gebhart/patrepeval huggingface dataset:
Oral Budesonide for Active Crohn's Disease (1994)

In an eight-week trial, an oral controlled-release preparation of budesonide at an optimal daily dose of 9 mg was well tolerated and effective against active Crohn's disease of the ileum and proximal colon.
Interaction of food packaging material and selected food components under high pressure (1994)

Abstract Interactions between ethanolic solutions of p-cymene and acetophenone and different polymer packaging materials. were studied at 500 MPa and 25° C. p-Cymene solution, filled into low-density polyethylene bags, lost 30% of its aroma concentration after 24 h at 500 MPa compared to a 60% loss at atmospheric pressure. The decrease was strongest within the first 15 min. Using LDPE/HDPE/LDPE bags, losses were 20% and 30%, resp. Applying the “bag in the bag” method, p-cymene concentrations measured inside and outside the inner bag has shown sorption by the pressurized film to be one third of that by the non-pressurized. In PET/AI/LDPE bags impermeable to p-cymene, sorption was confined to the inner LDPE layer and caused higher loss in the non-pressurized sample. Acetophenone has not been found to interact with the polymer during pressure treatment, while at atmospheric pressure sorption loss in aroma concentration was nearly 70% after 60 h.
The Effect of Local Subcutaneous Delivery of Vascular Endothelial Growth Factor on the Function of a Chronically Implanted Amperometric Glucose Sensor (2004)

The foreign body capsule that forms around implanted devices such as glucose sensors is hypovascular and has limited permeability to glucose. Such a capsule may function better if well vascularized. We hypothesized that capsular vascularization achieved by local release of vascular endothelial growth factor (VEGF) would lead to enhanced function. Amperometric glucose sensor array disks, each with four indicating electrodes, were implanted into rats. Animals received local subcutaneous infusions of VEGF(165) via osmotic pumps at a location on the sensor face 2 mm from one of the electrodes ("near units"). "Intermediate" electrode units were 15 mm, and "distant" units were 22 mm, from the VEGF source. Every 2 weeks, a glucose infusion was given to assess sensor function by telemetry. Near units demonstrated a lower lag duration (delay after blood glucose) than intermediate and distant units. The mean absolute relative difference for near units was less than for distant units. The percentage of data pairs in the A region of the Clarke error grid of the near sensing units was greater than that of the distant units. Values for the functional measures for saline controls fell between near and distant VEGF values. Glucose sensor function was found to be more favorable in units immediately adjacent to the VEGF infusion port. The most likely cause for this finding is increased neovessel growth in the surrounding foreign body capsule. Slow release of angiogenic growth factors may be a potential method for chronically enhancing the function of a subcutaneously implanted biosensor.
Activation of the phosphoenolpyruvate carboxykinase gene retinoic acid response element is dependent on a retinoic acid receptor/coregulator complex. (1992)

The accessory factor 1 (AF1) element is an upstream transcriptional control region that plays a role in the response of the phosphoenolpyruvate carboxykinase (PEPCK) gene to both glucocorticoids and retinoic acid. We demonstrate here that retinoic acid receptor alpha (RAR alpha) binds to a sequence within the AF1 element, TGACCT (site B), that is a consensus retinoic acid response element (RARE) half-site. A similar DNA sequence, TGGCCG (site C), located 1 bp downstream of site B, is not involved in the binding of RAR alpha monomers or dimers but is required for the constitution of a functional RARE. Site C is also required for the formation of a complex involving RAR alpha and a liver nuclear factor designated CR, for coregulator. Mutational analysis of the AF1 element shows that the RAR alpha/CR complex is the trans-acting unit that mediates the retinoic acid response of the PEPCK gene. Another member of the retinoid receptor family, retinoid X receptor alpha (RXR alpha), can also form a complex with RAR alpha and the AF1 element. Several observations, including the observation that RXR alpha antibody interacts with CR, indicate that RXR alpha and CR are identical or closely related proteins. Through RXR alpha forms a complex with RAR alpha and the AF1 element, we demonstrate that the AF1 element is functionally distinguishable from a retinoid X response element. Taken together, our results show that the AF1 element contains an RARE that mediates a retinoic acid response by binding an RAR alpha/coregulator complex; this coregulator is presumably RXR alpha.
Identification of individual human immunodeficiency virus type 1 gp120 amino acids important for CD4 receptor binding (1990)

The binding of the CD4 receptor by the human immunodeficiency virus type 1 gp120 exterior envelope glycoprotein is important for virus entry and cytopathic effect. To investigate the CD4-binding region of the gp120 glycoprotein, we altered gp120 amino acids, excluding cysteines, that are conserved among the primate immunodeficiency viruses utilizing the CD4 receptor. Changes in two hydrophobic regions (Thr-257 in conserved region 2 and Trp-427 in conserved region 4) and two hydrophilic regions (Asp-368 and Glu-370 in conserved region 3 and Asp-457 in conserved region 4) resulted in significant reductions in CD4 binding. For most of the mutations affecting these residues, the observed effects on CD4 binding did not apparently result from global conformational disruption of the gp120 molecule, as assessed by measurements of precursor processing, subunit association, and monoclonal antibody recognition. The two hydrophilic regions exhibit a strong propensity for beta-turn formation, are predicted to act as efficient B-cell epitopes, and are located adjacent to hypervariable, glycosylated regions. This study defines a small number of gp120 residues important for CD4 binding, some of which might constitute attractive targets for immunologic intervention.
Improved Thermoelectric Behavior of Nanotube-Filled Polymer Composites with Poly(3,4-ethylenedioxythiophene) Poly(styrenesulfonate) (2009)

The thermoelectric properties of carbon nanotube (CNT)-filled polymer composites can be enhanced by modifying junctions between CNTs using poly(3,4-ethylenedioxythiophene) poly(styrenesulfonate) (PEDOT:PSS), yielding high electrical conductivities (up to approximately 40000 S/m) without significantly altering thermopower (or Seebeck coefficient). This is because PEDOT:PSS particles are decorated on the surface of CNTs, electrically connecting junctions between CNTs. On the other hand, thermal transport remains comparable to typical polymeric materials due to the dissimilar bonding and vibrational spectra between CNT and PEDOT:PSS. This behavior is very different from that of typical semiconductors whose thermoelectric properties are strongly correlated. The decoupled thermoelectric properties, which is ideal for developing better thermoelectric materials, are believed to be due to thermally disconnected and electrically connected contact junctions between CNTs. Carrier transport at the junction is found to be strongly dependent on the type and concentration of stabilizers. The crucial role of stabilizers was revealed by characterizing transport characteristics of composites synthesized by electrically conducting PEDOT:PSS and insulating gum Arabic (GA) with 1:1-1:4 weight ratios of CNT to stabilizers. The influence of composite synthesis temperature and CNT-type and concentration on thermoelectric properties has also been studied. Single-walled (SW) CNT-filled composites dried at room temperature followed by 80 degrees C exhibited the best thermoelectric performance in this study. The highest thermoelectric figure of merit (ZT) in this study is estimated to be approximately 0.02 at room temperature, which is at least one order of magnitude higher than most polymers and higher than that of bulk Si. Further studies with various polymers and nanoparticles with high thermoelectric performance may result in economical, lightweight, and efficient polymer thermoelectric materials.
The cell-specific transcription factor PTF1 contains two different subunits that interact with the DNA. (1989)

The cognate sequence of transcription factor PTF1, which plays a key role in pancreas-specific gene expression, has a bipartite organization. Two separate DNA domains, the A and the B boxes, are required for efficient binding of the factor. The structure of PTF1 was elucidated by cross-linking purified PTF1 to DNA templates that had been differentially substituted with azido-deoxyuridine (N3.dU). This site-directed UV cross-linking shows that PTF1 contains two DNA-binding proteins, distinct in size and sensitivity to Staphylococcus aureus V8 protease. A 64-kD protein is cross-linked with DNA containing N3.dU substitutions in the A box, and a 48-kD protein is cross-linked with DNA containing N3.dU substitutions in the B box. Both proteins bind simultaneously to the same DNA molecule. The data indicate that PTF1 is a heteromeric oligomer and that its cell-specific DNA-binding potential is the result of a concerted activity of two DNA-binding subunits.
Ductal carcinoma in situ of the breast. Histologic categorization and its relationship to ploidy and immunohistochemical expression of hormone receptors, p53, and c-erbB-2 protein (1995)

These results provide further evidence for the morphologic and biologic heterogeneity of DCIS. Besides histologic classification and nuclear grading, some biologic markers such as aneuploidy and c-erbB-2 expression constitute additional criteria of high grade of malignancy.
Therapeutic electrical stimulation of injured peripheral nerve tissue using implantable thin-film wireless nerve stimulators (2018)

OBJECTIVE Electrical stimulation of peripheral nerve tissue has been shown to accelerate axonal regeneration. Yet existing methods of applying electrical stimulation to injured peripheral nerves have presented significant barriers to clinical translation. In this study, the authors examined the use of a novel implantable wireless nerve stimulator capable of simultaneously delivering therapeutic electrical stimulation of injured peripheral nerve tissue and providing postoperative serial assessment of functional recovery. METHODS Flexible wireless stimulators were fabricated and implanted into Lewis rats. Thin-film implants were used to deliver brief electrical stimulation (1 hour, 20 Hz) to sciatic nerves after nerve crush or nerve transection-and-repair injuries. RESULTS Electrical stimulation of injured nerves via implanted wireless stimulators significantly improved functional recovery. Brief electrical stimulation was observed to increase the rate of functional recovery after both nerve crush and nerve transection-and-repair injuries. Wireless stimulators successfully facilitated therapeutic stimulation of peripheral nerve tissue and serial assessment of nerve recovery. CONCLUSIONS Implantable wireless stimulators can deliver therapeutic electrical stimulation to injured peripheral nerve tissue. Implantable wireless nerve stimulators might represent a novel means of facilitating therapeutic electrical stimulation in both intraoperative and postoperative settings.
Structural Features of Azidopyridinyl Neonicotinoid Probes Conferring High Affinity and Selectivity for Mammalian α4β2 andDrosophilaNicotinic Receptors (2002)

The higher toxicity of neonicotinoid insecticides such as N-(6-chloropyridin-3-ylmethyl)-2-nitroiminoimidazolidine (imidacloprid) to insects than mammals is due in large part to target site specificity at the corresponding nicotinic acetylcholine receptors (nAChRs). We propose that neonicotinoids with a protonated N-unsubstituted imine or equivalent substituent recognize the anionic subsite of the mammalian alpha4beta2 nAChR whereas the negatively charged (delta(-)) tip of the neonicotinoid insecticides interacts with a putative cationic subsite of the insect nAChR. This hypothesis can be tested by using two photoaffinity probes that differ only in the N-unsubstituted imine vs negatively charged (delta(-)) tip. Synthesis methodology was developed for compounds combining three moieties: pyridin-3-ylmethyl or 6-chloropyridin-3-ylmethyl and their 4- and 5-azido analogues; imidazolidine, 4-imidazoline or 4-thiazoline; and N-unsubstituted imine, nitroimine, cyanoimine, or nitromethylene. Structure-activity studies compared displacement of [(3)H]nicotine binding in mammalian alpha4beta2 nAChR and [(3)H]imidacloprid binding in Drosophila nAChR. Preferred compounds are N-(5-azido-6-chloropyridin-3-ylmethyl) with 2-iminothiazoline for alpha4beta2 (K(i) = 0.47 nM) and with 2-nitroiminothiazoline or 2-nitromethyleneimidazolidine for Drosophila (K(i) = 0.72-3.9 nM).
Synthesis and activity of a novel diether phosphonoglycerol in phospholipase-resistant synthetic lipid:peptide lung surfactants (2011)

This paper reports the chemical synthesis and purification of a novel phospholipase-resistant C16:0, C16:1 diether phosphonoglycerol with structural analogy to ester-linked anionic phosphatidylglycerol (PG) in endogenous pulmonary surfactant. This diether phosphonoglycerol (PG 1) is studied for phospholipase A(2) (PLA(2)) resistance and for surface activity in synthetic exogenous surfactants combined with Super Mini-B (S-MB) peptide and DEPN-8, a previously-reported diether phosphonolipid analog of dipalmitoyl phosphatidylcholine (DPPC, the major zwitterionic phospholipid in native lung surfactant). Activity experiments measured both adsorption and dynamic surface tension lowering due to the known importance of these surface behaviors in lung surfactant function in vivo. Synthetic surfactants containing 9 : 1 DEPN-8:PG 1 + 3% S-MB were resistant to degradation by PLA(2) in chromatographic studies, while calf lung surfactant extract (CLSE, the substance of the bovine clinical surfactant Infasurf®) was significantly degraded by PLA(2). The 9 : 1 DEPN-8:PG 1 + 3% S-MB mixture also had small but consistent increases in both adsorption and dynamic surface tension lowering ability compared to DEPN-8 + 3% S-MB. Consistent with these surface activity increases, molecular dynamics simulations using Protein Modeller, GROMACS force-field, and PyMOL showed that bilayers containing DPPC and palmitoyl-oleoyl-PC (POPC) as surrogates of DEPN-8 and PG 1 were penetrated to a greater extent by S-MB peptide than bilayers of DPPC alone. These results suggest that PG 1 or related anionic phosphono-PG analogs may have functional utility in phospholipase-resistant synthetic surfactants targeting forms of acute pulmonary injury where endogenous surfactant becomes dysfunctional due to phospholipase activity in the innate inflammatory response.
High-efficiency electrodeposited cadmium telluride solar cells (1982)

We report on the development of a low-cost, thin-film electrodeposited cadmium telluride solar cell. The most efficient cell developed to date had an efficiency of 8.6% (under AM1 illumination), an open circuit voltage of 0.723 V, a short circuit current density of 18.7 mA/cm2, and a fill factor of 0.64. The cell uses a Schottky barrier rectifying junction at the front surface and a cadmium ohmic contact at the back. Passivation of the top surface improves the photovoltaic properties of the rectifying junction.
Mechanism and use of the commercially available viability stain, BacLight (2004)

The mechanism is a combination of displacement of SYTO9 by PI and quenching of SYTO9 emissions by fluorescence resonance energy transfer. Confusing results can occur if the relative intensities of the stains or the concentration of PI relative to nucleic acid are not properly accounted for.
Tumor Targeting via Integrin Ligands (2013)

Selective and targeted delivery of drugs to tumors is a major challenge for an effective cancer therapy and also to overcome the side-effects associated with current treatments. Overexpression of various receptors on tumor cells is a characteristic structural and biochemical aspect of tumors and distinguishes them from physiologically normal cells. This abnormal feature is therefore suitable for selectively directing anticancer molecules to tumors by using ligands that can preferentially recognize such receptors. Several subtypes of integrin receptors that are crucial for cell adhesion, cell signaling, cell viability, and motility have been shown to have an upregulated expression on cancer cells. Thus, ligands that recognize specific integrin subtypes represent excellent candidates to be conjugated to drugs or drug carrier systems and be targeted to tumors. In this regard, integrins recognizing the RGD cell adhesive sequence have been extensively targeted for tumor-specific drug delivery. Here we review key recent examples on the presentation of RGD-based integrin ligands by means of distinct drug-delivery systems, and discuss the prospects of such therapies to specifically target tumor cells.
Decision Forests with Long-Range Spatial Context for Organ Localization in CT Volumes (2009)

This paper introduces a new, efficient, probabilistic algorithm for the automatic analysis of 3D medical images. Given an input CT volume our algorithm automatically detects and localizes the anatomical structures within, accurately and efficiently. Our technique builds upon randomized decision forests, which are enjoying much success in the machine learning and computer vision communities. Decision forests are enriched here with learned visual features which capture long-range spatial context. In this paper we focus on the detection of human organs, but our general-purpose classifier might be trained instead to detect anomalies. Applications include (and are not limited to) efficient visualization and navigation through 3D medical scans. The output of our algorithm is probabilistic thus enabling the modeling of uncertainty as well as fusion of multiple sources of information (e.g. multiple modalities). The high level of generalization offered by decision forests yields accurate posterior probabilities for the localization of the structures of interest. High computational efficiency is achieved thanks both to the massive level of parallelism of the classifier as well as the use of integral volumes for feature extraction. The validity of our method is assessed quantitatively on a ground-truth database which has been sanitized by medical experts.
Introduction of Tomato Yellow Leaf Curl Virus in Florida and Implications for the Spread of This and Other Geminiviruses of Tomato (1999)

In July 1997, symptoms characteristic of tomato yellow leaf curl virus (TYLCV-Is) were observed on one tomato plant in a field in Collier County, Florida, and on several tomato plants in a retail garden center in Sarasota, Florida. Amplification with three sets of primers, analysis of amplified fragments using restriction enzyme digestion, and hybridization with a clone of TYLCV-Is indicated that TYLCV-Is was present in symptomatic plants. The sequence of a 1,300-bp amplified fragment was 99% identical to TYLCV-Is from the Dominican Republic and 98% identical to an isolate from Israel. It appears that TYLCV-Is entered the United States in Dade County, Florida, in late 1996 or early 1997. Subsequently, infected tomato transplants produced for retail sale at two Dade County facilities were rapidly distributed via retail garden centers throughout the state. Infected plants purchased by homeowners and placed in and around homes appeared to be the source of TYLCV-Is for nearby commercial nurseries and production fields. It appears that transplants have played a role in the movement of this and probably other geminiviruses. A number of regulatory procedures, as well as field management practices, were implemented in the 1997-98 production season to minimize the movement of TYLCV-Is within and out of the state.
Low temperature regulation of theArabidopsisCBF family of AP2 transcriptional activators as an early step in cold‐inducedCORgene expression (1998)

Cold-induced expression of the Arabidopsis COR (cold-regulated) genes is mediated by a DNA regulatory element termed the CRT (C-repeat)/DRE (dehydration-responsive element). Recently, we identified a transcriptional activator, CBF1, that binds to the CRT/DRE and demonstrated that its overexpression in transgenic Arabidopsis plants at non-acclimating temperatures induces COR gene expression and increases plant freezing tolerance. Here we report that CBF1 belongs to a small family of closely related proteins which includes CBF2 and CBF3. DNA sequencing of an 8.7 kb region of the Arabidopsis genome along with genetic mapping experiments indicated that the three CBF genes are organized in direct repeat on chromosome 4 at 72.8 cM, closely linked to molecular markers PG11 and m600. Like CBF1, both CBF2 and CBF3 activated expression of reporter genes in yeast that contained the CRT/DRE as an upstream activator sequence. The transcript levels for all three CBF genes increased within 15 min of transferring plants to low temperature, followed by accumulation of COR gene transcripts at about 2 h. CBF transcripts also accumulated rapidly in response to mechanical agitation. The promoter regions of the CBF genes do not contain the CRT sequence, CCGAC, and overexpression of CBF1 did not have a detectable effect on CBF3 transcript levels, suggesting that the CBF gene family is not subject to autoregulation. We propose that cold-induced expression of CRT/DRE-containing COR genes involves a low temperature-stimulated signalling cascade in which CBF gene induction is an early event.
Absolute distance measurement by dispersive interferometry using a femtosecond pulse laser (2006)

We describe an interferometric method that enables to measure the optical path delay between two consecutive femtosecond laser pulses by way of dispersive interferometry. This method allows a femtosecond laser to be utilized as a source of performing absolute distance measurements to unprecedented precision over extensive ranges. Our test result demonstrates a non-ambiguity range of ~1.46 mm with a resolution of 7 nm over a maximum distance reaching ~0.89 m.
Enhancing byte-level network intrusion detection signatures with context (2003)

Many network intrusion detection systems (NIDS) use byte sequences as signatures to detect malicious activity. While being highly efficient, they tend to suffer from a high false-positive rate. We develop the concept of contextual signatures as an improvement of string-based signature-matching. Rather than matching fixed strings in isolation, we augment the matching process with additional context. When designing an efficient signature engine for the NIDS bro, we provide low-level context by using regular expressions for matching, and high-level context by taking advantage of the semantic information made available by bro's protocol analysis and scripting language. Therewith, we greatly enhance the signature's expressiveness and hence the ability to reduce false positives. We present several examples such as matching requests with replies, using knowledge of the environment, defining dependencies between signatures to model step-wise attacks, and recognizing exploit scans.To leverage existing efforts, we convert the comprehensive signature set of the popular freeware NIDS snort into bro's language. While this does not provide us with improved signatures by itself, we reap an established base to build upon. Consequently, we evaluate our work by comparing to snort, discussing in the process several general problems of comparing different NIDSs.