gebhart/patrepeval huggingface dataset:
High-Resolution Analysis and Functional Mapping of Cleavage Sites and Substrate Proteins of Furin in the Human Proteome (2013)

The assignment of these substrates to cellular pathways suggests an important role of furin in development, including axonal guidance, cardiogenesis, and maintenance of stem cell pluripotency. The novel approach proposed in this study can be readily applied to other proteinases.
Steroid Receptor Coactivator-2 Is a Dual Regulator of Cardiac Transcription Factor Function (2014)

We have previously demonstrated the potential role of steroid receptor coactivator-2 (SRC-2) as a co-regulator in the transcription of critical molecules modulating cardiac function and metabolism in normal and stressed hearts. The present study seeks to extend the previous information by demonstrating SRC-2 fulfills this role by serving as a critical coactivator for the transcription and activity of critical transcription factors known to control cardiac growth and metabolism as well as in their downstream signaling. This knowledge broadens our understanding of the mechanism by which SRC-2 acts in normal and stressed hearts and allows further investigation of the transcriptional modifications mediating different types and degrees of cardiac stress. Moreover, the genetic manipulation of SRC-2 in this study is specific for the heart and thereby eliminating potential indirect effects of SRC-2 deletion in other organs. We have shown that SRC-2 is critical to transcriptional control modulated by MEF2, GATA-4, and Tbx5, thereby enhancing gene expression associated with cardiac growth. Additionally, we describe SRC-2 as a novel regulator of PPARα expression, thus controlling critical steps in metabolic gene expression. We conclude that through regulation of cardiac transcription factor expression and activity, SRC-2 is a critical transcriptional regulator of genes important for cardiac growth, structure, and metabolism, three of the main pathways altered during the cardiac stress response.
F-spondin and mindin: two structurally and functionally related genes expressed in the hippocampus that promote outgrowth of embryonic hippocampal neurons (1999)

Extracellular matrix (ECM) proteins play an important role in early cortical development, specifically in the formation of neural connections and in controlling the cyto-architecture of the central nervous system. F-spondin and Mindin are a family of matrix-attached adhesion molecules that share structural similarities and overlapping domains of expression. Genes for both proteins contain a thrombospondin type I repeat(s) at the C terminus and an FS1-FS2 (spondin) domain. Both the vertebrate F-spondin and the zebrafish mindins are expressed on the embryonic floor plate. In the current study we have cloned the rat homologue of mindin and studied its expression and activity together with F-spondin in the developing rodent brain. The two genes are abundantly expressed in the developing hippocampus. In vitro studies indicate that both F-spondin and Mindin promote adhesion and outgrowth of hippocampal embryonic neurons. We have also demonstrated that the two proteins bind to a putative receptor(s) expressed on both hippocampal and sensory neurons.
Highly efficient reversible addition–fragmentation chain‐transfer polymerization in ethanol/water via flow chemistry (2017)

Abstract Utilization of a flow reactor under high pressure allows highly efficient polymer synthesis via reversible addition–fragmentation chain‐transfer ( RAFT ) polymerization in an aqueous system. Compared with the batch reaction, the flow reactor allows the RAFT polymerization to be performed in a high‐efficiency manner at the same temperature. The adjustable pressure of the system allows further elevation of the reaction temperature and hence faster polymerization. Other reaction parameters, such as flow rate and initiator concentration, were also well studied to tune the monomer conversion and the molar mass dispersity (Đ) of the obtained polymers. Gel permeation chromatography, nuclear magnetic resonance (NMR), and Fourier transform infrared spectroscopies (FTIR) were utilized to monitor the polymerization process. With the initiator concentration of 0.15 mmol L −1 , polymerization of poly(ethylene glycol) methyl ether methacrylate with monomer conversion of 52% at 100 °C under 73 bar can be achieved within 40 min with narrow molar mass dispersity (D) Đ (&lt;1.25). The strategy developed here provides a method to produce well‐defined polymers via RAFT polymerization with high efficiency in a continuous manner. © 2017 Society of Chemical Industry
Accurate skin dose measurements using radiochromic film in clinical applications (2006)

Megavoltage x‐ray beams exhibit the well‐known phenomena of dose buildup within the first few millimeters of the incident phantom surface, or the skin. Results of the surface dose measurements, however, depend vastly on the measurement technique employed. Our goal in this study was to determine a correction procedure in order to obtain an accurate skin dose estimate at the clinically relevant depth based on radiochromic film measurements. To illustrate this correction, we have used as a reference point a depth of . We used the new dosimetry films (HS, XR‐T, and EBT) that have effective points of measurement at depths slightly larger than . In addition to films, we also used an Attix parallel‐plate chamber and a home‐built extrapolation chamber to cover tissue‐equivalent depths in the range from to of water‐equivalent depth. Our measurements suggest that within the first millimeter of the skin region, the PDD for a photon beam and field size of increases from 14% to 43%. For the three dosimetry film models, the beam entrance skin dose measurement corrections due to their effective point of measurement are as follows: 15% for the EBT, 15% for the HS, and 16% for the XR‐T model films. The correction factors for the exit skin dose due to the build‐down region are negligible. There is a small field size dependence for the entrance skin dose correction factor when using the EBT film model. Finally, a procedure that uses EBT model film for an accurate measurement of the skin dose in a parallel‐opposed pair photon beam arrangement is described.
Tainung 68, the First BPH-Resistant Japonica Cultivar Developed in Taiwan (1982)

This article 'Tainung 68, the First BPH-Resistant Japonica Cultivar Developed in Taiwan' appeared in the International Rice Research Newsletter series, created by the International Rice Research Institute (IRRI). The primary objective of this publication was to expedite communication among scientists concerned with the development of improved technology for rice and for rice based cropping systems. This publication will report what scientists are doing to increase the production of rice in as much as this crop feeds the most densely populated and land scarce nations in the world.
A Flexible Universal Plane for Displays (2011)

FlexUPD is the Industrial Technology Research Institute's flexible‐universal‐plane solution for quality flexible displays and other non‐display applications. Using FlexUPD technology, ITRI successfully integrated a flexible TFT backplane with AMOLEDs and received The Wall Street Journal's 2010 Technology Innovation Gold Award.
Pathology of Second-Generation Everolimus-Eluting Stents Versus First-Generation Sirolimus- and Paclitaxel-Eluting Stents in Humans (2013)

CoCr-EES demonstrated greater strut coverage with less inflammation, less fibrin deposition, and less late and very late stent thrombosis compared with SES and PES in human autopsy analysis. Nevertheless, the observed frequencies of neoatherosclerosis and fracture-related adverse pathological events were comparable in these devices, indicating that careful long-term follow-up remains important even after CoCr-EES placement.
Using a hierarchical multi‐resolution mechanism for the classification and semantic extraction of landuse maps for Beer‐Sheva, Israel (2007)

The spatial analysis of remotely sensed images evolves in three stages: physical classification, semantic extraction, and information recognition. The traditional approaches to image processing use only the first stage. In this paper, a hierarchical multi‐resolution structure was developed by the use of segmentation to integrate the three stages into one common platform. Following a spatial segmentation, hierarchical multi‐resolution layers were formed to handle the various information needs inherent in the various ground features identified within the image. The relationship between image objects in one layer, or several layers, characterized the segmental objects in spectral, spatial, and hierarchical perspectives, generating new additional layers of information for image analysis. Consequently when the classification was finished, the semantic hierarchy of the ground features and information hidden within the image pixels were extracted. Finally this classification is achieved through image processing by initially decomposing the image into the most basic physical objects and the recomposing into semantic objects. The superiority of the method is obvious: (i) semantic extraction and information recognition can be synthetically performed with the classification procedure in the image processing; (ii) the way that per‐pixel handling is promoted to per‐object analysis makes image processing more natural; and (iii) the mechanism analysing the relationship in a multi‐resolution hierarchy yields a better understanding of the image objects, both semantically and physically.
Modeling Method of Stray Magnetic Couplings in an EMC Filter for Power Electronic Devices (2015)

This paper proposes a remarkably efficient modeling method of stray magnetic couplings in an Electromagnetic Compatibility (EMC) filter that focuses on the dominant magnetic field in a power electronic device. The proposed modeling method was applied for simulating the filter performance of an EMC filter for a Silicon Carbide (SiC) solar inverter, and its effectiveness was verified through a comparison of the measurement and simulation results. With the proposed modeling method, the influence of the stray magnetic couplings on the filter performance can be predicted well. Further, the results matched those of the measurement and simulation with a conventional modeling method. Accordingly, the number of stray magnetic couplings required for accurate prediction can be dramatically reduced from 325 to just one.
Few‐Atomic‐Layered Co‐Doped BiOBr Nanosheet: Free‐Standing Anode with Ultrahigh Mass Loading for “Rocking Chair” Zinc‐Ion Battery (2022)

Insertion host materials are considered as a candidate to replace metallic Zn anode. However, the high mass loading anode with good electrochemical performances is reported rarely. Herein, a few-atomic-layered Co-doped BiOBr nanosheet (Co-UTBiOBr) is prepared via one-step hydrothermal method and a free-standing flexible electrode consisting of Co-UTBiOBr and CNTs is designed. Ultrathin nanosheet (3 atomic layers) and CNTs accelerate Zn<sup>2+</sup> and electron transfer respectively. The Co-doping is conducive to the reduced Zn<sup>2+</sup> diffusion barrier, the improved volume expansion after Zn<sup>2+</sup> intercalation, and the enhanced electronic conductivity of BiOBr, verified by experimental and theoretical studies. An insertion-conversion mechanism is proposed according to ex situ characterizations. Benefiting from many advantages, Co-UTBiOBr displays a high capacity of 150 mAh g<sup>-1</sup> at 0.1 A g<sup>-1</sup> and a long-term cyclic life with ≈100% capacity attention over 3000 cycles at 1 A g<sup>-1</sup> . Remarkably, excellent electrochemical performances are maintained even at an ultrahigh mass loading of 15 mg cm<sup>-2</sup> . Co-UTBiOBr//MnO<sub>2</sub> "rocking chair" zinc-ion battery exhibits a stable capacity of ≈130 mAh g<sup>-1</sup> at 0.2 A g<sup>-1</sup> during cyclic test and its flexible quasi-solid-state battery shows outstanding stability under various bending states. This work provides a new idea for designing high mass loading anode.
Scalable 3D graphics processing in consumer terminals (2003)

In this paper, we present how scalable 3D graphics fits into a quality-of-service resource management approach for high volume electronics consumer terminals. Resource management is based on guaranteed and enforced resource budgets, which are allocated by a global quality manager. A specific 3D QoS manager makes sure that a 3D graphics service performs acceptably within the limitations of its budget. Based on models that estimate the quality and workload of functional tasks, such as rendering and decoding, for 3D objects, the scaling parameters of these tasks are adapted to guarantee real-time operation, possibly at a slightly degraded perceived quality. The validity of the approach is demonstrated with a 3D graphics application running in conjunction with video decoding on a Philips set-top box containing a TriMedia/spl trade/ processor.
RNase E Is Required for Induction of the Glutamate-Dependent Acid Resistance System inEscherichia coli (2007)

The Escherichia coli RNase E is an essential endoribonuclease involved in processing and/or degradation of rRNAs, tRNAs, and non-coding small RNAs as well as many mRNAs. It is known that RNase E activity is somehow regulated by an RNA-binding protein Hfq, at least in some cases. We searched for proteins that showed changes in expression in both hfq::cat and rne-1 mutant cells as compared with the wild type, and found that a protein band of 49-kDa decreased in these mutant cells at 42 degrees C, the restrictive temperature for rne-1. N-terminal amino acid sequencing identified it as a mixture of GadA and GadB, two isozymes of glutamate decarboxylase involved in glutamate-dependent acid resistance. The rne-1 mutant as well as the hfq mutant showed decreased survival under acidic conditions (pH 2.5). Hfq is known to regulate the expression of GadA/B in RpoS- and GadY small RNA-dependent ways. We examined the expression of these two regulators in rne-1 mutant cells. In the mutant cells, the induction of GadY was defective at 42 degrees C, but the expression of RpoS was normal. These results indicate that RNase E is required for induction of the glutamate-dependent acid resistance system in a RpoS-independent manner.
Epstein–Barr Virus Epithelial Cancers—A Comprehensive Understanding to Drive Novel Therapies (2021)

Epstein-Barr virus (EBV) is a ubiquitous oncovirus associated with specific epithelial and lymphoid cancers. Among the epithelial cancers, nasopharyngeal carcinoma (NPC), lymphoepithelioma-like carcinoma (LELC), and EBV-associated gastric cancers (EBVaGC) are the most common. The role of EBV in the pathogenesis of NPC and in the modulation of its tumour immune microenvironment (TIME) has been increasingly well described. Much less is known about the pathogenesis and tumour-microenvironment interactions in other EBV-associated epithelial cancers. Despite the expression of EBV-related viral oncoproteins and a generally immune-inflamed cancer subtype, EBV-associated epithelial cancers have limited systemic therapeutic options beyond conventional chemotherapy. Immune checkpoint inhibitors are effective only in a minority of these patients and even less efficacious with molecular targeting drugs. Here, we examine the key similarities and differences of NPC, LELC, and EBVaGC and comprehensively describe the clinical, pathological, and molecular characteristics of these cancers. A deeper comparative understanding of these EBV-driven cancers can potentially uncover targets in the tumour, TIME, and stroma, which may guide future drug development and cast light on resistance to immunotherapy.
Membrane-shaping host reticulon proteins play crucial roles in viral RNA replication compartment formation and function (2010)

Positive-strand RNA viruses replicate their genomes on membranes with virus-induced rearrangements such as single- or double-membrane vesicles, but the mechanisms of such rearrangements, including the role of host proteins, are poorly understood. Brome mosaic virus (BMV) RNA synthesis occurs in ≈70 nm, negatively curved endoplasmic reticulum (ER) membrane invaginations induced by multifunctional BMV protein 1a. We show that BMV RNA replication is inhibited 80-90% by deleting the reticulon homology proteins (RHPs), a family of membrane-shaping proteins that normally induce and stabilize positively curved peripheral ER membrane tubules. In RHP-depleted cells, 1a localized normally to perinuclear ER membranes and recruited the BMV 2a(pol) polymerase. However, 1a failed to induce ER replication compartments or to recruit viral RNA templates. Partial RHP depletion allowed formation of functional replication vesicles but reduced their diameter by 30-50%. RHPs coimmunoprecipitated with 1a and 1a expression redirected >50% of RHPs from peripheral ER tubules to the interior of BMV-induced RNA replication compartments on perinuclear ER. Moreover, RHP-GFP fusions retained 1a interaction but shifted 1a-induced membrane rearrangements from normal vesicles to double membrane layers, a phenotype also induced by excess 1a-interacting 2a(pol). Thus, RHPs interact with 1a, are incorporated into RNA replication compartments, and are required for multiple 1a functions in replication compartment formation and function. The results suggest possible RHP roles in the bodies and necks of replication vesicles.
Conditions for Segregation of a Crystal‐Rich Layer Within a Convective Magma Ocean (2023)

Abstract The vigor of the thermal convection in a terrestrial magma ocean tends to prevent the sedimentation of the solid grains. Understanding of the overall dynamical behavior of this solid phase segregation is required to anticipate the solidification mechanisms in the early Earth mantle. We develop numerical models to monitor the crystal fraction evolution of a convecting magmatic reservoir. Our models show that the ability of the crystal fraction to disperse or sediment within the domain strongly depends on the crystal size, the density difference and the magma viscosity. Our models show that the critical value of the convection/buoyancy stress ratio separating sedimentation/suspension regimes can be smaller than 0.1. Hence, during the early crystallization of a magma ocean, suspension should be the dominant process. We then investigate the possibility of bridgmanite segregation by comparing the density difference between the MO and the solid crystals for different compositions and the critical density contrast above which crystal segregation is likely to occur. We define the relevant set of parameters; including the P‐V‐T equations of state of coexisting melt and bridgmanite in the mushy MO. We observe that bridgmanite grains are unlikely to segregate in a mantle of pyrolite composition. However, bridgmanite segregation is more likely to occur at the bottom of a MO enriched in SiO 2 , compared to pyrolite. When a solidifying layer contains 60% of bridgmanite and 40% of melt, we observe a significant SiO 2 enrichment with increasing mantle depth in a primitive mantle compatible with seismic and geochemical observations.
Highly Acidic BINOL-Derived Phosphoramidimidates and their Application in the Brønsted Acid Catalyzed Synthesis of α-Tocopherol (2015)

The design and synthesis of highly acidic BINOL-derived <i>N</i>,<i>N</i>′-bistriflylphosphoramidimidate and <i>N</i>,<i>N</i>′-bisarylsulfonylphosphoramidimidate Brønsted acid catalysts are reported.
Lettres et rapports (1913)

Klein Henri. Lettres et rapports. In: Les Feuillets d'El-Djezaïr, volume 5, 1913. Souvenirs de l'ancien et du nouvel Alger. pp. 97-114.
A data-driven spatially adaptive sparse generalized linear model for functional MRI analysis (2011)

A novel data-driven sparse generalized linear model (GLM) and statistical analysis method for fMRI is developed. Although independent component analysis (ICA) has been broadly applied to fMRI to separate spatially or temporally independent components, recent studies show that ICA does not guarantee independence of simultaneously occurred distinct activity patterns in the brain and sparsity of the signal has been shown to be more important. Motivated from the ICA and biological findings such as sparse coding in the primary visual cortex simple cells, we propose a compressed sensing based data-driven sparse GLM solely based upon the sparsity of the signal. It enables estimation of spatially adaptive design matrix from sparse signal components that represent synchronous neural hemodynamics. Furthermore, an MDL based model order selection rule can determine unknown sparsity for sparse dictionary learning.
A randomized, double-blind study comparing Clostridium difficile immune whey and metronidazole for recurrent Clostridium difficile-associated diarrhoea: Efficacy and safety data of a prematurely interrupted trial (2008)

A prospective, randomized, double-blind study was designed to compare Clostridium difficile immune whey (CDIW) with metronidazole for treatment of laboratory-confirmed, recurrent, mild to moderate episodes of Clostridium difficile-associated diarrhoea (CDAD). CDIW was manufactured by immunization of cows in their gestation period with inactivated C. difficile vaccine. The resulting colostrum was processed, immunoglubulins were concentrated and the end-product containing high titres of C. difficile immunoglobulin was used as CDIW. 20 patients received metronidazole at a dosage of 400 mg t.i.d. and 18 patients CDIW 200 ml t.i.d. The study was interrupted early because of the bankruptcy of the sponsor. After 14 d of treatment, all 20 (100%) of 20 patients had responded to metronidazole therapy, compared with 16 (89%) of 18 who had received CDIW. 70 d after the beginning of treatment, sustained responses were observed in 11 (55%) of 20 patients receiving metronidazole and 10 (56%) of 18 patients treated with CDIW. In this preliminary study CDIW was as effective as metronidazole in the prevention of CDAD recurrences and it was well tolerated.
Coordination-Driven Self-Assembly of 2D-Metallamacrocycles Using a New Carbazole-Based Dipyridyl Donor: Synthesis, Characterization, and C60 Binding Study (2012)

A new carbazole-based 90° dipyridyl donor 3,6-di(4-pyridylethynyl)carbazole (L) containing carbazole-ethynyl functionality is synthesized in reasonable yield using the Sonagashira coupling reaction. Multinuclear NMR, electrospray ionization-mass spectrometry (ESI-MS), including single crystal X-ray diffraction analysis characterized this 90° building unit. The stoichiometry combination of L with several Pd(II)/Pt(II)-based 90° acceptors (1a-1d) yielded [2 + 2] self-assembled metallacycles (2a-2d) under mild conditions in quantitative yields [1a = cis-(dppf)Pd(OTf)(2); 1b = cis-(dppf)Pt(OTf)(2); 1c = cis-(tmen)Pd(NO(3))(2); 1d = 3,6-bis{trans-Pt(C≡C)(PEt(3))(2)(NO(3))}carbazole]. All these macrocycles were characterized by various spectroscopic techniques, and the molecular structure of 2a was unambiguously determined by single crystal X-ray diffraction analysis. Incorporation of ethynyl functionality to the carbazole backbone causes the resulted macrocycles (2a-2d) to be π-electron rich and thereby exhibit strong emission characteristics. The macrocycle 2a has a large internal concave aromatic surface. The fluorescence quenching study suggests that 2a forms a ~1:1 complex with C(60) with a high association constant of K(sv) = 1.0 × 10(5) M(-1).
BER Performance Evaluation in 2 x 2 MIMO Spatial Multiplexing Systems under Rician Fading Channels (2008)

In this paper, BER (Bit Error Rate) performance in 2×2 MIMO (Multiple-Input Multiple-Output) spatial multiplexing systems under Rician fading channels is evaluated. We examine BER performances employing inverse channel detection (ICD) under Rician fading channels, adding the phase of the direct path and Rician factor as a parameter. The results clearly indicate that the phase of the direct path and Rician factor have a great influence on BER performances employing ICD under Rician fading channels.
Scaling considerations for small aircraft engines (2008)

Thesis (S.M.)--Massachusetts Institute of Technology, Dept. of Aeronautics and Astronautics, 2008.