gebhart/patrepeval huggingface dataset:
Production of Bovine Embryos and Calves Cloned by Nuclear Transfer Using Mesenchymal Stem Cells from Amniotic Fluid and Adipose Tissue (2016)

The less differentiated the donor cells are used in nuclear transfer (NT), the more easily are they reprogrammed by the recipient cytoplasm. In this context, mesenchymal stem cells (MSCs) appear as an alternative to donor nuclei for NT. The amniotic fluid and adipose tissue are sources of MSCs that have not been tested for the production of cloned embryos in cattle. The objective of this study was to isolate, characterize, and use MSCs derived from amniotic fluid (MSC-AF) and adipose tissue (MSC-AT) to produce cloned calves. Isolation of MSC-AF was performed using in vivo ultrasound-guided transvaginal amniocentesis, and MSC-AT were isolated by explant culture. Cellular phenotypic and genotypic characterization by flow cytometry, immunohistochemistry, and RT-PCR were performed, as well as induction in different cell lineages. The NT was performed using MSC-AF and MSC-AT as nuclear donors. The mesenchymal markers of MSC were expressed in bovine MSC-AF and MSC-AT cultures, as evidenced by flow cytometry, immunohistochemistry, and RT-PCR. When induced, these cells differentiated into osteocytes, chondrocytes, and adipocytes. Embryo production was similar between the cell types, and two calves were born. The calf from MSC-AT was born healthy, and this fact opens a new possibility of using this type of cell to produce cloned cattle by NT.
A novel coefficient scanning scheme for directional spatial prediction-based image compression (2003)

Spatial prediction is a promising technique for image coding. For example, the coming AVC/H.264 standard adopts directional spatial prediction in the intra frame coding. Similar to the traditional DCT-based image coding schemes, it still scan the transform coefficients in a zigzag order, which is inefficient for coding the residual signals predicted from the different directions. To tackle this problem, a new scheme of scanning the transform coefficients by utilizing the spatial prediction information is proposed in this paper. The distribution of transform coefficients from each direction of spatial predictions is fully studied. According to the statistics, the adaptive scan table is derived for each type of spatial predictions, which is indicated by the prediction mode. Experimental results demonstrate that the proposed scheme can always outperform the JVT codec using zigzag scanning. Moreover, it does not introduce any extra computing costs in software implementation.
A polymeric drug for treatment of inflammatory bowel disease (1983)

Sulfasalazine (SASP) consists of salicylic acid azo linked at the 5-position to a pyridine-containing sulfonamide. This drug, currently used in inflammatory bowel disease treatment, is reductively cleaved by anaerobic bacteria in the lower bowel to 5-aminosalicylic acid (5-ASA) and sulfapyridine (SP). Recent reports indicate that 5-ASA is the active therapeutic moiety and that SP is responsible for a variety of adverse clinical side effects. Water-soluble polymer 7, which contains salicylate residues azo linked at the 5-position to an inert polymer backbone, has been synthesized for the site-specific reductive release of 5-ASA in the lower bowel. Preparations of 7 deliver (chemical reduction) greater than 1.96 mmol of 5-ASA/g of polymer. In vitro studies with the polymer in anaerobic rat cecal bacteria demonstrated a reduction rate of approximately 1 mu equiv of azo bond h-1 (mL of cecal content)-1. A pharmacokinetic comparison of polymer and SASP showed similar deliveries of 5-ASA and metabolites to the lower bowel, blood, and urine of orally dosed rats. Polymer 7 proved more active than SASP or 5-ASA in the guinea pig ulcerative colitis model. Potential therapeutic advantages of 7 include nonabsorption/nonmetabolism in the small intestine, direct 5-ASA release at the disease site, and nonabsorption/nonmetabolism of the reduction-released carrier polymer.
Liposomal Drug Delivery Systems for Cancer Therapy (2004)

Liposomes are currently one of the most well-studied drug delivery systems used in the treatment of cancer. They are being employed in the treatment of a wide variety of human malignancies (1–4). Their large size relative to the gaps in the vasculature of healthy tissues inhibits their uptake by these tissues, thus avoiding certain nonspecific toxicities. However, the “leaky” microvasculature supporting solid tumors allows for the uptake of these large (~ 100 nm) drug carriers (5–8) and their subsequent interaction with cancer cells (9), or release of the encapsulated drug specifically near the tumor, where it can diffuse into the tumor in its free form (10,11). Liposomes have many other potential advantages over the corresponding free drugs, including favorable pharmacokinetic properties, where encapsulation of a usually rapidly cleared drug results in a considerable increase in the circulation lifetime for the drug (12–14). In addition, encapsulation or complexation of a normally labile therapeutic agent, such as DNA, antisense oligonucleotides, or the lactone ring of camptothecins, can protect the agent from premature degradation by enzymes in the plasma or from simple hydrolysis. The result of liposome formulation can thus be a substantial increase in antitumor efficacy when compared to the free drug or standard chemotherapy regimens (15–17).
Patient Satisfaction With Expanded Polytetrafluoroethylene (Softform) Implants to the Perioral Region (2003)

With proper patient selection, Softform represents a potential option for those individuals considering perioral enhancement.
Prevalence of Disease-Causing Mutations in Families with Autosomal Dominant Retinitis Pigmentosa: A Screen of Known Genes in 200 Families (2006)

Together, the known adRP genes account for retinal disease in approximately half of the families in this survey, mostly Americans of European origin. Among the adRP genes, IMPDH1, PRPF8, PRPF31, RDS, RHO, and RP1 each accounts for more than 2% of the total; CRX, PRPF3, and RPGR each accounts for roughly 1%. Disease-causing mutations were not found in CA4, FSCN2, NRL, or RP9. Because some mutations are frequent and some regions are more likely to harbor mutations than others, more than two thirds of the detected mutations can be found by screening less than 10% of the total gene sequences. Among the remaining families, mutations may lie in regions of known genes that were not tested, mutations may not be detectable by PCR-based sequencing, or other loci may be involved.
Anti-obesity effect of two different levels of dehydroepiandrosterone in lean and obese middle-aged female Zucker rats. (1986)

Dehydroepiandrosterone has previously been shown to prevent weight gain in growing lean and obese mice and rats. In the present study, lean and obese female Zucker rats were treated with either 0.6 or 1.0 percent DHEA in the diet from 8 until 14 months of age. In lean rats, 0.6 percent DHEA prevented weight gain and 1.0 percent DHEA resulted in significant weight loss compared to initial body weight. Control lean rats had a significant weight gain. Both 0.6 and 1.0 percent DHEA obese rats lost weight over the experimental period while control obese rats gained weight. Food intake of DHEA-treated obese rats was lowered compared to control obese rats but was similar to that of all lean groups. DHEA lowered serum insulin levels in both lean and obese rats relative to control groups. Both 0.6 and 1.0 percent DHEA lean rats had elevated hepatic G6PD activity compared to control lean rats. DHEA obese rats had lowered G6PD activity compared to the control obese rats. Hepatic malic enzyme was elevated by DHEA treatment in both lean and obese Zucker rats. Adipose tissue weights were lowered substantially in DHEA treated lean and obese rats versus their control groups. These data indicate that DHEA treatment in adult rats has an anti-obesity effect.
Case study of the Miner Botnet (2012)

Malware and botnets are one of the most serious threats to today's Internet security. In this paper, we characterise the so-called "Miner Botnet". It received major media attention after massive distributed denial of service attacks against a wide range of German and Russian websites, mainly during August and September 2011. We use our insights on this botnet to outline current botnet-related money-making concepts and to show that multiple activities of this botnet are actually centred on the virtual anonymised currency Bitcoin, thus justifying the name. Furthermore, we provide a binary-level analysis of the malware's design and components to illustrate the modularity of the previously mentioned concepts. We give an overview of the structure of the command-and-control protocol as well as of the botnet's architecture. Both centralised as well as distributed infrastructure aspects realised through peer-to-peer are present to run the botnet, the latter for increasing its resiliency. Finally, we provide the results of our ongoing tracking efforts that started in September 2011, focusing on the development of the botnet's size and geographic distribution. In addition we point out the challenge that is generally connected with size measurements of botnets due to the reachability of individual nodes and the persistence of IP addresses over time.
Rock Breakage Mechanisms With a PDC Cutter (1985)

ABSTRACT Some aspects of chip generation by a polycrystalline diamond compact (PDC) cutter moving through a rock can be understood by examining the shapes of the chips and the fracture patterns in the remaining rock. Data from laboratory experiments have led to general conclusions about the uniformity of chip generation mechanisms in different kinds of rock and about crack nucleation position relative to the cutter tip.
Cloning of a big tau microtubule-associated protein characteristic of the peripheral nervous system. (1992)

Microtubule-associated protein tau consists in brain of a series of isoforms of 48- to 67-kDa apparent molecular mass that are encoded by mRNAs of approximately 6 kilobases (kb) and that are generated from a single gene by alternative splicing. Previously, a tau-like protein of 110-kDa apparent molecular mass was described in peripheral ganglia and in peripheral neuronlike cell lines. We now report the cloning and sequencing of a rat cDNA encoding this big tau. The corresponding protein contains sequence identical to the longest of the previously cloned small tau isoforms but with an additional 254 amino acid insert in the amino-terminal half. Big tau is produced from an 8-kb mRNA generated by alternative splicing from the same gene that encodes small tau. Production of big tau from the cloned sequence gives a protein of 110-kDa apparent molecular mass that aligns on SDS/PAGE with big tau protein extracted from peripheral ganglia. RNA blots show that in peripheral ganglia from adult rats only the 8-kb mRNA band corresponding to big tau is found, whereas in ganglia from newborn rats both 6- and 8-kb tau mRNA bands are found. In tissues from the central nervous system only the 6-kb mRNA band can be detected. Big tau protein is therefore produced specifically in the peripheral nervous system, and it will be interesting to see whether further molecular differences between the two major divisions of the vertebrate nervous system will be discovered.
Liver-specific factor binding to the liver promoter of a 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase gene. (1993)

The liver-type and muscle-type isozymes of 6-phosphofructo-2-kinase/fructose- 2,6-bisphosphatase are encoded by the same gene from different promoters. We have found earlier that the liver-type promoter is controlled by ubiquitous and liver-enriched transcription factors and that two cis-acting sequences, called sites III and IV, account for about half of the activity of this promoter (Lemaigre, F. P., Durviaux, S. M., and Rousseau, G. G. (1991) Mol. Cell. Biol. 11, 1099-1106). Site III contains the TGTTTGC sequence, i.e. the hepatocyte nuclear factor 5 motif, hepatocyte nuclear factor 5-TGTTTGC sequence motif, which is known to be functionally important in several liver-specific genes. We now show that site III actually binds the ubiquitous octamer factor 1 and the liver-enriched hepatocyte nuclear factor 3 (HNF-3) in a mutually exclusive way. We also show that site IV binds CCAAT/enhancer-binding protein (C/EBP)-related factors as well as another factor that is liver-specific. This factor is more abundant or has a higher affinity for site IV than the C/EBP-related proteins. Although it can bind to a high affinity HNF-3 site, this factor differs from known members of the HNF-3 family and from other liver-specific transcription factors.
Fibrosis — A Common Pathway to Organ Injury and Failure (2015)

Fibrosis is a consequence of the inflammatory response. When fibrotic tissue becomes excessive, it can have diverse pathophysiological effects on a number of organ systems. The mechanisms underlying fibrosis and approaches to therapy are reviewed.
Localization of Acidic Fibroblast Growth Factor within the Mouse Brain Using Biochemical and Immunocytochemical Techniques (1992)

The localization of acidic fibroblast growth factor (aFGF) in the male mouse brain was studied with biochemical and immunocytochemical techniques. Using two peptide-based aFGF antisera directed against independent epitopes, Western gel analysis of dissected brain demonstrated significant levels of aFGF immunoreactivity in the pons-medulla, hypothalamus and cerebellum. The cortex contained much less immunoreactivity. Consistent with the biochemical data, immunocytochemical analysis with the same two antisera demonstrated that aFGF immunoreactivity is localized in neuronal cell bodies in these regions. Numerous immunoreactive neurons were observed in the reticular formation of the pons and medulla, as well as in several other brainstem nuclei and areas. Immunoreactive neurons were also present in the lateral and medial hypothalamus, and some thalamic, subthalamic and epithalamic nuclei. In the basal ganglia, immunoreactive neurons were present in the amygdala and septum. Few intensely stained immunoreactive neurons were observed in the striatum, pallidum and neocortex. Limbic cortices contained more numerous immunoreactive neurons than neocortex. These results support the concept that aFGF is present in the brain, where it is heterogeneously distributed in neuronal cell bodies in regions involved in sensory, extrapyramidal motor, limbic and autonomic functions. The results are consistent with various neurotrophic, mitogenic, and neuromodulatory functions associated with aFGF in the mammalian central nervous system.
Accumulation of Aspartic Acid421- and Glutamic Acid391-Cleaved Tau in Neurofibrillary Tangles Correlates With Progression in Alzheimer Disease (2008)

Truncations of tau protein at aspartic acid421 (D421) and glutamic acid391 (E391) residues are associated with neurofibrillary tangles (NFTs) in the brains of Alzheimer disease (AD) patients. Using immunohistochemistry with antibodies to D421- and E391-truncated tau (Tau-C3 and MN423, respectively), we correlated the presence of NFTs composed of these truncated tau proteins with clinical and neuropathologic parameters in 17 AD and 23 non-AD control brains. The densities of NFTs composed of D421- or E391-truncated tau correlated with clinical dementia index and Braak staging in AD. Glutamic acid391 tau truncation was prominent in the entorhinal cortex, whereas D421 truncation was prominent in the subiculum, suggesting that NFTs composed of either D421- or E391-truncated tau may be formed mutually exclusively in these areas. Both truncations were associated with the prevalence of the apolipoprotein E epsilon4 allele. By double labeling, intact tau in NFTs was commonly associated with D421-cleaved tau but not with E391-truncated tau; D421-cleaved tau was never associated with E391-truncated tau. These results indicate that tau is not randomly proteolyzed at different domains, and that proteolysis occurs sequentially from the C-terminus to inner regions of tau in AD progression. Identification of NFTs composed of tau at different stages of truncation may facilitate assessment of neurofibrillary pathology in AD.
Progress in Discovery of KIF5B-RET Kinase Inhibitors for the Treatment of Non-Small-Cell Lung Cancer (2015)

A new chimeric fusion transcript of KIF5B (the kinesin family 5B gene) and the RET (Rearranged during Transcription) oncogene, KIF5B-RET, was found in 1-2% of lung adenocarcinomas (LADCs) in late 2011. Several related clinical trials for non-small-cell lung cancer (NSCLC) with KIF5B-RET rearrangements using existing RET inhibitors, such as lenvatinib, vandetanib, sunitinib, ponatinib, cabozantinib, and AUY922, have been swiftly initiated by the discovery of the KIF5B-RET fusion gene. Anti-RET activity and the status of clinical development of these known RET tyrosine kinase inhibitors (TKIs) for KIF5B-RET fusion-positive NSCLC are discussed. A kinase inhibitor that can target a driver mutation specifically may lead to a superior clinical benefit compared with broad-spectrum kinase inhibitors. In this regard, an analysis of the structure of RET kinase and its complex with known RET inhibitors are also briefly discussed.
A Photoactive Molecular Triad as a Nanoscale Power Supply for a Supramolecular Machine (2005)

A tetrathiafulvalene-porphyrin-fullerene (TTF-P-C(60)) molecular triad, which generates electrical current by harnessing light energy when self-assembled onto gold electrodes, has been developed. The triad, composed of three unique electroactive components, namely, 1) an electron-donating TTF unit, 2) a chromophoric porphyrin unit, and 3) an electron-accepting C(60) unit, has been synthesized in a modular fashion. A disulfide-based anchoring group was tagged to the TTF end of the molecule in order to allow its self-assembly on gold surfaces. The surface coverage by the triad in a self-assembled monolayer (SAM) was estimated to be 1.4 nm(2) per molecule, a density which is consistent with hexagonal close-packing of the spherical C(60) component (diameter approximately 1 nm). In a closed electronic circuit, a triad-SAM functionalized working-electrode generates a switchable photocurrent of approximately 1.5 microA cm(-2) when irradiated with a 413 nm Kr-ion laser, a wavelength which is close to the porphyrin chromophore's absorption maximum peak at 420 nm. The electrical energy generated by the triad at the expense of the light energy is ultimately exploited to drive a supramolecular machine in the form of a [2]pseudorotaxane comprised of a pi-electron-deficient tetracationic cyclobis(paraquat-p-phenylene) (CBPQT(4+)) cyclophane and a pi-electron-rich 1,5-bis[(2-hydroxyethoxy) ethoxy]naphthalene (BHEEN) thread. The redox-induced dethreading of the CBPQT(4+) cyclophane from the BHEEN thread can be monitored by measuring the increase in the fluorescence intensity of the BHEEN unit. A gradual increase in the fluorescence intensity of the BHEEN unit concomitant with the photocurrent generation, even at a potential (0 V) much lower than that required (-300 mV) for the direct reduction of the CBPQT(4+) unit, confirms that the dethreading process is driven by the photocurrent generated by the triad-SAM.
Effects of thioperamide on the cholinergic system and the step-through passive avoidance test in mice. (1995)

We investigated the effects of thioperamide, a histamine H3-receptor antagonist, on a scopolamine-induced learning deficit in the step-through passive avoidance test in mice, and on contents of acetylcholine and choline in the brain. In a behavioral study, thioperamide (20 mg/kg) alone slightly ameliorated scopolamine-induced learning deficit, and pretreatment with zolantidine, a histamine H2-receptor antagonist, significantly enhanced the ameliorating effect of thioperamide. This enhanced ameliorating effect of thioperamide was antagonized by pyrilamine, a histamine H1-receptor antagonist and (R)-alpha-methylhistamine, a histamine H3-receptor agonist, suggesting that thioperamide showed the ameliorating effect via histamine H3 receptors and/or histamine H1 receptors. In the biochemical study, thioperamide (20 mg/kg) in combination with zolantidine (20 mg/kg) significantly increased contents of choline in most of brain regions. These findings suggest that there is a close relationship between histaminergic and cholinergic systems in the brain, and that the histaminergic system may play certain important roles in learning and memory.
Optimization and application of the large volume on‐column introduction (LOCI) technique for capillary GC with preliminary on‐line capillary solvent distillation/concentration (1993)

Abstract This report describes an on‐line capillary GC injection system which enables on‐column injection of a hundred or more microliters, and yields separations comparable with those obtained from on‐column injection of 1–2 microliters of solutions a hundred times more concentrated. Precision, carry‐over, linearity, and discrimination are comparable with those of classical sample‐introduction techniques. A selection of polar and high boiling compounds has been examined, and excellent peak shapes obtained for hundreds of injections. Initial results indicate that maintenance and long‐term reproducibility will also be comparable with those of classical techniques. The instrument utilizes a version of the large volume on‐column injector with solvent diversion described in an earlier communication, with the addition of a method for independent heating of the retention gap. This modification reduces the effects of activity in the retention gap and improves the capability of the technology to handle complex mixtures. It also increases reliability and system lifetime, fits readily into most GC ovens, is easily automated, and should be compatible with all capillary GC detectors.
Rescue of Impaired NK Cell Activity in Hodgkin Lymphoma With Bispecific Antibodies In Vitro and in Patients (2013)

Natural killer (NK) cells represent a key component of the innate immune system against cancer. Nevertheless, malignant diseases arise in immunocompetent individuals despite tumor immunosurveillance. Hodgkin lymphoma (HL) is characterized by CD30(+) tumor cells and a massive infiltration of immune effector cells in affected lymph nodes. The latter obviously fail to eliminate the malignant cell population. Here, we tested for functional NK cell defects in HL and suggest an improvement of NK function by therapeutic means. We demonstrate that peripheral NK cells (pNK) from patients with HL fail to eliminate HL cell lines in ex vivo killing assays. Impaired NK cell function correlated with elevated serum levels of soluble ligands for NK cell receptors NKp30 (BAG6/BAT3) and NKG2D (MICA), factors known to constrict NK cell function. In vitro, NK cell cytotoxicity could be restored by an NKG2D/NKp30-independent bispecific antibody construct (CD30xCD16A). It artificially links the tumor receptor CD30 with the cytotoxicity NK cell receptor CD16A. Moreover, we observed that NK cells from patients treated with this construct were generally activated and displayed a restored cytotoxicity against HL target cells. These data suggest that reversible suppression of NK cell activity contributes to immune evasion in HL and can be antagonized therapeutically.
Composer—Visual Cohort Analysis of Patient Outcomes (2019)

We have developed a prototype cohort analysis tool to help clinicians assess patient treatment options by analyzing prior cases with similar characteristics. Although Composer was designed using patient data specific to orthopedic research, we believe the tool is generalizable to other healthcare domains. A long-term goal for Composer is to develop the application into a shared decision-making tool that allows translation of comparison and analysis from a clinician-facing interface into visual representations to communicate treatment options to patients.