gebhart/patrepeval huggingface dataset:
Biomimetic Hydroxyapatite–Drug Nanocrystals as Potential Bone Substitutes with Antitumor Drug Delivery Properties (2007)

Abstract This Full Paper investigates the adsorption and desorption of the anticancer drugs cis‐ diamminedichloroplatinum(II) (CDDP, cisplatin) and the new platinum(II) complex di(ethylenediamineplatinum)medronate (DPM), as well as the clinically relevant bisphosphonate alendronate, towards two biomimetic synthetic HA nanocrystalline materials with either plate‐shaped (HAps) or needle‐shaped (HAns) morphologies and different chemico‐physical properties. The adsorption and desorption kinetics are dependent on the specific properties of the drugs and the morphology of the HA nanoparticles. Adsorption of the platinum complexes occurs with retention of the nitrogen ligands but the chloride ligands of cisplatin are displaced. Despite their opposite charges, the negatively charged alendronate bisphosphonate and the positively charged aquated cisplatin are strongly adsorbed, while the neutral DPM complex shows lower affinity towards the negatively charged apatitic surface. The data suggest that adsorption of the two platinum complexes is driven by electrostatic attractions, while interaction between the alendronate and the HA surface takes place by ligand exchange in which the two phosphonate groups of the drug molecule replace two surface phosphate groups. Significantly, adsorption of positively charged hydrolysis species of cisplatin is more favored on the phosphate‐rich HAns surface while adsorption of negatively charged alendronate is more favored on the calcium‐rich HAps surface. The latter type of short‐range electrostatic interactions also appear to dominate the desorption kinetics; consequently, drug release is greater for neutral DPM than for charged alendronate and aquated cisplatin. Moreover, while the release per unit area of charged species is the same for the two types of HAs, the release of DPM is faster from HAns, which is lower in surface calcium, than for HAps. Overall, this work demonstrates that the properties of HA nanocrystals can be modulated in such a way to produce HA/biomolecule conjugates tailored for specific therapeutic applications.
Analytical Modeling of the Forced Gravity Drainage GAGD Process (2006)

Literature review on gravity drainage suggests that the fundamental understanding and modeling of the gravity drainage process still appears to be a challenge to the reservoir engineer, mainly because of the limitations of the reservoir simulation tools, to better include the physics of the process into improved reservoir management. This paper attempts to identify the fundamental forced gravity-drainage mechanisms, and possibly improve the mechanistic understanding of gravity-drainage processes by conducting: (i) mechanistic studies of the gravity-drainage process and (ii) employing analytical models to predict the recovery characteristics. Mechanistic studies on gravity-drainage suggested that the existing models employed the Buckley-Leverett and gravity-drainage theories to model forced and free gravitydrainage, respectively. It appeared that neither of these theories holistically characterizes the Gas Assisted Gravity Drainage (GAGD) process, due to non-representative assumptions. A 'lumped' approach appeared to be preferable for GAGD modeling, and a new gravity-drainage mechanism has been proposed. Additionally, two 'lumped' mechanistic models, Richardson and Blackwell's analytical model (1971) and Li and Home's empirical model for free gravity drainage (2003), were employed for validation of the proposed mechanism. The R&B model was validated against Hawkins Dexter field's gravity drainage flood data, and later employed to predict oil recoveries for 1-D and 2-D laboratory GAGD floods. The R&B model was found to predict the ultimate oil recovery within a 6.4% error band. The L&H model, used to predict the dynamic recovery characteristics due to R&B model limitations, was found to over predict the GAGD oil recoveries. To improve the capillary pressure modeling and incorporate the GAGD mechanisms into the model, the 'demarcator' concept of the original gravity drainage theory was introduced into the L&H model. This modification appears to have significantly and successfully improved the resulting model's ability to capture the multiphase mechanisms and fluid dynamics of gravity drainage processes.
Loss of Estrogen-Regulated microRNA Expression Increases HER2 Signaling and Is Prognostic of Poor Outcome in Luminal Breast Cancer (2014)

Among the genes regulated by estrogen receptor (ER) are miRNAs that play a role in breast cancer signaling pathways. To determine whether miRNAs are involved in ER-positive breast cancer progression to hormone independence, we profiled the expression of 800 miRNAs in the estrogen-dependent human breast cancer cell line MCF7 and its estrogen-independent derivative MCF7:2A (MCF7:2A) using NanoString. We found 78 miRNAs differentially expressed between the two cell lines, including a cluster comprising let-7c, miR99a, and miR125b, which is encoded in an intron of the long noncoding RNA LINC00478. These miRNAs are ER targets in MCF7 cells, and nearby ER binding and their expression are significantly decreased in MCF7:2A cells. The expression of these miRNAs was interrogated in patient samples profiled in The Cancer Genome Atlas (TCGA). Among luminal tumors, these miRNAs are expressed at higher levels in luminal A versus B tumors. Although their expression is uniformly low in luminal B tumors, they are lost only in a subset of luminal A patients. Interestingly, this subset with low expression of these miRNAs had worse overall survival compared with luminal A patients with high expression. We confirmed that miR125b directly targets HER2 and that let-7c also regulates HER2 protein expression. In addition, HER2 protein expression and activity are negatively correlated with let-7c expression in TCGA. In summary, we identified an ER-regulated miRNA cluster that regulates HER2, is lost with progression to estrogen independence, and may serve as a biomarker of poor outcome in ER(+) luminal A breast cancer patients.
Commonly used tag combinations for tandem affinity purification (2010)

TAP (tandem affinity purification) allows rapid and clean isolation of a tagged protein along with its interacting partners from cell lysates. Initially developed in yeast, the TAP method has subsequently been adapted to other cells and organisms. In combination with MS analysis, this method has become an indispensable tool for systematic identification of target-associated protein complexes. The key feature of TAP is the use of a dual-affinity tag, which is fused to the protein of interest. The original TAP tag consisted of two IgG-binding units of Protein A of Staphylococcus aureus and the calmodulin-binding peptide. As the technique has been widely exploited, a number of alternative TAP tags based on other affinity handles have been developed. The present review gives an overview of the various tag combinations for TAP with a highlight on those alternatives that result in improved yields or unique features. The information provided should assist in the selection and development of TAP tags for specific applications.
<b>The effect of deformation on the lateral resolution of atomic force microscopy</b> (1996)

A computer model based on the elastic properties of rubber is introduced for the evaluation of the lateral resolution in atomic force microscopy of deformable specimens. The computational results show that, if the full width at half-height can be defined as the lateral resolution, it is continuously improved at greater probe forces, at the expense of a reduced molecular height, In fact, even for a probe that is bigger than the molecule, the real size of the molecule can be 'recovered' at about 25% compression. This result demonstrates that for a better lateral resolution, a greater probe force can be beneficial, provided that the molecule is not moved or damaged and the response remains elastic. Measurements on isolated low-density lipoproteins (LDL) show that with 26% vertical compression, the lateral size measured in atomic force microscopy is only 72% of the value predicted by a simple convolution, and is only slightly larger (approximately 13%) than the known size of LDL. Therefore, the results on LDL provide a direct support for the conclusions of the computational model.
The <i>Arabidopsis</i> NFYA5 Transcription Factor Is Regulated Transcriptionally and Posttranscriptionally to Promote Drought Resistance (2008)

Nuclear factor Y (NF-Y) is a ubiquitous transcription factor composed of three distinct subunits (NF-YA, NF-YB, and NF-YC). We found that the Arabidopsis thaliana NFYA5 transcript is strongly induced by drought stress in an abscisic acid (ABA)-dependent manner. Promoter:beta-glucuronidase analyses showed that NFYA5 was highly expressed in vascular tissues and guard cells and that part of the induction by drought was transcriptional. NFYA5 contains a target site for miR169, which targets mRNAs for cleavage or translational repression. We found that miR169 was downregulated by drought stress through an ABA-dependent pathway. Analysis of the expression of miR169 precursors showed that miR169a and miR169c were substantially downregulated by drought stress. Coexpression of miR169 and NFYA5 suggested that miR169a was more efficient than miR169c at repressing the NFYA5 mRNA level. nfya5 knockout plants and plants overexpressing miR169a showed enhanced leaf water loss and were more sensitive to drought stress than wild-type plants. By contrast, transgenic Arabidopsis plants overexpressing NFYA5 displayed reduced leaf water loss and were more resistant to drought stress than the wild type. Microarray analysis indicated that NFYA5 is crucial for the expression of a number of drought stress-responsive genes. Thus, NFYA5 is important for drought resistance, and its induction by drought stress occurs at both the transcriptional and posttranscriptional levels.
Lunar mass spectrometer test program (1971)

The procedures are described along with results obtained in a test program conducted to demonstrate the performance of a candidate lunar mass spectrometer. The instrument was designed to sample and measure gases believed to exist in the lunar atmosphere at the surface. The subject instrument consists of a cold cathode ion source, a small quadrupole mass analyzer and an off axis electron multiplier ion counting detector. The major program emphasis was placed on demonstrating instrument resolution, sensitivity and S/N ratio over the mass range 0-150 amu and over a partial pressure range from 10 to the minus 9th power to 10 to the minus 13th power torr. Ultrahigh vacuum tests were conducted and the minimum detectable partial pressure for neon, argon, krypton and xenon was successfully determined for the spectrometer using isotopes of these gases. With the exception of neon, the minimum detectable partial pressure is approximately 4 x 10 to the minus 14th power torr for the above gases.
High Efficiency Electroporation of Human Umbilical Cord Blood CD34 <sup>+</sup> Hematopoietic Precursor Cells (2001)

Human umbilical cord blood provides an alternative source of hematopoietic cells for purposes of transplantation or ex vivo genetic modification. The objective of this study was to evaluate electroporation as a means to introduce foreign genes into human cord blood CD34+ cells and evaluate gene expression in CD34+/CD38(dim) and committed myeloid progenitors (CD33+, CD11b+). CD34+ cells were cultured in X-VIVO 10 supplemented with thrombopoietin, stem cell factor, and Flt-3 ligand. Electroporation efficiency and cell viability measured by flow cytometry using enhanced green fluorescent protein (EGFP) as a reporter indicated 31% +/- 2% EGFP+ /CD34+ efficiency and 77% +/- 3% viability as determined 48 hours post-electroporation. The addition of allogeneic cord blood plasma increased the efficiency to 44% +/- 5% with no effect on viability. Of the total CD34+ cells 48 hours post-electroporation, 20% were CD38(dim)/EGFP+. CD34+ cells exposed to interleukin-3, GM-CSF and G-CSF for an additional 11 days differentiated into CD33+ and CD11b+ cells, and 9% +/- 3% and 8% +/- 7% were expressing the reporter gene, respectively. We show that electroporation can be used to introduce foreign genes into early hematopoietic stem cells (CD34+/CD38(dim)), and that the introduced gene is functionally expressed following expansion into committed myeloid progenitors (CD33+, CD11b+) in response to corresponding cytokines. Further investigation is needed to determine the transgene expression in functional terminal cells derived from the genetically modified CD34+ cells, such as T cells and dendritic cells.
Barriers to a wide-area trusted network early warning system for electric power disturbances (2003)

It is apparent that perturbations of the North American electric power grid follow the patterns and characteristics of Self Organized Critical (SOC) systems. Published studies show SOC systems exhibit statistical properties that may result in early warning systems predicting electric power instability and loss of reliability. However, in order for such an early warning system to exist, a trusted wide-area data network must collate information from disparate subsystems and compile that information into homogenous data records for input to a modeling system. This paper explores similarities between wide-area trusted computer networks and the needs of a wide-area trusted network early warning system for electric power instability. An analysis of commercial equipment used in power stations uncovers disparate access methods and protocols that inhibit interoperability, and yet that problem has been mitigated in computer networking. Recent advances lend hope that wide-area data collection and modeling of electric power system perturbations will be commonplace in the not to distant future.
In Situ Regeneration of Alumina-Supported Cobalt–Iron Catalysts for Hydrogen Production by Catalytic Methane Decomposition (2018)

A novel approach to the in situ regeneration of a spent alumina-supported cobalt–iron catalyst for catalytic methane decomposition is reported in this work. The spent catalyst was obtained after testing fresh catalyst in catalytic methane decomposition reaction during 90 min. The regeneration evaluated the effect of forced periodic cycling; the cycles of regeneration were performed in situ at 700 °C under diluted O2 gasifying agent (10% O2/N2), followed by inert treatment under N2. The obtained regenerated catalysts at different cycles were tested again in catalytic methane decomposition reaction. Fresh, spent, and spent/regenerated materials were characterized using X-ray powder diffraction (XRD), transmission electron microscopy (TEM), laser Raman spectroscopy (LRS), N2-physisorption, H2-temperature programmed reduction (H2-TPR), thermogravimetric analysis (TGA), and atomic absorption spectroscopy (AAS). The comparison of transmission electron microscope and X-ray powder diffraction characterizations of spent and spent/regenerated catalysts showed the formation of a significant amount of carbon on the surface with a densification of catalyst particles after each catalytic methane decomposition reaction preceded by regeneration. The activity results confirm that the methane decomposition after regeneration cycles leads to a permanent deactivation of catalysts certainly provoked by the coke deposition. Indeed, it is likely that some active iron sites cannot be regenerated totally despite the forced periodic cycling.
Al<sub>0.52</sub>In<sub>0.48</sub>P<sup>55</sup>Fe x-ray-photovoltaic battery (2016)

An Al0.52In0.48P 55Fe radioisotope microbattery is demonstrated over the temperature range −20 °C to 160 °C. Al0.52In0.48P p+-i-n+ mesa structures were used to collect the photons from a 238 MBq 55Fe radioisotope x-ray source. The effects of temperature on the key microbattery parameters were studied. Increasing the temperature, the saturation current increased; whilst the open circuit voltage, the maximum power and the conversion efficiency decreased. An open circuit voltage of 0.97V and a conversion efficiency of 22% were measured in a single p+-i-n+ mesa structure at −20 °C. The highest total microbattery maximum output power using two mesa structures was 1.2 pW at −20 °C.
The genetic epidemiology of male breast carcinoma (1999)

Male breast carcinoma shares many similar epidemiologic, genetic, diagnostic, therapeutic, and prognostic factors with breast carcinoma in women. The genetic factor most clearly associated with male breast carcinoma is the BRCA2 germ-line mutation. Other heritable mutations observed in male breast carcinoma include BRCA1, the androgen receptor gene, and the mismatch repair genes associated with Lynch syndrome. See also pages 821–5.
Chronic Immune Stimulation by Sperm Alloantigens (1984)

Putative, sperm-induced allogeneic immunization was correlated with immune dysregulation in a study of 30 asymptomatic, monogamously paired homosexual males. Evidence for allogeneic immunization existed among 19 of 26 homosexual males who were anal sperm recipients. No evidence for any form of alloimmunization was found in four exclusive sperm donors. Immune dysregulation in the form of a reduced effector/suppressor T-cell ratio (T<sub>e</sub>/T<sub>s</sub><1.0) was exclusively documented in eight anal-sperm-recipient homosexual males, five of whom also manifested evidence for allogeneic immunization. In three of those, immune dysregulation was further manifested by functional T-cell deficiency in the form of a subnormal (<50 cu mm) local graft- v-host reaction. Similar evidence for alloimmunization was associated with a reduced T<sub>e</sub>/T<sub>s</sub>ratio (0.85) in the female of a heterosexual couple who routinely practiced anal intercourse. Based on these findings, we suggest that chronic, repeated exposure to sperm during anal intercourse results in a high frequency of allogeneic immunization and may play an important role in the development of acquired immune dysregulation among homosexual males. (<i>JAMA</i>1984;251:237-241)
Human cDNA mapping using a high-resolution R-banding technique and fluorescence in situ hybridization (1995)

High-resolution fluorescence in situ hybridization (FISH) is now an essential element in both human gene mapping and clinical cytogenetics. To facilitate its application, a series of techniques have been developed using FISH to map DNA probes in the size range of 1-1,000 kb directly on R-banded human chromosomes. Distinctive reverse (R) banding is achieved by staining with chromomycin A3 and distamycin A following in situ hybridization. The use of such counterstains enables simultaneous viewing of both the fluorescent R-bands and in situ hybridization signals by either standard photomicroscopy or an automated image-acquisition system. This method is rapid and reproducibly reveals bands at the 350-700 stage. Further, specific methods for chromosome preparation, hybridization, and signal production have been developed and applied in combination with R-banding. These methods are used for precise chromosomal localization of DNA sequences in sizes ranging from that of cDNA (> 1 kb) through bacterial artificial chromosomes (100-150 kb) to yeast artificial chromosomes (> or = 1 Mb). These techniques provide high-resolution methods for rapid mapping of human genes, expanding the applications of FISH techniques in basic research and clinical analysis.
A robust and computationally efficient speech/music discriminator (2006)

A New method for discriminating between speech and music signals is introduced. The strategy is based on the extraction of four features, whose values are combined linearly into a unique parameter. This parameter is used to distinguish between the two kinds of signals. The method has achieved an accuracy superior to 99%, even for severely degraded and noisy signals. Moreover, the low dimensionality of the feature space, together with a very simple information-merging technique, has resulted in a remarkable robustness to new situations. The low computational complexity of the method makes it appropriate for applications that demand real-time operation. Finally excellent resolution for the segmentation of audio streams is achieved by manipulating the analyzed data properly.
Medium‐chain fatty acids stimulate interleukin‐8 production in Caco‐2 cells with different mechanisms from long‐chain fatty acids<sup>1</sup> (2001)

These findings suggest that not only OA but also CA stimulates IL-8 production in intestinal epithelial cells, and the mechanisms of action differ between OA and CA.
Respiratory modulation of human autonomic rhythms (2001)

We studied the influence of three types of breathing [spontaneous, frequency controlled (0.25 Hz), and hyperventilation with 100% oxygen] and apnea on R-R interval, photoplethysmographic arterial pressure, and muscle sympathetic rhythms in nine healthy young adults. We integrated fast Fourier transform power spectra over low (0.05-0.15 Hz) and respiratory (0.15-0.3 Hz) frequencies; estimated vagal baroreceptor-cardiac reflex gain at low frequencies with cross-spectral techniques; and used partial coherence analysis to remove the influence of breathing from the R-R interval, systolic pressure, and muscle sympathetic nerve spectra. Coherence among signals varied as functions of both frequency and time. Partialization abolished the coherence among these signals at respiratory but not at low frequencies. The mode of breathing did not influence low-frequency oscillations, and they persisted during apnea. Our study documents the independence of low-frequency rhythms from respiratory activity and suggests that the close correlations that may exist among arterial pressures, R-R intervals, and muscle sympathetic nerve activity at respiratory frequencies result from the influence of respiration on these measures rather than from arterial baroreflex physiology. Most importantly, our results indicate that correlations among autonomic and hemodynamic rhythms vary over time and frequency, and, thus, are facultative rather than fixed.
Growth and Antrum Formation of Bovine Preantral Follicles in Long-Term Culture In Vitro1 (2000)

Culture of preantral follicles has important biotechnological implications through its potential to produce large quantities of oocytes for embryo production and transfer. A long-term culture system for bovine preantral follicles is described. Bovine preantral follicles (166 +/- 2.15 micrometer), surrounded by theca cells, were isolated from ovarian cortical slices. Follicles were cultured under conditions known to maintain granulosa cell viability in vitro. The effects of epidermal growth factor (EGF), insulin-like growth factor (IGF)-I, FSH, and coculture with bovine granulosa cells on preantral follicle growth were analyzed. Follicle and oocyte diameter increased significantly (P < 0.05) with time in culture. FSH, IGF-I, and EGF stimulated (P < 0.05) follicle growth rate but had no effect on oocyte growth. Coculture with granulosa cells inhibited FSH/IGF-I-stimulated growth. Most follicles maintained their morphology throughout culture, with the presence of a thecal layer and basement membrane surrounding the granulosa cells. Antrum formation, confirmed by confocal microscopy, occurred between Days 10 and 28 of culture. The probability of follicles reaching antrum development was 0.19 for control follicles. The addition of growth factors or FSH increased (P < 0.05) the probability of antrum development to 0.55. Follicular growth appeared to be halted by slower growth of the basement membrane, as growing follicles occasionally burst the basement membrane, extruding their granulosa cells. In conclusion, a preantral follicle culture system in which follicle morphology can be maintained for up to 28 days has been developed. In this system, FSH, EGF, and IGF-I stimulated follicle growth and enhanced antrum formation. This culture system may provide a valuable approach for studying the regulation of early follicular development and for production of oocytes for nuclear/embryo transfer, but further work is required.