and normal initiation process. I. Spontaneous gradient (2005)

Abstract Spontaneous gradient copolymers were prepared in both bulk and miniemulsion systems via Atom Transfer Radical Polymerization (ATRP) utilizing a Simultaneous Reverse and Normal Initiation (SR &amp; NI) process. Both instantaneous and cumulative compositions were used to characterize the gradient copolymers. The gradient copolymers were obtained with an array of gradient compositions ranging from a subtle to strong variation in monomer distribution along the polymer backbones, depending on the ratio of comonomers initially added to the copolymerization system. The compositions of the gradient copolymer produced in miniemulsion systems were similar to those generated in bulk. © 2005 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 43: 3616–3622, 2005
Laser drilling of vias in dielectric for high density multilayer LSHI thick film circuits (1977)

A design analysis of a high density multilevel thick film digital microcircuit used for large scale integration is presented. The circuit employs 4 mil lines, 4 mil spaces and requires 4 mil diameter vias. Present screened and fired thick film technology is limited on a production basis to 16 mil square vias. A process whereby 4 mil diameter vias can be fabricated in production using laser technology was described along with a process to produce 4 mil diameter vias for conductor patterns which have 4 mil lines and 4 mil spacings.
Development of antibodies against p53 in lung cancer patients appears to be dependent on the type of p53 mutation. (1992)

Using immunoblotting techniques we studied the sera from small cell lung cancer and non-small cell lung cancer patients for antibodies directed against p53. We have also characterized the majority of these patients' tumors for p53 mutations. In the sera of 13% of the patients (4 of 40 small cell lung cancer and 2 of 6 non-small cell lung cancer) we found antibodies specific for the p53 tumor suppressor gene product. All of the antibody-positive patients tested had p53 missense mutations and expressed detectable p53 antigen in their tumor cell lines. No anti-p53 antibodies were detected in sera from patients whose tumor had p53 stop, splice/stop, splice, or frameshift mutations (n = 10). Thus, while we find that the ability of lung cancer patients to develop anti-p53 antibodies is correlated with the type of p53 mutation, many patients have tumors with missense p53 mutations and did not develop anti-p53 antibodies. The presence of p53 antibodies was not correlated to stage, prior treatment, sex, or survival. None of these lung cancer patient sera had measurable amounts of p53 antigen. By immunoblotting all six anti-p53 antisera we were able to detect a variety of mutant p53 proteins (including those from antibody-negative patients) and detected wild-type p53 protein. The development of anti-p53 antibodies represents an interesting model system for studying immune responses in cancer patients against mutant oncogene products.
The evolving role of (131)I for the treatment of differentiated thyroid carcinoma. (2005)

The use of radioactive iodine ((131)I) for the treatment of thyroid carcinoma has changed over the past 50 y. These changes are based on increasing awareness of the biophysical properties of (131)I and new discoveries concerning the biology of iodine handling by thyroid cells. The therapeutic administration of (131)I for thyroid remnant ablation and for metastases requires an appreciation of iodine clearance kinetics, of factors that can alter the occupancy time of (131)I within lesions, and of the role of thyroid-stimulating hormone in stimulating the sodium-iodide symporter. The potential complications and adverse events associated with (131)I are discussed. (131)I will continue to be a major weapon in the fight against metastatic thyroid carcinoma. Its future role will be modified by expanding knowledge of its relative risks and benefits.
Comparative study of the effect of luminal hypotonicity on mucosal permeability in rat upper gastrointestinal tract (2007)

The stomach does not respond while the jejunum is more sensitive to hypotonicity-induced increase in mucosal permeability than the duodenum. The hypotonicity-induced increase in duodenal mucosal permeability most probably constitutes a physiological mechanism that entails widening of paracellular pathways, which facilitates the transport of osmolytes into the lumen.
Heterogeneity of genomic fusion of BCR and ABL in Philadelphia chromosome-positive acute lymphoblastic leukemia. (1988)

Philadelphia chromosome-positive acute lymphoblastic leukemia occurs in two molecular forms, those with and those without rearrangement of the breakpoint cluster region on chromosome 22. The molecular abnormality in the former group is similar to that found in chronic myelogenous leukemia. To characterize the abnormality in the breakpoint cluster region-unrearranged form, we have mapped a 9;22 translocation from the Philadelphia chromosome-positive acute lymphoblastic leukemia cell line SUP-B13 by using pulsed-field gel electrophoresis and have cloned the DNA at the translocation junctions. We demonstrate a BCR-ABL fusion gene on the Philadelphia chromosome. The breakpoint on chromosome 9 is within ABL between exons Ia and II, and the breakpoint on chromosome 22 is approximately equal to 50 kilobases upstream of a breakpoint cluster region in an intron of the BCR gene. This upstream BCR breakpoint leads to inclusion of fewer BCR sequences in the fusion gene, compared with the BCR-ABL fusion gene of chronic myelogenous leukemia. Consequently, the associated mRNA and protein are smaller. The exons from ABL are the same. Analysis of leukemic cells from four other patients with breakpoint cluster region-unrearranged Philadelphia chromosome-positive acute lymphoblastic leukemia revealed a rearrangement on chromosome 22 close to the breakpoint in SUP-B13 in only one patient. These data indicate that breakpoints do not cluster tightly in this region but are scattered, possibly in a large intron. Given the large size of BCR and the heterogeneity in breakpoint location, detection of BCR rearrangement by standard Southern blot analysis is difficult. Pulsed-field gel electrophoresis should allow detection at the DNA level in every patient and thus will permit clinical correlation of the breakpoint location with prognosis.
Picosecond Optical Switching Based on Biphotonic Excitation of an Electron Donor-Acceptor-Donor Molecule (1992)

An electron donor-acceptor-donor molecule consisting of two porphyrin donors rigidly attached to the two-electron acceptor N,N'-diphenyl-3,4,9,10-perylenebis(dicarboximide) acts as a light intensity-dependent molecular switch on a picosecond time scale. Excitation of the porphyrins within this molecule with subpicosecond laser pulses results in single or double reduction of the acceptor depending on the light intensity. The singly and doubly reduced electron acceptors absorb light strongly at 713 and 546 nanometers, respectively. Because these absorption changes are produced solely by electron transfers, this molecular switch effectively has no moving parts and switches significantly faster than photochromic molecules that must undergo changes in molecular structure.
Topographic guidance of endothelial cells on silicone surfaces with micro‐ to nanogrooves: Orientation of actin filaments and focal adhesions (2005)

To mimic the uniformly elongated endothelium in natural linear vessels, bovine aortic endothelial cells (BAECs) are cultured on micro- to nanogrooved, model poly(dimethylsiloxane) (PDMS) substrates preadsorbed with about 300 ng/cm(2) of fibronectin. BAEC alignment, elongation, and projected area were investigated for channel depths of 200 nm, 500 nm, 1 microm, and 5 microm, as well as smooth surfaces. Except for the 5 microm case, the ridge and channel widths were held nearly constant about 3.5 microm. With increasing channel depth, the percentage of aligned BAECs increased by factors of 2, 2, 1.8, and 1.7 for 1, 4, 24, and 48 h. Maximum alignment, about 90%, was observed for 1 microm deep channels at 1 h. The alignment of BAECs on grooved PDMS was maintained at least until cells reached near confluence. F-actin and vinculin at focal adhesions also aligned with channel direction. Analysis of confocal microscopy images showed that focal adhesions localized at corners and along the sidewalls of 1-microm deep channels. In contrast, focal adhesions could not form on the bottom of the 5-microm deep channels. Cell proliferation was similar on grooved and smooth substrates. In summary, PDMS substrates engraved with micro- and nanochannels provide a powerful method for investigating the interplay between topography and cell/cytoskeletal alignment.
Colossal Reversible Volume Changes in Lithium Alloys (2001)

It is uncommon to consider strains in a stiff solid approaching or exceeding 100% even though some materials exhibit large volume changes during chemical reactions. We used in situ atomic force and optical microscopy to study, for the first time, the colossal volume changes that occur as lithium is electrochemically added and removed from lithium alloy films. When lithium is first added to alloy films on rigid substrates, the films expand perpendicular to the substrate. When lithium is removed, the films shrink both perpendicular and parallel to the substrates, leading to crack patterns similar to those found in dried mud. Subsequently, the formed particles expand and contract reversibly without further cracking as lithium is added and removed from the alloy. Time lapsed "movies" of this process can be found at www.physics.dal.ca/∼dahn/ECS_Letters.html © 2001 The Electrochemical Society. All rights reserved.
Characterization of two pterin derivatives isolated from Methanoculleus thermophilicum (1991)

Methanoculleus thermophilicum was shown to contain two pterin derivatives. The structures of these pterin derivatives were established from amino acid analysis, 1H-NMR and fast-atom bombardment mass spectrometry data. One of the pterins was identified as tatiopterin-O, an aspartyl derivative of methanopterin with a proton at position 7 of the pterin moiety. The other pterin, which we named thermopterin, differed in the structure of the aniline group, containing two additional hydroxyl residues. The IUPAC name of thermopterin is N-[-1'-(2"-amino-4"-hydroxy-6"-pteridinyl)ethyl]-4- [2',3',4',5'-tetrahydroxypent-1'-yl(5'----1") O-alpha-ribofuranosyl-5"-phosphoric acid]-2,5-dihydroxyaniline, in which the phosphate group is esterified with alpha-hydroxyglutarylaspartic acid.
Dynamic Scaling of Growing Interfaces (1986)

A model is proposed for the evolution of the profile of a growing interface. The deterministic growth is solved exactly, and exhibits nontrivial relaxation patterns. The stochastic version is studied by dynamic renormalization-group techniques and by mappings to Burgers's equation and to a random directed-polymer problem. The exact dynamic scaling form obtained for a one-dimensional interface is in excellent agreement with previous numerical simulations. Predictions are made for more dimensions.
Glucagon-Like Peptide-1: A Focus on Neurodegenerative Diseases (2019)

Diabetes mellitus is one of the major risk factors for cognitive dysfunction. The pathogenesis of brain impairment caused by chronic hyperglycemia is complex and includes mitochondrial dysfunction, neuroinflammation, neurotransmitters' alteration, and vascular disease, which lead to cognitive impairment, neurodegeneration, loss of synaptic plasticity, brain aging, and dementia. Glucagon-like peptide-1 (GLP-1), a gut released hormone, is attracting attention as a possible link between metabolic and brain impairment. Several studies have shown the influence of GPL-1 on neuronal functions such as thermogenesis, blood pressure control, neurogenesis, neurodegeneration, retinal repair, and energy homeostasis. Moreover, modulation of GLP-1 activity can influence amyloid β peptide aggregation in Alzheimer's disease (AD) and dopamine (DA) levels in Parkinson's disease (PD). GLP-1 receptor agonists (GLP-1RAs) showed beneficial actions on brain ischemia in animal models, such as the reduction of cerebral infarct area and the improvement of neurological deficit, acting mainly through inhibition of oxidative stress, inflammation, and apoptosis. They might also exert a beneficial effect on the cognitive impairment induced by diabetes or obesity improving learning and memory by modulating synaptic plasticity. Moreover, GLP-1RAs reduced hippocampal neurodegeneration. Besides this, there are growing evidences on neuroprotective effects of these agonists in animal models of neurodegenerative diseases, regardless of diabetes. In PD animal models, GPL-1RAs were able to protect motor activity and dopaminergic neurons whereas in AD models, they seemed to improve nearly all neuropathological features and cognitive functions. Although further clinical studies of GPL-1RAs in humans are needed, they seem to be a promising therapy for diabetes-associated cognitive decline.
Potential Benefits Of Delta Encoding and Data Compression for HTTP (Corrected Version) (1997)

Caching in the World Wide Web currently follows a naive model, which assumes that resources are referenced many times between changes. The model also provides no way to update a cache entry if a resource does change, except by transferring the resource&amp;apos;s entire new value. Several previous papers have proposed updating cache entries by transferring only the differences, or &amp;quot;delta,&amp;quot; between the cached entry and the current value. In this paper, we make use of dynamic traces of the full contents of HTTP messages to quantify the potential benefits of delta-encoded responses. We show that delta encoding can provide remarkable improvements in response size and response delay for an important subset of HTTP content types. We also show the added benefit of data compression, and that the combination of delta encoding and data compression yields the best results. We propose specific extensions to the HTTP protocol for delta encoding and data compression. These extensions are compatibl...
Investigational anabolic therapies for osteoporosis (2010)

In spite of favorable results in experimental models, none of these strategies has yet achieved the ultimate goal of providing an alternative to injectable PTH, the sole anabolic therapy in clinical use.
World Wide Web network traffic patterns (1995)

The World Wide Web (WWW) generates a significant and growing portion of traffic on the Internet. With the click of a mouse button, a person browsing on the WWW can generate megabytes of multimedia network traffic. WWW's growth and possible network impact merit a study of its traffic patterns, problems, and possible changes. This paper attempts to characterize World Wide Web traffic patterns. First, the Web's HyperText Transfer Protocol (HTTP) is reviewed, with particular attention to latency factors. User access patterns and file size distribution are then described. Next, the HTTP design issues are discussed, followed by a section on proposed revisions. Benefits and drawbacks to each of the proposals are covered. The paper ends with pointers toward more information on this area.
Endurance properties of ferroelectric PZT thin films (2002)

The fatigue behavior of sol-gel derived PZT (lead zirconate titanate) thin films was studied to determine the endurance of nonvolatile ferroelectric memories. The observed capacitance characteristics following polarization cycling are consistent with a domain pinning model. Cycling at low fields improves the endurance significantly. In addition, poling at fields above the cycling field increases the initial remanent polarization and restores the polarization lost from cycling. Both poling and low-field operation may be promising means of improving ferroelectric-memory endurance.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Immunoaffinity Purification of HTC Rat Hepatoma Cell Plasminogen Activator-Inhibitor-1 (1987)

Incubation of HTC rat hepatoma cells with the synthetic glucocorticoid dexamethasone rapidly inhibits tissue-type plasminogen activator activity by inducing a specific plasminogen activator-inhibitor (PAI-1). Using immobilized polyclonal antibodies raised against HT-1080 human fibrosarcoma PAI-1, we have purified HTC PAI-1 from serum-free medium conditioned by dexamethasone-treated HTC hepatoma cells and shown it to be antigenically related to human PAI-1. Greater than 100-fold purification with greater than 75% yield was achieved in a single step. The purified PAI-1 migrates on SDS-polyacrylamide gels as a single major band of 49 kDa with a minor band of 46 kDa. Digestion of PAI-1 with endoglycosidase F causes a shift toward faster migrating species which retain inhibitory activity. The purified PAI-1 was stable at pH 2.5, lost 50% of its activity after 15 min at 45 degrees C, and showed marked activation after treatment with SDS or guanidine-HCl. Purified PAI-1 rapidly inhibited and formed complexes with both tissue-type and urokinase-type plasminogen activators. Polyclonal rabbit antirat PAI-1 antibodies were raised which immunoprecipitate both free and complexed PAI-1.
E4ORF3 Requirement for Achieving Long-Term Transgene Expression from the Cytomegalovirus Promoter in Adenovirus Vectors (1999)

Analysis of transgene expression under the control of the cytomegalovirus (CMV) promoter from adenovirus vectors in which the E4 region was modified indicated that E4ORF3 is required for long-term expression in the murine lung. CMV promoter truncation led to the persistence of expression in the absence of E4, thus eliminating the ORF3 requirement.
Surface Functionalization of Semiconductor and Oxide Nanocrystals with Small Inorganic Oxoanions (PO43–, MoO42–) and Polyoxometalate Ligands (2014)

In this work, we study the functionalization of the nanocrystal (NC) surface with inorganic oxo ligands, which bring a new set of functionalities to all-inorganic colloidal nanomaterials. We show that simple inorganic oxoanions, such as PO4(3-) and MoO4(2-), exhibit strong binding affinity to the surface of various II-VI and III-V semiconductor and metal oxide NCs. ζ-Potential titration offered a useful tool to differentiate the binding affinities of inorganic ligands toward different NCs. Direct comparison of the binding affinity of oxo and chalcogenidometallate ligands revealed that the former ligands form a stronger bond with oxide NCs (e.g., Fe2O3, ZnO, and TiO2), while the latter prefer binding to metal chalcogenide NCs (e.g., CdSe). The binding between NCs and oxo ligands strengthens when moving from small oxoanions to polyoxometallates (POMs). We also show that small oxo ligands and POMs make it possible to tailor NC properties. For example, we observed improved stability upon Li(+)-ion intercalation into the films of Fe2O3 hollow NCs when capped with MoO4(2-) ligands. We also observed lower overpotential and enhanced exchange current density for water oxidation using Fe2O3 NCs capped with [P2Mo18O62](6-) ligands and even more so for [{Ru4O4(OH)2(H2O)4}(γ-SiW10O36)2] with POM as the capping ligand.
Differential expression of the invariant chain in mouse tumor cells: relationship to B lymphoid development. (1984)

We have examined 25 cultured lines of mouse tumor cells for synthesis of the Ii, an Ia-associated polypeptide, by using an anti-Ii monoclonal antibody. Six of the T lymphomas tested did not produce detectable levels of Ii or of surface Ia antigens. Three B lymphomas and two plasmacytomas that express surface Ia antigens were found to synthesize the Ii. In addition, Ii was immunoprecipitated from two of five Ia- pre-B lymphomas, two of four Ia- plasmacytomas, two Ia- myeloid tumors, and two fibroblast cell lines including LM(TK-). Because Ia antigens have so far been found only on cells that also synthesize Ii, we suggest that the Ii is a marker of those cells that in certain states of development or activation express Ia antigens.