gebhart/patrepeval huggingface dataset:
The Texas Cytoplasm of Maize: Cytoplasmic Male Sterility and Disease Susceptibility (1990)

The Texas cytoplasm of maize carries two cytoplasmically inherited traits, male sterility and disease susceptibility, which have been of great interest both for basic research and plant breeding. The two traits are inseparable and are associated with an unusual mitochondrial gene, T-urf13, which encodes a 13-kilodalton polypeptide (URF13). An interaction between fungal toxins and URF13, which results in permeabilization of the inner mitochondrial membrane, accounts for the specific susceptibility to the fungal pathogens.
Detecting and segmenting humans in crowded scenes (2007)

We describe an approach for detecting and segmenting humans with extensive posture articulations in crowded video sequences. In our method we learn a set of mean posture clusters, and a codebook of local shape distributions for humans in various postures. Detection proceeds in two stages: first instances of the codebook entries cast votes for locations of humans in the video and their respective postures. Subsequently, consistent hypotheses are found as maxima within a voting space. The segmentation of humans in the scene is initialized by the corresponding posture clusters and contours are evolved to obtain precise and consistent segmentations.
3‐D Integrated All‐Solid‐State Rechargeable Batteries (2007)

Abstract Portable society urgently calls for integrated energy supplies. This holds for autonomous devices but even more so for future medical implants. Evidently, rechargeable integrated all‐solid‐state batteries will play a key role in these fields, enabling miniaturization, preventing electrode degradation upon cycling and electrolyte leakage. Planar solid‐state thin film batteries are rapidly emerging but reveal several potential drawbacks, such as a relatively low energy density and the use of highly reactive lithium. Thin film Si‐intercalation electrodes covered with a solid‐state electrolyte are found to combine a high storage capacity of 3500 mAh g –1 with high cycle life, enabling to integrate batteries in Si. Based on the excellent intercalation chemistry of Si, a new 3D‐integrated all‐solid‐state battery concept is proposed. High aspect ratio cavities and features, etched in silicon, will yield large surface area batteries with anticipated energy density of about 5 mWh μm –1 cm –2 , i.e. more than 3 orders of magnitude higher than that of integrated capacitors.
Activation of transcription factor NF-kappaB by the Tat protein of human immunodeficiency virus type 1 (1996)

A recombinant Tat protein was used to investigate the molecular mechanisms of transcriptional activation of the human immunodeficiency virus type 1 long terminal repeat (LTR). Liposome-mediated delivery of this protein to responsive cells results in dose-dependent LTR activation. As evaluated by mRNA quantitation with competitive PCR, the activation response is rapid and transient, peaking at 5 h after the beginning of Tat treatment. In vivo footprinting experiments at the LTR showed that transcriptional activation is concomitant with a modification of the protein-DNA interaction pattern at the downstream kappaB site of the enhancer and at the adjacent Sp1 boxes. The effects of Tat on the enhancer are mediated by Tat-induced nuclear translocation of NF-kappaB, which parallels the kinetics of transcriptional activation. This induction results from degradation of the inhibitor IkappaB-alpha, is blocked under antioxidant conditions and by a protease inhibitor, and occurs as a rapid response in different cell types. The functional response to Tat is impaired upon cell treatment with a kappaB site decoy or with sodium salicylate, an inhibitor of NF-kappaB activation. These results show that NF-kappaB activation by Tat is important for LTR transcriptional activation. Furthermore, they suggest that some of the pleiotropic effects of Tat on cellular functions can be mediated by induction of NF-kappaB.
Fluorine Transfer to Alkyl Radicals (2012)

The development of new synthetic technologies for the selective fluorination of organic compounds has increased with the escalating importance of fluorine-containing pharmaceuticals. Traditional methods potentially applicable to drug synthesis rely on the use of ionic forms of fluorine (F(-) or F(+)). Radical methods, while potentially attractive as a complementary approach, are hindered by a paucity of safe sources of atomic fluorine (F(•)). A new approach to alkyl fluorination has been developed that utilizes the reagent N-fluorobenzenesulfonimide as a fluorine transfer agent to alkyl radicals. This approach is successful for a broad range of alkyl radicals, including primary, secondary, tertiary, benzylic, and heteroatom-stabilized radicals. Furthermore, calculations reveal that fluorine-containing ionic reagents are likely candidates for further expansion of this approach to polar reaction media. The use of these reagents in alkyl radical fluorination has the potential to enable powerful new transformations that otherwise would take multiple synthetic steps.
Solid-State Mesostructured Perovskite CH3NH3PbI3 Solar Cells: Charge Transport, Recombination, and Diffusion Length (2014)

We report on the effect of TiO2 film thickness on charge transport and recombination in solid-state mesostructured perovskite CH3NH3PbI3 (via one-step coating) solar cells using spiro-MeOTAD as the hole conductor. Intensity-modulated photocurrent/photovoltage spectroscopies show that the transport and recombination properties of solid-state mesostructured perovskite solar cells are similar to those of solid-state dye-sensitized solar cells. Charge transport in perovskite cells is dominated by electron conduction within the mesoporous TiO2 network rather than from the perovskite layer. Although no significant film-thickness dependence is found for transport and recombination, the efficiency of perovskite cells increases with TiO2 film thickness from 240 nm to about 650-850 nm owing primarily to the enhanced light harvesting. Further increasing film thickness reduces cell efficiency associated with decreased fill factor or photocurrent density. The electron diffusion length in mesostructured perovskite cells is longer than 1 μm for over four orders of magnitude of light intensity.
Improvements in TDMA circuit switching services on a tree‐shaped broadband network (1992)

Abstract This paper attempts to realize the TDMA circuit switching service on the broadband tree‐shaped network applying the two‐way coaxial CATV techniques. The improvement of the time‐slotted bus system with controller window proposed previously by the authors is discussed. To make this system practical, such problems as simplification of terminal device and expansion of service scale must be solved. For this purpose, the “center measurement method” and the “variable width control window method” are developed anew. The former is a system which measures such parameters as the round‐trip transmission delay at the central control device and notifies the terminal of the result. By improving the down‐link transmission quality of the control window, which is important from the viewpoint of the stable operation of the whole system and by reducing the high‐speed operation functions, the terminal device is simplified. The latter is to adjust the control window width according to the traffic. By this scheme, the number of contained time‐slots, i.e., the number of serviceable subscribers, can be increased without reducing the wide service area of the broadband tree‐shaped network. A prototype system was constructed based on those two system improvements, and an experimental evaluation was attempted on the experimental two‐way CATV system with a total length of 7.9 km. As a result, it was verified that the foregoing improvements are useful and matched to each other.
Brain Organization of Motor and Language Functions Following Hemispherectomy: A [15O]-Water Positron Emission Tomography Study (1998)

The capacity of the developing brain for compensatory reorganization after early hemispherectomy has been previously shown in neurobehavioral studies, above all with regard to language recovery. The present study examines the organization of motor and language areas by means of [(15)O]-water positron emission tomography (PET) in a 6-year-old boy who underwent right functional hemispherectomy at age 3 years. The results suggest that compensatory allocation for movement of the weak hand primarily involves the premotor, inferior frontal, and insular cortices, and the supplementary motor area in the retained hemisphere, as well as the bilateral cerebellum. Receptive language and prosodic functions primarily activated the left perisylvian cortices. However, language and motor activations were also seen in cortical and subcortical remains on the hemispherectomized side suggesting incomplete disconnection by functional hemispherectomy.
Gas concentration measurement by spectral correlation: rejection of interferent species (1985)

Devices for continuous, in situ concentration measurements of one chemical species in a gaseous mixture rely on dispersive or nondispersive infrared (NDIR) methods. The latter are better for luminosity. NDIR spectral correlators are superior to NDIR broadband analyzers because of their selectivity. Spectral correlators include gas filter correlators and interferometric correlators. The principles of these two methods are reviewed. A synthetic analysis including both allows us to describe quantitatively their sensitivity to the wanted species and rejection of various kinds of interferent. A comparative study of these parameters is presented as an example and commented on the basis of properties in the spectral space and in the Fourier conjugate space. Interferometric correlators are shown to be better for rejection of long-term drifts affecting spectral characteristics and of similar nongaseous interferents; otherwise, either setup may be preferable depending on each particular set of experimental conditions.
Estimate of IC Engine Torque from Measurement of Crankshaft Angular Position (1993)

&lt;div class="htmlview paragraph"&gt;Crankshaft angular position measurements are fundamental to all modern automotive engines. These measurements are required to control fuel injection timing as well as ignition timing. However, many other functions can be performed from such measurements through the use of advanced signal processing. These additional functions are essentially diagnostic in nature although there is potential for substitution of primary fuel and ignition control functions. This paper illustrates the application of crankshaft angular position measurement to the estimation of individual cylinder indicated and/or brake torque in IC engines from measurement of crankshaft position/velocity.&lt;/div&gt;
BACE Inhibitors as Potential Drugs for the Treatment of Alzheimers Disease: Focus on Bioactivity (2011)

Current drug development for the treatment of Alzheimer's Disease is principally based on the amyloid cascade theory, and aims to reduce the levels of Aβ amyloid peptide in the brain. This can be achieved, either by decreasing peptide production through inhibition of β-secretase (also known as BACE-1) or γ-secretase, or by interfering with Aβ aggregation, or by promoting Aβ clearance. Targeting BACE-1, the proteolytic enzyme that initiates Aβ formation, has generated a lot of research interest recently and is currently thought to be one of the most promising therapeutic approaches. In this review, we summarize and discuss the latest patents and publications describing BACE-1 inhibitors, principally focussing on their drug properties and performance in preclinical trials.
The Forgotten Constitutional Moment. (1994)

Theory and history have an uncomfortable relation.Sometimes theory derives from history, as an attempt to explain and reconcile events that have taken place.And sometimes history trips up theory, when events stubbornly refuse to conform to the theory we have laid out.One currently popular constitutional theory, the theory of "constitutional moments" championed by Yale Professor Bruce Ackerman, purports to be derived from history.The present state of orthodox constitutional theory, Ackerman says, is "peculiarly ahistorical," which has produced "a remarkable breach between constitutional theory and constitutional practice."tOur constitutional order, he says, "is best rediscovered by reflecting on the course of its historical development over the past two centuries."zAckerman's history reveals that the real Constitution is not truly, or not solely, the text we call the "Constitution," nor is it whatever five Justices of the Supreme Court think it is.The real Constitution is a set of principles adopted by "We, the People" at extraordinary "moments" of intense constitutional participation and deliberation, with or without changes in the constitutional text.These "moments" result in constitutional transformations that are and should be honored by the courts and other political actors no less than amendments adopted pursuant to Article V. This, according to devotees of the theory, has happened three times in American history: in 1787, when the Federalists
Testosterone undecanoate – increase of oral bioavailability by nanostructured lipid carriers (NLC) (2013)

Introduction Testosterone (T) has a poor bioavailability due to its extensive first pass metabolism by the liver. Therefore in commercial products lipidic derivatives of testosterone are used, e. g. testosterone undecanoate (TU) and testosterone enantate (TE). Still the oral bioavailability (BA) is very low, approx. about 7 % for TU in
Circulating clonotypic B cells in classic Hodgkin lymphoma (2009)

Abstract Although Hodgkin and Reed-Sternberg (HRS) cells are B lymphoid cells, they are unlike any normal cells of that lineage. Moreover, the limited proliferative potential of HRS cells belies the clinical aggressiveness of Hodgkin lymphoma (HL). More than 20 years ago, the L428 HL cell line was reported to contain a small population of phenotypic B cells that appeared responsible for the continued generation of HRS cells. This observation, however, has never been corroborated, and such clonotypic B cells have never been documented in HL patients. We found that both the L428 and KM-H2 HL cell lines contained rare B-cell subpopulations responsible for the generation and maintenance of the predominant HRS cell population. The B cells within the HL cell lines expressed immunoglobulin light chain, the memory B-cell antigen CD27, and the stem cell marker aldehyde dehydrogenase (ALDH). Clonal CD27+ALDHhigh B cells, sharing immunoglobulin gene rearrangements with lymph node HRS cells, were also detected in the blood of most newly diagnosed HL patients regardless of stage. Although the clinical significance of circulating clonotypic B cells in HL remains unclear, these data suggest they may be the initiating cells for HL.
Action-driven 3D indoor scene evolution (2016)

We introduce a framework for action-driven evolution of 3D indoor scenes, where the goal is to simulate how scenes are altered by human actions, and specifically, by object placements necessitated by the actions. To this end, we develop an action model with each type of action combining information about one or more human poses, one or more object categories, and spatial configurations of objects belonging to these categories which summarize the object-object and object-human relations for the action. Importantly, all these pieces of information are learned from annotated photos. Correlations between the learned actions are analyzed to guide the construction of an action graph. Starting with an initial 3D scene, we probabilistically sample a sequence of actions from the action graph to drive progressive scene evolution. Each action triggers appropriate object placements, based on object co-occurrences and spatial configurations learned for the action model. We show results of our scene evolution that lead to realistic and messy 3D scenes, as well as quantitative evaluations by user studies which compare our method to manual scene creation and state-of-the-art, data-driven methods, in terms of scene plausibility and naturalness.
Antidepressants and ABCB1 Gene C3435T Functional Polymorphism: A Naturalistic Study (2010)

While some in vitro studies showed an influence of P-GP on cerebral concentrations of antidepressants, our results do not support the hypothesis that the C3435T polymorphism is involved in therapeutic response and safety of antidepressants in naturalistic clinical conditions, confirming results of previous studies on efficacy. Nonetheless, some methodological limitations may explain our negative results.
Preparation of isotopically labeled ribonucleotides for multidimensional NMR spectroscopy of RNA (1992)

A general method for large scale preparation of uniformly isotopically labeled ribonucleotides and RNAs is described. Bacteria are grown on isotopic growth medium, and their nucleic acids are harvested and degraded to mononucleotides. These are enzymatically converted into ribonucleoside triphosphates, which are used in transcription reactions in vitro to prepare RNAs for NMR studies. For 15N-labeling, E.coli is grown on 15N-ammonium sulfate, whereas for 13C-labeling, Methylophilus methylotrophus is grown on 13C-methanol, which is more economical than 13C-glucose. To demonstrate the feasibility and utility of this method, uniformly 13C-labeled ribonucleotides were used to synthesize a 31 nucleotide HIV TAR RNA that was analyzed by 3D-NMR. This method should find widespread use in the structural analysis of RNA by NMR.
Untangling tau hyperphosphorylation in drug design for neurodegenerative diseases (2007)

Aggregation of hyperphosphorylated tau is one of the characteristic neuropathological lesions of Alzheimer's disease and other neurodegenerative disorders. Pharmacological modulation of tau hyperphosphorylation might represent a valid and feasible therapeutic strategy for such disorders. Here, we consider recent evidence supporting the validity of the three most relevant kinases affecting tau hyperphosphorylation - GSK3beta, CDK5 and ERK2 - as drug targets and describe progress in the design of inhibitors for these kinases.
Synthetic Endotoxin-Binding Peptides Block Endotoxin- Triggered TNF-α Production by Macrophages In Vitro and In Vivo and Prevent Endotoxin-Mediated Toxic Shock (2000)

Lipid A, the conserved portion of endotoxin, is the major mediator of septic shock; therefore, endotoxin-neutralizing molecules could have important clinical applications. Here we show that peptides derived from Limulus anti-LPS factor (LALF), bactericidal/permeability increasing protein (BPI) and endotoxin-binding protein, bind to lipid A and block the recombinant LALF/lipid A interaction in vitro. Because their neutralizing capacity in vitro as well as in vivo has been limited, we created hybrid peptides comprising two endotoxin-binding domains. The hybrid molecule LL-10-H-14, containing endotoxin-binding domains from LALF and endotoxin-binding protein, turned out to be the most active peptide within the series of peptides tested here to inhibit the CD14/lipid A interaction and is able in vitro to block the endotoxin-induced TNF-alpha release of murine macrophages up to 90%. Furthermore, LL-10-H-14 not only reduced peak serum levels of TNF-alpha of mice when preinjected but also reduced TNF-alpha levels when given 15 min after the endotoxin challenge. As compared with other peptides, only LL-10-H-14 is able to strongly decrease endotoxin-stimulated TNF-alpha release by human macrophage cell lines as well as by PBMC. Furthermore, the hybrid peptide is protective against endotoxin-provoked lethal shock. As such, LL-10-H-14 could have prophylactic and/or therapeutic properties in humans for the management of septic shock.
Robust Genome Editing of Single-Base PAM Targets with Engineered ScCas9 Variants (2019)

Programmable CRISPR enzymes are powerful and versatile tools for genome editing. They, however, require a specific protospacer adjacent motif (PAM) flanking the target site, which constrains the accessible sequence space for position-specific genome editing applications, such as base editing and homology-directed repair. For example, the standard Cas9 from Streptococcus pyogenes requires a PAM sequence of 5’-NGG-3’ downstream of its RNA-programmed target. Recently, three separate Cas9 enzymes (xCas9-3.7, SpCas9-NG, and ScCas9) have been independently engineered or discovered to reduce the PAM specificity to a single guanine (G) nucleotide, thus greatly expanding the number of targetable sequences. In this study, we have employed motifs from closely-related orthologs to engineer and optimize ScCas9 to exhibit enhanced genome editing and higher fidelity. Our engineered variants demonstrate superior activity within gene repression and nucleolytic contexts and possess effective base editing capabilities.
Transformation of the Oomycete Pathogen,Phytophthora infestans (1991)

A stable transformation procedure has been developed for Phytophthora infestans, an oomycete fungus that causes the late blight diseases of potato and tomato. This is the first description of reliable methods for transformation in an oomycete pathogen. Drug-resistant transformants were obtained by using vectors that contained bacterial genes for resistance to hygromycin B or G418 fused to promoters and terminators from the Hsp70 and Ham34 genes of the oomycete, Bremia lactucae. Using polyethylene glycol and CaCl2, vector DNA was introduced into protoplasts as a complex with cationic liposomes or with carrier DNA only. Transformants were obtained at similar frequencies with each combination of promoter and selectable marker and were confirmed by DNA and RNA hybridization and phosphotransferase assays. Transformation occurred through the integration of single or tandemly repeated copies of the plasmids into genomic DNA, conferring mitotically stable drug-resistant phenotypes. The sizes of the marker gene mRNAs in each transformant and the results of transcript mapping studies were consistent with the function of the B. lactucae regulatory sequences in P. infestans. A hygromycin-resistant transformant was tested and found to maintain pathogenicity, indicating that the gene transfer procedure will be useful for the molecular analysis of genes relevant to disease.
OOC-3, a novel putative transmembrane protein required for establishment of cortical domains and spindle orientation in the P1 blastomere of C. elegans embryos (2000)

Asymmetric cell divisions require the establishment of an axis of polarity, which is subsequently communicated to downstream events. During the asymmetric cell division of the P(1) blastomere in C. elegans, establishment of polarity depends on the establishment of anterior and posterior cortical domains, defined by the localization of the PAR proteins, followed by the orientation of the mitotic spindle along the previously established axis of polarity. To identify genes required for these events, we have screened a collection of maternal-effect lethal mutations on chromosome II of C. elegans. We have identified a mutation in one gene, ooc-3, with mis-oriented division axes at the two-cell stage. Here we describe the phenotypic and molecular characterization of ooc-3. ooc-3 is required for the correct localization of PAR-2 and PAR-3 cortical domains after the first cell division. OOC-3 is a novel putative transmembrane protein, which localizes to a reticular membrane compartment, probably the endoplasmic reticulum, that spans the whole cytoplasm and is enriched on the nuclear envelope and cell-cell boundaries. Our results show that ooc-3 is required to form the cortical domains essential for polarity after cell division.