gebhart/patrepeval huggingface dataset:
FLT3 D835/I836 mutations are associated with poor disease-free survival and a distinct gene-expression signature among younger adults with de novo cytogenetically normal acute myeloid leukemia lacking FLT3 internal tandem duplications (2007)

The prognostic relevance of FLT3 D835/I836 mutations (FLT3-TKD) in cytogenetically normal acute myeloid leukemia (CN-AML) remains to be established. After excluding patients with FLT3 internal tandem duplications, we compared treatment outcome of 16 de novo CN-AML patients with FLT3-TKD with that of 123 patients with wild-type FLT3 (FLT3-WT), less than 60 years of age and similarly treated on Cancer and Leukemia Group B protocols. All FLT3-TKD(+) patients and 85% of FLT3-WT patients achieved a complete remission (P = .13). Disease-free survival (DFS) of FLT3-TKD(+) patients was worse than DFS of FLT3-WT patients (P = .01; estimated 3-year DFS rates, 31% vs 60%, respectively). In a multivariable analysis, FLT3-TKD was associated with worse DFS (P = .02) independent of NPM1 status and percentage of bone marrow blasts. To gain further biologic insights, a gene-expression signature differentiating FLT3-TKD(+) from FLT3-WT patients was identified. The signature (333 probe sets) included overexpression of VNN1, C3AR1, PTPN6, and multiple other genes involved in monocarboxylate transport activity, and underexpression of genes involved in signal transduction regulation. These associations with outcome, other prognostic markers, and the elucidated expression signature enhance our understanding of FLT3-TKD-associated biology and may lead to development of novel therapies that improve clinical outcome of CN-AML patients with FLT3-TKD.
Endosperm Modified by Cross‐Pollinating Maize to Induce Changes in Dry Matter and Nitrogen Accumulation (1990)

The question of whether the vegetative source or kernel sink represents the major constraint for grain yield of maize ( Zea mays L.) has not been satisfactorily answered. In a field experiment, the sink of two hybrids, Pioneer brand 3732 (P3732) and B73 ✕ Mol7 was modified through cross‐pollination to study effects of sink alteration on dry matter and N accumulation. The two hybrids were grown with 268 kg N ha −1 spring‐applied in a randomized split‐plot design with four replications. Sib‐pollination and reciprocal crosses were made by controlling the pollen source. Dry weight and N content in plant parts as well as black layer development in kernels were analyzed at various stages during kernel maturation. Modification of the P3732 endosperm genotype by cross‐pollination with B73 X Mol7 pollen significantly increased kernel weight, kernel protein content and protein concentration, and grain yield. These increases were the result of increased assimilate production in vegetative tissues rather than improved partitioning efficiency. The P3732 crossed kernels delayed black layer development for about 10 d. Increases in protein concentration were primarily in the form of zein. In contrast, modification of the B73 ✕ Mo 17 endosperm by crosspollination with P3732 pollen had no effect on these traits. The effects of sink alteration on total plant dry matter and N accumulation were also different between P3732 and B73 ✕ Mol7 in that sink alteration of P3732 increased the accumulation of these two traits in vegetative tissues during the period of grain‐fill. These observations confirm that sink determination of grain yield is hybridspecific.
Trifluoroethanol Promotes Helix Formation by Destabilizing Backbone Exposure:  Desolvation Rather than Native Hydrogen Bonding Defines the Kinetic Pathway of Dimeric Coiled Coil Folding (1998)

We measure the effects of low concentrations of helix-stabilizing cosolvents, including 2,2,2-trifluoroethanol (TFE), on the thermodynamics and kinetics of folding of the dimeric alpha-helical coiled coil derived from the leucine zipper region of bZIP transcriptional activator GCN4. The change in kinetic behavior upon addition of 5% (v/v) TFE indicates that it stabilizes the transition state to the same degree as the fully helical native state. However, folding rates are largely insensitive to alanine to glycine mutagenesis, indicating that the majority of helical structure is formed after the transition state. Equilibrium hydrogen isotope partitioning measurements indicate that intramolecular hydrogen bonds are not strengthened by TFE and that amide hydrogen bonds in the transition state are nearly the same strength as those in the unfolded state. Thus, the mechanism by which TFE exerts its helix-stabilizing effects can be divorced from helix formation and does not depend on the strengthening of intrahelical hydrogen bonds. Rather, TFE increases the structure of the binary alcohol/water solvent, thereby increasing the energetic cost associated with solvation of the polypeptide backbone. At low concentrations, TFE destabilizes the unfolded species and thereby indirectly enhances the kinetics and thermodynamics of folding of the coiled coil. A high degree of polypeptide backbone desolvation, and not the formation of regular helical structure and native strength hydrogen bonds, is the critical feature of the transition state for folding of this small dimeric protein.
High-frequency homologous recombination in vaccinia virus DNA (1987)

A recombinant vaccinia virus genome was constructed in which the viral thymidine kinase (tk) gene was placed between direct repeats of a 1.5-kilobase-pair DNA sequence of heterologous origin. When forced to replicate in tk- cells in the presence of methotrexate (i.e., under tk+-selective conditions), the recombinant maintained its tk+ phenotype. Under nonselective conditions, however, the tk gene was frequently excised by both inter- and intramolecular recombination events because the repeated sequences provided substantial targets for homologous DNA recombination. Unique DNA products of intramolecular recombination were detected in the cytoplasm of infected cells soon after the onset of viral DNA replication, and their appearance was blocked by inhibitors of DNA synthesis. During repeated passage of the virus under nonselective conditions, the tk+ fraction decreased with first-order kinetics at a rate that reflected the frequency of recombination per cycle of virus replication. Eventually, a residual population of stable tk+ viruses remained, and analyses of the genome structures of individual members of this population showed that some of them appeared to be the products of nonhomologous DNA recombination.
Comparison of embryonic developmental competence of mouse oocytes grown with and without serum (1992)

The first objective of this study was to determine whether oocyte growth in serum-free medium affects the solubility of the zona pellucida to alpha-chymotrypsin digestion, which is an index of zona pellucida "hardening" and reflects the potential penetrability of the zona pellucida by sperm. Oocyte-granulosa cell complexes were isolated from the preantral follicles of 12-day-old mice and cultured for 10 days in medium containing 5% fetal bovine serum (FBS) or in serum-free medium. The zonae pellucidae of oocytes grown in serum-free medium were four times as hard as freshly isolated germinal vesicle (GV)-stage oocytes grown in vivo or oocytes grown in vitro in FBS-containing medium. The hardening of the zonae pellucidae of oocytes grown in serum-free medium was prevented by addition of fetuin. The second objective was to compare the competence to undergo embryogenesis of oocytes that grew in serum-free vs. FBS-containing medium. Approximately 70% of the oocytes underwent maturation regardless of whether the medium was serum-free or contained FBS. Of the mature ova grown in medium containing FBS, 53% cleaved to the two-cell stage after insemination compared with only 6% of the ova grown in serum-free medium. Addition of fetuin to the serum-free medium used for oocyte growth increased the frequency of cleavage to the two-cell stage. Of the embryos derived from oocytes that grew in FBS-containing medium, 70% completed the two-cell stage to blastocyst transition.(ABSTRACT TRUNCATED AT 250 WORDS)
Immunohistochemistry in the classification of systemic forms of amyloidosis: a systematic investigation of 117 patients (2011)

Amyloidoses are characterized by organ deposition of misfolded proteins. This study evaluated immunohistochemistry as a diagnostic tool for the differentiation of amyloid subentities, which is warranted for accurate treatment. A total of 117 patients were systematically investigated by clinical examination, laboratory tests, genotyping, and immunohistochemistry on biopsy specimens. Immunohistochemistry enabled the classification in 94% of the cases. For subsequent analysis, the patient population was divided into 2 groups. The first group included all patients whose diagnosis could be verified by typical clinical signs or an inherited amyloidogenic mutation. In this group, immunohistochemical subtyping was successful in 49 of 51 cases and proved accurate in each of the 49 cases, corresponding to a sensitivity of 96% and a specificity of 100%. The second group included patients with systemic light chain amyloidosis without typical signs, senile transthyretin, or hereditary amyloidosis with a concomitant monoclonal gammopathy. Immunohistochemistry allowed to define the subentities in 61 of 66 (92%) of these cases. Immunohistochemistry performed by a highly specialized pathologist combined with clinical examination and genotyping leads to a high accuracy of amyloidosis classification and is the standard in our center. However, new techniques, such as mass spectroscopy-based proteomics, were recently developed to classify inconclusive cases.
A 17 mW transmitter and frequency synthesizer for 900 MHz GSM fully integrated in 0.35-μm CMOS (2003)

We have presented the first fully integrated fractional-N PLL with on-chip VCO and on-chip modulator that meets the GSM specifications for both a receive mode synthesizer and a modulating PLL with 270.83 kbps GMSK data. Power consumption of the PLL is 13 mW in the RX synthesizer mode and 17 mW in the TX modulation mode. The circuit is fully digital, except for the loop filter which carries the analog VCO control voltage.
Sorption of fluoroacetate (compound 1080) by Colestipol, activated charcoal and anion-exchange in resins in vitro and gastrointestinal decontamination in rats. (2000)

The sorption of sodium fluoroacetate (FA) by activated charcoal (AC) and 5 anion exchange resins (AERs) was tested in 2 simulated gastrointestinal (GI) fluids. Each sorbent was incubated with FA in a shaker-water-bath at 37 C for 24 h. Supernatant was removed and filtered, and the concentration of FA was determined by gas chromatographic detection of the dichloroaniline derivative. Under simulated gastric conditions (0.1 M HCl at approximately pH 1.5), the sorbents removed the following proportions of FA from solution: Carbosorb AC, 87 +/- 2%; cholestyramine, 28 +/- 7%; colestipol, 96 +/- 0%; Amberlite IRA-96, 70 +/- 2%; DEAE-Sephadex, 7 +/- 4%; Chitosan, 66 +/- 2%. Under simulated intestinal conditions (0.05 M sodium phosphate at approximately pH 7.4), binding was as follows: Carbosorb AC, 68 +/- 4%; cholestyramine, 53 +/- 5%; colestipol, 46 +/- 2%; AmberliteIRA-96, 10 +/- 20%; DEAE-Sephadex, 64 +/- 7%; Chitosan, 5 +/- 2%. All findings differed significantly from control, with the exception of Amberlite IRA-96 and Chitosan in phosphate buffer, and DEAE-Sephadex in HCI. In a second study, rats were given 5 mg FA/kg, and then gavaged with 2 g/kg Carbosorb AC, colestipol or bentonite. Over 4 h, the area under the curve of serum FA versus time (AUC) decreased by 39% in the rats treated with colestipol and 42% in those treated with bentonite. In contrast, Carbosorb AC did not affect the AUC,yet increased Tmax In another study, mortality was assessed 96 h after rats were orally dosed with 5 mg FA/kg followed by gavage with 2 g/kg Carbosorb AC, colestipol or water immediatey or 30 min after dosing. When the sorbents were given immediately, mortality was the same as control (75%). Surprisingiy, the 30-min delay resulted in lower mortality in colestipol-treated rats, (approximately 38%) compared to 100% in the group treated with Carbosorb AC. Before any recommendation can be made regarding the use of colestipol as a GI decontaminant, the latter findings require confirmation in an intensive care setting. The potential for synergistic effects with 2 or more sorbents also warrant investigating.
Design Methodology for CMOS Gain-Boosted Folded-Cascode OTA with Application to SOI technology (1996)

Equations, criteria and procedures are presented for the design of gain-boosted folded-cascode CMOS OTAs and applied to bulk and SOI implementations and comparisons.
Chandrayaan-1: India's First Planetary Science Mission to the Moon (2009)

Chandrayaan-1, the first Indian planetary exploration mission, will carry out high resolution remote sensing studies of the moon to further our understanding about its origin and evolution. Hyper-spectral imaging in the UV-VIS-NIR region using three imaging spectrometers, along with a low energy X-ray spectrometer will provide mineralogical and chemical composition of the lunar surface at high spatial resolution. A terrain mapping camera will provide high resolution three-dimensional images of the lunar surface and will be complemented by a laser ranging instrument that will provide lunar altimetry. Three payloads ― a high energy X-γ ray spectrometer, a sub-keV atom reflecting analyser, and miniature imaging radar ― will be used for the first time for remote sensing exploration of a planetary body. They will investigate transport of volatiles on the lunar surface, presence of localized lunar mini-magnetosphere and possible presence of water ice in the permanently shadowed lunar polar region respectively. A radiation dose monitor will provide information on energetic particle flux en route to the moon and in lunar orbit. An impact probe carrying an imaging system, a radar altimeter and a mass spectrometer will be released from the spacecraft to land at a predestinated lunar site. The design of the one tonne-class spacecraft is primarily adapted from flight proven Indian Remote Sensing satellite bus with several modifications that are specific to the lunar mission. The spacecraft was launched by using a variant of the indigenous Polar Satellite Launch Vehicle (PSLV-XL) and placed in a 100 km circular polar orbit around the moon with a planned mission life of two years. An Indian Deep Space Network and an Indian Space Science Data Center have been established as a part of Chandrayaan-1 mission and will cater to the need of future Indian space science and planetary missions.
Evaluation of the WHO criteria for antiretroviral treatment failure among adults in South Africa (2008)

WHO clinical and CD4 criteria have poor sensitivity and specificity in detecting virological failure. The low specificities and positive predictive values mean that individuals with adequate virological suppression risk being incorrectly classified as having treatment failure and unnecessarily switched to second-line therapy. Virological failure should be confirmed before switching to second-line therapy.
Study and comparison of RCS of microstrip patch antennas on LiTi-ferrite substrate (2009)

Radar cross sections (RCS) of rectangular, circular and triangular microstrip patch antennas are presented which are printed on LiTi ferrite substrate in X-band (8-12 GHz) region. In this paper, we precise the preparation of a polycrystalline LiTi ferrite of 2200 Gauss saturation magnetization. The comparison of RCS patterns among RPMA, CPMA and TPMA shows the affective study of radar cross section which differentiates the stealth capacity as well as miniaturization due to the ferrite substrate application.
Hybrid Digital-Analog Codes for Source-Channel Broadcast of Gaussian Sources Over Gaussian Channels (2011)

The problem of broadcasting a parallel Gaussian source over an additive white Gaussian noise broadcast channel under the mean-squared error distortion criterion is studied. A hybrid digital-analog coding strategy which combines source coding with side information, channel coding with side information, layered source coding, and superposition broadcast channel coding is presented. When specialized to the open problem of broadcasting a white Gaussian source over an additive white Gaussian noise broadcast channel with bandwidth mismatch, which has been the subject of several previous investigations, this coding scheme strictly improves on the state of the art.
Elastin: relation of protein and gene structure to disease. (1984)

The elastic properties of many tissues such as the lung, dermis, and large blood vessels are due to the presence of elastic fibers in the extracellular space. These fibers have been shown by biochemical and ultrastructural analysis to be comprised of two distinct components, a more abundant amorphous component and the microfibrillar component. The microfibrillar component is found in 10- to 12-nm fibrils which are located primarily around the periphery of the amorphous component but, to some extent, interspersed within it. The protein, elastin, makes up the highly insoluble amorphous component and is responsible for the elastic properties. Elastin is found throughout the vertebrate kingdom except for very primitive fish and possesses an unusual chemical composition consonant with its characteristic physical properties. Elastin is composed largely of glycine, proline, and other hydrophobic residues and contains multiple lysine-derived cross-links, such as the desmosines, which link the individual polypeptide chains into a rubber-like network. The intervening, hydrophobic regions of the polypeptide chains between the cross-links are highly mobile, and the elastic properties of the fibers can be described in terms of the theory of rubber elasticity. Recent application of recombinant DNA techniques has led to further understanding of the structure of elastin. Analyses of the bovine and human elastin genes have demonstrated that the hydrophobic and cross-linking domains are encoded in separate exons. These exons tend to be small, varying from 27 to 114 base pairs, and are separated by large intervening sequences. Furthermore, DNA sequence analysis has demonstrated that the elastin molecule contains two cysteine residues which were not previously identified near the carboxy terminus and which may be important in the interaction of elastin with other extracellular matrix proteins. Further DNA sequencing should determine the complete amino acid sequence of elastin. Biosynthetic studies and in vitro translation of elastin mRNA have demonstrated that a 72,000-dalton polypeptide, designated tropoelastin, is the initial translation product. Analysis of several developing systems has demonstrated that elastin synthesis is controlled by the level of elastin mRNA. After packaging into membrane-bound vesicles in the Golgi apparatus, tropoelastin is secreted by exocytosis into the extracellular space where it is cross-linked by a copper-requiring extracellular enzyme, lysyl oxidase. Elastin can be solubilized only by proteases that have consequently been designated elastases, although these are general, powerful proteases that can hydrolyze numerous proteins.(ABSTRACT TRUNCATED AT 400 WORDS)
Two-photon cross-section measurements using an optical chopper:<i>z</i>-scan and two-photon fluorescence schemes (2009)

An effective z-scan setup with a minimum thermal effect is shown for intensity-dependent measure of two-photon absorption (TPA) with high-repetition rate lasers. Use of an additional intensity modulation with an optical chopper provides enough blanking time for a high-repetition rate laser to yield equally accurate results in TPA measurements compared to a low repetition laser. Extension of this method of thermal effect management with an optical chopper to emission studies also results in good correspondence for two-photon cross-section measurements from either z-scan or two-photon fluorescence techniques. The method also significantly enhances two-photon fluorescence, which could be promising for multiphoton microscopy.
Contingency-Aware Exploration in Reinforcement Learning (2018)

This paper investigates whether learning contingency-awareness and controllable aspects of an environment can lead to better exploration in reinforcement learning. To investigate this question, we consider an instantiation of this hypothesis evaluated on the Arcade Learning Element (ALE). In this study, we develop an attentive dynamics model (ADM) that discovers controllable elements of the observations, which are often associated with the location of the character in Atari games. The ADM is trained in a self-supervised fashion to predict the actions taken by the agent. The learned contingency information is used as a part of the state representation for exploration purposes. We demonstrate that combining actor-critic algorithm with count-based exploration using our representation achieves impressive results on a set of notoriously challenging Atari games due to sparse rewards. For example, we report a state-of-the-art score of >11,000 points on Montezuma's Revenge without using expert demonstrations, explicit high-level information (e.g., RAM states), or supervisory data. Our experiments confirm that contingency-awareness is indeed an extremely powerful concept for tackling exploration problems in reinforcement learning and opens up interesting research questions for further investigations.
Actinide removal from aqueous solution with activated magnetite (1987)

An actinide aqueous waste treatment process using activated magnetite has been developed at Rocky Flats. The use and effectiveness of various magnetites in lowering actinide concentrations in aqueous solution are described. Experiments indicate that magnetite particle size and pretreatment (activation of the magnetite surface with hydroxyl ions greatly influence the effective use of magnetite as an actinide adsorbent. With respect to actinide removal, Ba(OH)/sub 2/-activated magnetite was more effective over a broader pH range than was NaOH-activated magnetite. About 50% less Ba(OH)/sub 2/-activated magnetite was required to lower plutonium concentration from 10/sup -4/ to 10/sup -8/ g/l. 7 refs., 8 tabs.
Increase of soluble FcgRIIIa derived from natural killer cells and macrophages in plasma from patients with rheumatoid arthritis. (2003)

Increased sFcgRIIIa levels in RA patients were found to be caused by NK cell and/or macrophage activation. Plasma sFcgRIIIa levels may serve as a marker for disease activity in RA.