gebhart/patrepeval huggingface dataset:
Controlling Rigidity and Degradation of Alginate Hydrogels via Molecular Weight Distribution (2004)

The mechanical rigidity and degradation rate of hydrogels utilized as cell transplantation vehicles have been regarded as critical factors in new tissue formation. However, conventional approaches to accelerate the degradation rate of gels deteriorate their function as a mechanical support in parallel. We hypothesized that adjusting the molecular weight distribution of polymers that are hydrolytically labile but capable of forming gels would allow one to alter the degradation rate of the gels over a broad range, while limiting the range of their elastic moduli (E). We investigated this hypothesis with binary alginate hydrogels formed from both ionically and covalently cross-linked partially oxidized (1% uronic acid residues), low [molecular weight (MW) approximately 60,000 g/mol] and high MW alginates (MW approximately 120,000 g/mol) in order to examine the utility of this approach with various cross-linking strategies. Increasing the fraction of low MW alginates to 0.50 maintained a value of E similar to that for the high MW alginate gels but led to faster degradation, irrespective of the cross-linking mode. This result was attributed to a faster separation between cross-linked domains upon chain breakages for the low MW alginates, coupled with their faster chain scission than the high MW alginates. The more rapidly degrading oxidized binary hydrogels facilitated the formation of new bone tissues from transplanted bone marrow stromal cells, as compared with the nonoxidized high MW hydrogels. The results of these studies will be useful for controlling the physical properties of a broad array of hydrogel-forming polymers.
Molecular cloning of human cathepsin G: structural similarity to mast cell and cytotoxic T lymphocyte proteinases (1987)

Human cathepsin G is a serine proteinase with chymotrypsin-like specificity found in both polymorphonuclear leukocytes (neutrophils) and the U937 leukemic cell line. Utilizing RNA from the latter, we have constructed a cDNA library in lambda gt11 and isolated a clone which apparently codes for the complete amino acid sequence of this enzyme. Analysis of the sequence reveals homology with rat mast cell proteinase II (47%) but a greater degree of identity (56%) with a product of activated mouse cytotoxic T lymphocytes. The close relationship between the three proteins indicates similarities in substrate specificity and in biosynthesis which we predict involves removal of a two amino acid activation peptide during or just before packaging into their respective storage granules.
Phase II study of daily oral perifosine in patients with advanced soft tissue sarcoma (2006)

Despite not achieving the primary objective of > or =40% 6-month progression-free survival rate, optimism remains for this agent in STS patients. Prolonged responses in heavily pretreated STS patients continue to be observed with perifosine treatment. Continued assessment of perifosine in STS appears warranted, with special attention to specific histologies or tumor characteristics that might identify a more sensitive population and achieving perifosine Css levels >6 microg/mL.
Chemical Constituents of Polygonaceous Plants. I (1963)

A glycoside, isolated from the fresh root of Polygonum cuspidatum SIEB. et ZUCC. and named polydatin, was newly examined. Its molecular formula corresponded to C20H22O8⋅3H2O and its constants were m. p. 225-226°, [α]D27 -74.9° (c=1.709, EtOH). Its hydrolysis afforded a phenol, C14H12O3, and glucose. The aglycone formed an acetate (C20H18O6), methylate (methoxide) (C17H18O3), benzoate (C35H24O6), and a dihydro derivative (C14H14O3). The ultraviolet spectra of these derivatives resembled those of stilbene derivatives. Oxidative decomposition of the methylated glycoside afforded anisic acid and the same treatment of the methylated aglycone gave anisic acid and 3, 5-dimethoxybenzoic acid. These experimental evidences indicate that the aglycone is resveratrol and the glycoside was identified as 3, 4′, 5-trihydroxystilbene-3-β-mono-D-glucoside (piceid). An anthraquinone and resveratrol were isolated from the ether-soluble portion and the latter was identified through paper partition chromatography and mixed melting point determination.
Time-gated biological imaging by use of colloidal quantum dots (2001)

The long (but not too long) fluorescence lifetime of CdSe semiconductor quantum dots was exploited to enhance fluorescence biological imaging contrast and sensitivity by time-gated detection. Significant and selective reduction of the autofluorescence contribution to the overall image was achieved, and enhancement of the signal-to-background ratio by more than an order of magnitude was demonstrated.
Use of U-500 Regular Insulin in Type 2 Diabetes (2006)

In a recent report in Diabetes Care , experience using U-500 regular insulin (U-500) in syndromic forms of insulin resistance was described (1). Due to its higher concentration, U-500 has pharmacokinetics that are believed to be similar to U-100 NPH insulin peaking later and lasting longer than U-100 regular insulin. These authors suggest that U-500 may be used in type 2 diabetic patients with severe insulin resistance who fail usual treatment (1). We report our experience using U-500 insulin in type 2 …
Metabolic Effects of Thyroid Hormone Derivatives (2008)

The processes and pathways mediating the intermediary metabolism of carbohydrates, lipids, and proteins are all affected by thyroid hormones (THs) in almost all tissues. Particular attention has been devoted by scientists to the effects of THs on lipid metabolism. Among others, effects related to cholesterol, lipid handling, and cardiac performance have been the subject of study. Many reports are present in the literature concerning the calorigenic effect of THs, with most of them aimed at identifying the molecular basis of this effect. However, at the moment the mechanism(s) underlying the metabolic effects of THs remain to be elucidated. THs exert most of their effects though TH receptors (TRs). However, some effects of THs cannot be explained by a nuclear-mediated pathway, and recently an increasing number of nonnuclear actions have been described, which can provide a regulatory system of which the effects differ from those mediated on the transcriptional level by TRs. Some of the TH derivatives (naturally occurring metabolites and analogs) possess biological activities. TH-related biological effects have been described for physiological products such as tetraiodothyroacetic acid (Tetrac) and triiodothyroacetic acid (Triac) (via oxidative deamination and decarboxylation of thyroxine [T4] and triiodothyronine [T3] alanine chain), 3,3',5'-triiodothyronine (rT3) (via T4 and T3 deiodination), 3,3'-diiodothyronine (3,3'-T2) and 3,5-diiodothyronine (T2) (via T4, T3, and rT3 deiodination), and 3-iodothyronamine (T1AM) and thyronamine (T0AM) (via T4 and T3 deiodination and amino acid decarboxylation), as well as for TH structural analogs, such as 3,5,3'-triiodothyropropionic acid (Triprop), 3,5-dibromo-3-pyridazinone-l-thyronine (L-940901), N-[3,5-dimethyl-4-(4'-hydroxy-3'-isopropylphenoxy)-phenyl]-oxamic acid (CGS 23425), 3,5-dimethyl-4[(4'-hydroxy-3'-isopropylbenzyl)-phenoxy] acetic acid (GC-1), 3,5-dichloro-4[(4-hydroxy-3-isopropylphenoxy)phenyl] acetic acid (KB-141), and 3,5-diiodothyropropionic acid (DITPA). Most of these compounds have interesting properties: counteracting lipid accumulation, reducing cholesterol level, and increasing lipid metabolism without cardiotoxic effects. Hopefully, further studies on basic mechanisms of such compounds will be harbingers of more knowledge on the metabolic effects of TH derivatives and on their possible clinical application.
Plasma Cleaning of Lands to Improve Bonding of Surface Mount Components to Printed Wiring Boards (1991)

The bonding of surface mounted components to printed wiring boards (PWBs) is critical to the high yield assembly of components to the PWB. This process is one of the last steps performed in a complicated manufacturing and assembly sequence. Poor bondability at this late stage of assembly produces costly scrap. Aggressive wet‐chemical processes may succeed in cleaning the residues from the metal bonding lands, but in the process the polymeric materials that surround the land areas may be mechanically or visually damaged. Even when processing is carefully controlled during the final formation of land areas in the conformal coating, a thin residue, often invisible to the eye, can partially or fully cover the bonding land area. The residue may be extremely thin, but it inhibits bonding and is very resistant to conventional wet‐chemical cleaning methods. Plasma chemical etching is the one chemical process which can remove the residue from the metal lands and restore bondability without damaging other surfaces of the ready‐to‐assemble PWB. This paper reports examples of plasma removed residues from PWB surface mount bonding lands. The land areas are defined in photodefinable conformal coatings by conventional photolithographic techniques and have a non‐visible surface residue which inhibits the subsequent plating or soldering of the copper land. Auger analyses of the copper land surfaces prior to plasma processing show significant carbon peaks indicative of a polymeric residue. Auger analyses of the copper land surfaces following plasma processing show that the strong carbon peaks are gone.
Human hst-2 (FGF-6) oncogene: cDNA cloning and characterization. (1992)

The hst-2 gene was previously identified by its close homology to the hst-1 gene. Cosmid clones containing the hst-2 gene were cloned from a normal human genomic library. Focus-forming activity was observed for the hst-2 cosmids when NIH3T3 transfection assay was performed in a serum-free medium, whereas induction of morphological transformation was difficult to detect in an ordinary serum-supplemented medium. The hst-2 cDNA was cloned from the NIH3T3 transformant. Nucleotide sequence analysis of the cDNA indicates that the hst-2 gene encodes a 198 amino acid transforming protein containing a signal peptide with the characteristics of a heparin-binding growth factor. The coding sequence was almost identical to the published portion of the exon sequence of the FGF-6 gene, indicating that hst-2 is identical to FGF-6. The hst-2 cDNA fragment, when inserted into an expression vector, was able to transform NIH3T3 cells effectively, and the resulting transformant formed a well-vascularized tumor in nude mice, thus suggesting an angiogenic property similar to some other members of the family. RNA blot analysis revealed the expression of the hst-2 gene in human leukemia cell lines with platelet/megakaryocytic differentiation potential.
The Impact of Expansive Arterial Remodeling on Clinical Presentation in Carotid Artery Disease: A Multidetector CT Angiography Study (2007)

In this series of subjects with significant internal carotid artery stenosis, expansive carotid remodeling was significantly greater in patients with cerebral ischemic symptoms than in asymptomatic patients. The extent of expansive remodeling may indicate underlying atherosclerotic plaque vulnerability. MDCT has a role in the evaluation of carotid artery disease beyond examining luminal stenosis.
QUESTION ANSWERING USING QUESTION CLASSIFICATION AND DOCUMENT TAGGING (2009)

Question answering (QA) is a relatively new area of research. We took the approach of designing a question answering system that is based on question classification and document tagging. Question classification extracts useful information from the question about how to answer the question. Document tagging extracts useful information from the documents, which are used to find the answer to the question. We used different available systems to tag the documents. Our system classifies the questions using manually developed rules. An evaluation of the system is performed using Text REtrieval Conference (TREC) data.
Evaporation-Controlled Self-Assembly of Silica Surfactant Mesophases (2003)

Surfactant templated silica mesophases belong to the class of self-assembled materials that exhibit long range ordered two-dimensional (2D) hexagonal, three-dimensional (3D) hexagonal, or 3D cubic mesostructures when the composition of the initial deposited solution and its aging time have been optimized. Thin films of such mesophases with a thickness typically less than 300 nm are now routinely obtained by dip coating. In this study a reference solution was used with a chemical composition leading to the formation of thin films with a 3D hexagonal (P63/mmc) mesostructure by dip coating. Thick films (about 10 μm thick) were alternatively prepared by a evaporation-controlled self-assembly (ECSA) process and studied with grazing incidence small-angle X-ray scattering (GISAXS). In the ECSA process, the mesostructure was developed under slower evaporation conditions than for dip-coated films by finely tuning the ethanol/H2O evaporation rate of the reference solution horizontally deposited on a silicon wafer. It is shown that the evaporation rate of the solvent is one of the key parameters that control the final mesostructure and can, under certain conditions, promote the formation of the cubic mesophase. The ability to precisely control such a structural arrangement on the mesoscale is of major interest for making sensor arrays, nanoreactors, photonic and fluidic devices, and low dielectric constant films.
Identification and tissue-specific expression of PDE7 phosphodiesterase splice variants (1996)

Type 7 cyclic nucleotide phosphodiesterases (PDE7s) are a newly described family of enzymes having high affinity and specificity for cAMP. However, little is known about their structure, function, or regulation. We have isolated a mouse skeletal muscle cDNA representing a new alternative splice variant (PDE7A2) of the PDE7 gene. The ORF encodes a 456-amino acid protein having a predicted molecular weight of 52.4 kDa. The 5' end of the mouse PDE7A2 is divergent from the 5' end of the human PDE7A1 sequence and is more hydrophobic. A comparison of the 5' ends of the two cDNA clones with human genomic sequence indicates that they represent alternate splice products rather than species variation. RNase protection analysis of several mouse tissues indicates that PDE7 is expressed widely with highest levels in skeletal muscle. HPLC fractionation and Western blot analysis of two human lymphocyte T-cell lines shows that an unknown PDE activity described by Ichimura and Kase [Ichimura, M. & Kase, H. (1993) Biochem. Biophys. Res. Commun. 193, 985-990] is most likely to be PDE7A1. A single immunoreactive band of approximately 55 kDa, which comigrates with PDE7A1, is seen in fractions of the HPLC profile containing this activity suggesting that the original human PDE7A1 clone contains a full-length ORF, and is not truncated at the 5' end as was originally postulated. In a human lymphocyte B-cell line and also in mouse skeletal muscle, a large amount of PDE7 mRNA but little PDE7 protein or activity is expressed suggesting that the translation or stability of PDE7 protein may be highly regulated in these tissues.
Aqueous pores created in thin lipid membranes by the antibiotics nystatin, amphotericin B and gramicidin A: implications for pores in plasma membranes (1973)

Since the days of Bärlund and Collander (see Collander, 1937), physiologists have suggested that ions, water, and small hydrophilic non-electrolytes cross the lipoidal plasma membrane through polar pores or channels.’ Recent work with model membranes has established that indeed unmodified lipid bilayers are so poorly permeable to polar non-electrolytes and especially to small ions that these species require parallel pathways via either carriers or pores for significant transport (Mueller & Rudin, 1969). On the other hand, water permeability coefficients of unmodified lipid bilayers span almost the entire range of values reported for plasma membranes, making it unnecessary to invoke aqueous pores in explanation of large water permeabilities of some cells. In point of fact, however, the assumption that water crosses plasma membranes through aqueous pores depends less on the magnitude of the water permeability than on two other factors: first, the significant differences between the osmotic permeability coefficient (Pf) and the tagged water permeability coefficient (Pd) (for example, Prescott & Zeuthen, 1953; Nevis, 1958) and secondly, the occurrence of water—solute interaction during osmosis (for example, Koefoed-Johnsen & Ussing, 1953; Goldstein & Solomon, 1960). These two findings, however, have been challenged as artifactual, because of the presence of unstirred aqueous layers in the experiments (Dainty, 1963).
Heterogeneous fluoroimmunoassay (1991)

This chapter deals with heterogeneous fluoroimmunoassays — defined as techniques utilising antigen or antibody labelled with a fluorophore and requiring separation of bound from free tracer before fluorescence measurement. These methods can be subdivided into limited reagent immunoassay systems (fluoroimmunoassay ‘FIA’) and excess reagent immunometric methods (immunofluorometric assay ‘IFMA’) by analogy with the terms radioimmunoassay (‘RIA’) and immunoradiometric assay (‘IRMA’).
Human endogenous retroviruses: from infectious elements to human genes (2005)

Mammalian genomes contain a heavy load (42% in humans) of retroelements, which are mobile sequences requiring reverse transcription for their replicative transposition. A significant proportion of these elements is of retroviral origin, with thousands of sequences resembling the integrated form of infectious retroviruses, with two LTRs bordering internal regions homologous to the gag, prt, pol, and env genes. These elements, named endogenous retroviruses (ERVs), are most probably the proviral remnants of ancestral germ-line infections by active retroviruses, which have thereafter been transmitted in a Mendelian manner. The complete sequencing of the human genome now allows a comprehensive survey of human ERVs (HERVs), which can be grouped according to sequence homologies into approximately 80 distinct families, each containing a few to several hundred elements. As reviewed here, strong similarities between HERVs and present-day retroviruses can be inferred from phylogenetic analyses on the reverse transcriptase (RT) domain of the pol gene or the transmembrane subunit (TM) of the env gene, which disclose interspersion of both classes of elements and suggest a common history and shared ancestors. Similarities are also observed at the functional levels, since despite the fact that most HERVs have accumulated mutations, deletions, and/or truncations, several elements still possess some of the functions of retroviruses, with evidence for viral-like particle formation, and occurrence of envelope proteins allowing cell-cell fusion and even conferring infectivity to pseudotypes. Along this line, a genomewide screening for human retroviral genes with coding capacity has revealed 16 fully coding envelope genes. These genes are transcribed in several healthy tissues including the placenta, three of them at a very high level. Besides their impact in modelling the genome, HERVs thus appear to contain still active genes, which most probably have been subverted by the host for its benefit and should be considered as bona fide human genes. Some of their characteristic features and possible physiological roles, as well as potential pathological effects inherited from their retroviral ancestors are also reviewed.
LexRank: Graph-based Centrality as Salience in Text Summarization (2004)

We introduce a stochastic graph-based method for computing relative importance of textual units for Natural Language Processing. We test the technique on the problem of Text Summarization (TS). Extractive TS relies on the concept of sentence salience to identify the most important sentences in a document or set of documents. Salience is typically defined in terms of the presence of particular important words or in terms of similarity to a centroid pseudo-sentence. We consider a new approach, LexRank, for computing sentence importance based on the concept of eigenvector centrality in a graph representation of sentences. In this model, a connectivity matrix based on intra-sentence cosine similarity is used as the adjacency matrix of the graph representation of sentences. Our system, based on LexRank ranked in first place in more than one task in the recent DUC 2004 evaluation. In this paper we present a detailed analysis of our approach and apply it to a larger data set including data from earlier DUC evaluations. We discuss several methods to compute centrality using the similarity graph. The results show that degree-based methods (including LexRank) outperform both centroid-based methods and other systems participating in DUC in most of the cases. Furthermore, the LexRank with threshold method outperforms the other degree-based techniques including continuous LexRank. We also show that our approach is quite insensitive to the noise in the data that may result from an imperfect topical clustering of documents.
Carcinoma associated mucins: molecular biology and clinical applications. (1994)

Mucin is a viscous secretion of glycoproteins secreted by epithelial cells of normal and cancerous tissues. Excessive and abnormal mucin synthesis has been observed in a number of cancers. The conformation and configuration of the surface carbohydrates play a key role in generating multiple forms of mucins in different cancers. The epitopes on the surface of mucin are recognized by antibodies present in different cancer cells. The primary structure of some of the cancer-associated mucins has been determined by molecular cloning of their complementary DNAs. The detection methods for cancer-associated mucins and their clinical applications are discussed.
MEMS-based photonic switching in communications networks (2002)

All optical or photonic switching is key to the next-generation intelligent optical networks. It enables rapid dynamic provisioning, protection and restoration of network connections cost-effectively, which support revenue-generating services including bandwidth on demand and DWDM over IP. In the past 12 months, MEMS-based photonic cross connect switches have gone from the lab to commercial availability and are now in carrier field trials. Photonic switching is inherently capable of transparently. switching any bit rate and data format. Optical MEMS enables switching any transmission wavelength, or wavelength band in a scalable, reliable, low power, compact size providing flexible solutions to the bandwidth demands of long haul, metro, and access networks. This paper will discuss MEMS based photonic switching subsystems and their commercial deployment.
Botulinum toxin type F for treatment of dystonia (1998)

The authors analyzed retrospectively the results of open-labeled botulinum toxin type F (BTXF) treatment for 1 year or longer in 18 BTXA-resistant patients. All patients except one primary nonresponder to BTXA improved initially with BTXF. Most patients continued to respond to BTXF for 1 year or longer, but four patients became resistant to BTXF. BTXF-resistant patients received a higher dose per treatment and a higher cumulative dose than BTXF-responsive patients. BTXF can be used for long-term treatment of dystonia. It seems prudent to limit BTX doses of all serotypes to the lowest necessary for clinical efficacy.