gebhart/patrepeval huggingface dataset:
Genome-Engineered mpkCCDc14 Cells as a New Resource for Studying AQP2 (2023)

mpkCCDc14 cells, a polarized epithelial cell line derived from mouse kidney cortical collecting ducts, are known to express the vasopressin V2 receptor (V2R) and aquaporin-2 (AQP2) that are responsive to vasopressin. However, a low abundance of the endogenous AQP2 protein in the absence of vasopressin and heterogeneity of AQP2 protein abundance among the cultured cells may limit the further application of the cell line in AQP2 studies. To overcome the limitation, we aimed to establish mpkCCDc14 cells constitutively expressing V2R and AQP2 via CRISPR/Cas9-mediated genome engineering technology (i.e., V2R-AQP2 cells). 3'- and 5'-Junction PCR revealed that the V2R-AQP2 expression cassette with a long insert size (~2.2 kb) was correctly integrated. Immunoblotting revealed the expression of products of integrated <i>Aqp2</i> genes. Cell proliferation rate and dDAVP-induced cAMP production were not affected by the knock-in of <i>Avpr2</i> and <i>Aqp2</i> genes. The AQP2 protein abundance was significantly higher in V2R-AQP2 cells compared with control mpkCCDc14 cells in the absence of dDAVP and the integrated AQP2 was detected. Immunocytochemistry demonstrated that V2R-AQP2 cells exhibited more homogenous and prominent AQP2 labeling intensity in the absence of dDAVP stimulation. Moreover, prominent AQP2 immunolabeling (both AQP2 and pS256-AQP2) in the apical domain of the genome-edited cells was observed in response to dDAVP stimulation, similar to that in the unedited control mpkCCDc14 cells. Taken together, mpkCCDc14 cells constitutively expressing V2R and AQP2 via genome engineering could be exploited for AQP2 studies.
A proportionate adaptive algorithm with variable partitioned block length for acoustic echo cancellation (2011)

Due to the nature of an acoustic enclosure, the early part (i.e., direct path and early reflections) of the acoustic echo path is often sparse while the late reverberant part of the acoustic path is normally dispersive. In order to account for this structure within the acoustic impulse response when performing acoustic echo cancellation, we propose an adaptive filter that consists of two time-domain partition blocks, with adaptive block partitioning, such that different adaptive algorithms can be used for each block. Specifically, the improved proportionate normalized least-mean-square (IPNLMS) algorithm is used. Simulation results show that the proposed variable length partitioned block IPNLMS (VLPB-IPNLMS) algorithm works well in both sparse and dispersive circumstances and in practical applications involving time-varying systems.
Green Light-Emitting Solid-State Electrochemical Cell Obtained from a Homoleptic Iridium(III) Complex Containing Ionically Charged Ligands (2006)

An efficient bluish-green light-emitting Ir(III) complex was prepared by introducing charged side groups onto phenylpyridine ligands. Green light emission with a first maximum at 487 nm (CIE coordinates x = 0.337 and y = 0.501) was observed from a single layer light-emitting electrochemical cell using this new complex; this is the lowest wavelength observed so far for devices based on ionic transition metal complexes.
Targets of gene amplification and overexpression at 17q in gastric cancer. (2002)

DNA copy number gains and amplifications at 17q are frequent in gastriccancer, yet systematic analyses of the 17q amplicon have not been performed. In this study, we carried out a comprehensive analysis of copy number and expression levels of 636 chromosome 17-specific genes in gastric cancer by using a custom-made chromosome 17-specific cDNA microarray. Analysis of DNA copy number changes by comparative genomic hybridization on cDNA microarray revealed increased copy numbers of 11 known genes (ERBB2, TOP2A, GRB7, ACLY, PIP5K2B, MPRL45, MKP-L, LHX1, MLN51, MLN64, and RPL27) and seven expressed sequence tags (ESTs) that mapped to 17q12-q21 region. To investigate the genes transcribed at the 17q, we performed gene expression analyses on an identical cDNA microarray. Our expression analysis showed overexpression of 8 genes (ERBB2, TOP2A, GRB2, AOC3, AP2B1, KRT14, JUP, and ITGA3) and two ESTs. Of the commonly amplified transcripts, an uncharacterized EST AA552509 and the TOP2A gene were most frequently overexpressed in 82% of the samples. Additional studies will be initiated to understand the possible biological and clinical significance of these genes in gastric cancer development and progression.
Molecularly Imprinted Ion-Exchange Resin for Fe3+ (2005)

Abstract Ion exchange resins selective for the sequestration of Fe3+ from aqueous solutions containing citrate were prepared by the molecular imprinting technique. Sorption characteristics of imprinted resins prepared with high (85 mole%) and low (3 mole%) amounts of covalent cross‐linking were examined. Experiments to determine loading capacity and selectivity, relative to several metal ions of physiological significance, were performed. The Fe3+ capacity of the highly cross‐linked resin was larger but the selectivity was lower. Keywords: Molecularly imprinted polymerion exchangeferric ionhemochomatosis Acknowledgment This work was supported by the U.S. Department of Energy through grant number DE‐FG07‐97ER14823.
PhraseCut: Language-based Image Segmentation in the Wild (2020)

We consider the problem of segmenting image regions given a natural language phrase, and study it on a novel dataset of 77,262 images and 345,486 phrase-region pairs. Our dataset is collected on top of the Visual Genome dataset and uses the existing annotations to generate a challenging set of referring phrases for which the corresponding regions are manually annotated. Phrases in our dataset correspond to multiple regions and describe a large number of object and stuff categories as well as their attributes such as color, shape, parts, and relationships with other entities in the image. Our experiments show that the scale and diversity of concepts in our dataset poses significant challenges to the existing state-of-the-art. We systematically handle the long-tail nature of these concepts and present a modular approach to combine category, attribute, and relationship cues that outperforms existing approaches.
Ferromagnetic resonance in coupled magnetic nanostructured arrays (2018)

The modulated field sweep ferromagnetic resonance (FMR) spectroscopy was used to study the magnetization dynamics in large arrays of interacting cubic nanomagnets. A 60nm thick permalloy (Ni80Fe20) thin films were patterned using a lift-off process into several large arrays of 60 x 60 nm2 nanostructures where the spacing between the magnetic nanocubes was varied to control the strength of dipolar coupling. Electron beam lithography was used for device patterning using lift-off. The permalloy films were deposited using magnetron sputtering. DC magnetic properties were evaluated using alternating gradient force magnetometer (AGFM). In the FMR measurements, the orientation of DC bias magnetic field was varied from the in-plane to out-of-plane with respect to the 2D plane of the arrays. The FMR peak splitting and multiple FMR modes were observed in the evolution of the FMR spectra as the function of the bias field orientation, and were strongly influenced by the nanomagnet geometry and the spacing between the nanomagnets. Two resonance modes, shape and lattice, were particularly well pronounced in the observed FMR spectra. These modes are characterized by effective demagnetizing factors representing different symmetries of the system of interacting nanomagnets. Micromagnetic modeling suggest that micromagnetic texture within the nanomagnets modulated by the stray fields from the neighbors correlates with the FMR spectra.
Rearrangements of allylic acetates catalyzed by palladium(II): an enantiospecific synthesis of a key intermediate for the preparation of 12-hydroxyprostaglandins (1981)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTRearrangements of allylic acetates catalyzed by palladium(II): an enantiospecific synthesis of a key intermediate for the preparation of 12-hydroxyprostaglandinsPaul A. Grieco, Paul A. Tuthill, and Hing L. ShamCite this: J. Org. Chem. 1981, 46, 24, 5005–5007Publication Date (Print):November 1, 1981Publication History Published online1 May 2002Published inissue 1 November 1981https://doi.org/10.1021/jo00337a039RIGHTS & PERMISSIONSArticle Views121Altmetric-Citations16LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InReddit PDF (442 KB) Get e-Alertsclose Get e-Alerts
Prion-Like Propagation of Protein Misfolding and Aggregation in Amyotrophic Lateral Sclerosis (2019)

The discovery that prion protein can misfold into a pathological conformation that encodes structural information capable of both propagation and inducing severe neuropathology has revolutionized our understanding of neurodegenerative disease. Many neurodegenerative diseases with a protein misfolding component are now classified as "prion-like" owing to the propagation of both symptoms and protein aggregation pathology in affected individuals. The neuromuscular disorder amyotrophic lateral sclerosis (ALS) is characterized by protein inclusions formed by either TAR DNA-binding protein of 43 kDa (TDP-43), Cu/Zn superoxide dismutase (SOD1), or fused in sarcoma (FUS), in both upper and lower motor neurons. Evidence from <i>in vitro</i>, cell culture, and <i>in vivo</i> studies has provided strong evidence to support the involvement of a prion-like mechanism in ALS. In this article, we review the evidence suggesting that prion-like propagation of protein aggregation is a primary pathomechanism in ALS, focusing on the key proteins and genes involved in disease (TDP-43, SOD1, FUS, and <i>C9orf72</i>). In each case, we discuss the evidence ranging from biophysical studies to <i>in vivo</i> examinations of prion-like spreading. We suggest that the idiopathic nature of ALS may stem from its prion-like nature and that elucidation of the specific propagating protein assemblies is paramount to developing effective therapies.
Nutritional stimulation of commensal oral bacteria suppresses pathogens: the prebiotic concept (2017)

Our observations support the hypothesis that nutritional stimulation of beneficial bacteria by prebiotics could be used to restore the microbial balance in the oral cavity and by this promote oral health.
FIDEUS - NEW VEHICLE SOLUTIONS FOR GOODS DELIVERIES IN URBAN AREAS (2006)

The FIDEUS European project, coordinated by Centro Ricerche FIAT, aims to develop a new approach to the urban logistics, by proposing a family of innovative vehicles, a re-organised logistic flow and a telematic tool for the logistics management. The complementary set of vehicles includes a completely new Micro Carrier for deliveries in pedestrian areas, a van and a lorry with technical solutions that permit a reduction in the environmental impact (noise included) and improve the safety and efficiency of the transhipment operations. This integrated approach will be tested in Barcelona, Lyon and Hannover to validate the FIDEUS concepts and solutions. For the covering abstract see ITRD E134653.
Time error analysis of 5G time synchronization solutions for time aware industrial networks (2021)

Time synchronization is one of the main building blocks for IEEE 802.1 Time Sensitive Network (TSN) based time aware industrial networks. 3rd generation partnership project (3GPP) has proposed new mechanisms in Release 16 in order for the 5G system (5GS) to interwork with Time Sensitive Networks (TSN). In this context, 3GPP has modelled the 5GS as IEEE 802.1AS time aware system in an integrated 5G-TSN network. The most demanding time synchronization error budget applicable to a 5GS (i.e., the 5G system end-to-end time error budget) used within the context of an integrated 5G-TSN network can be as lows as 900ns. Within the 5GS the radio link between a base station and user equipment (UE) is subject to propagation delay and the uncertainty associated with its estimation is considered to have a major contribution towards the 5GS error budget. This paper presents an end-to-end (E2E) analysis on the time synchronization solutions offered by the 5GS in the context of an integrated 5G-TSN network. Furthermore, the paper provides an in-depth analytical evaluation of propagation delay errors introduced based on two different propagation delay estimation methods.
Supplementary Table 1 from SMAD4 Loss in Colorectal Cancer Patients Correlates with Recurrence, Loss of Immune Infiltrate, and Chemoresistance (2023)

&lt;p&gt;Ratio and concentrations of FOLFOX in discovery cohort.&lt;/p&gt;
Structure and properties of ITQ-8: a hydrous layer silicate with microporous silicate layers (2016)

ITQ-8 is a new hydrous layer silicate (HLS) with a chemical composition of [C4H8(C7H13N)2]8 [Si64O128(OH)16]·48H2O per unit cell. The synthesis of ITQ-8 was first described in 2002 by Díaz-Cabañas et al., the structure of this material, however, remained unsolved at that time. Physico-chemical characterization using solid-state NMR spectroscopy, SEM, TG-DTA, and FTIR spectroscopy confirmed that ITQ-8 is a layer silicate. The XRD powder pattern was indexed in the monoclinic system with lattice parameters of a0 = 35.5168(5) Å, b0 = 13.3989(2) Å, c0 = 16.0351(2) Å, β = 106.74(2)°. The crystal structure was solved by simulated annealing. Rietveld refinement of the structure in space group C2/c converged to residual values of RBragg = 0.023, RF = 0.022 and chi(2) = 2.3 confirming the structure model. The structure of ITQ-8 contains silicate layers with a topology that resembles a (11-1) section of the framework of zeolite levyne. So far, this layer topology is unique among layer silicates. The layer can be regarded as made up of 4-, 6-, double-six and 8-rings which are interconnected to form cup-like "half-cages". Unlike other HLSs, which possess impermeable silicate layers, ITQ-8 contains 8-rings pores with a free diameter of 3.5 Å × 3.4 Å and can be regarded as a "small-pore layer silicate". In the crystal structure, the organic cations, 1,4-diquiniclidiniumbutane, used as structure directing agents during synthesis are intercalated between the silicate layers. Clusters (bands) of water molecules which are hydrogen bonded to each other and to the terminal Si-OH/Si-O(-) groups are located between the organic cations and interconnect the silicate layers. ITQ-8 is a very interesting material as precursor for the synthesis of microporous framework silicates by topotactic condensation or interlayer expansion reactions leading to 3D micro-pore systems which may be useful in applications as e.g. catalysts, catalyst supports and adsorbents of for separation.
Absolute time delay measurement of stimulated Brillouin scattering based all-optical pulse compression (2017)

A novel scheme to determine the absolute time delay of an unknown signal in a stimulated Brillouin scattering based all-optical pulse compression system is demonstrated. Optical pulse train with high repetition rate is utilized as the probe lightwave to interact the counter-propagating pump lightwave modulated by the microwave signal to be processed. The finite optical fiber length brings in insufficient interactions between pump lightwave and probe pulses. The absolute time delay of the unknown microwave signal is determined by the pulse-compressed results that are carried by these probe pulse trains. The absolute time delay is experimentally demonstrated and is theoretically analyzed. The maximum experimental error is about 7 ns for a linearly frequency modulated pulse with 1 GHz sweep range.
Nepalensinols D-G, New Resveratrol Oligomers from Kobresia nepalensis (Cyperaceae) as Potent Inhibitors of DNA Topoisomerase II (2006)

Four new resveratrol oligomers, nepalensinols D—G, were isolated from the stem of Kobresia nepalensis (Cyperaceae). The structures were determined by detailed NMR spectral analysis. The compounds were assessed for their inhibitory activity against human topoisomerase II, a potential target of anti-tumor agents. These stilbenoids showed potent inhibitory activity against human topoisomerase II with IC50 values of 5—15 μM.
Room-Level Transient CFD Modeling of Rack Shutdown (2013)

Servers have time constants on the order of several minutes, which is significantly longer than many other time constants observed in data centers. When server thermal masses are not negligible, transient scenarios cannot be modeled appropriately with the steady state boundary conditions. By using the time constant and thermal masses of the servers, transient server air exit temperature can be calculated by solving unsteady heat balance equations for the server and air stream. This paper presents a room-level CFD case study of rack shutdown in which transient server exit air temperature are introduced via user defined functions. The results include verification of simulation results with the experimental data taken in a 3-rack test cell.
Human placental heteroantigens demonstrable by immunodiffusion. (1974)

Heteroantisera were raised against human placental homogenate (PH), or microsomal fraction (MF) which assumingly contained much trophoblast plasma membrane. Anti-PH serum included a readily demonstrable antibody against a fairly soluble mucopolysaccharide (PMA) embodied in the placenta. Anti-MF serum contained antibodies against 4 demonstrable antigens (designated IPA-a, IPA-b, IPA-c and IPA-H) in solubilized MF. Solubilized MF was fractionated in order to partially isolate and characterize the antigens which were apparently glycoproteins (molecular weight range of 800,000-30,000), Whereas solubilization achieved in a Triton X-100 solution followed by sonication was virtually complete (yield 95-100%), papain enzymatic digestion (yield 40-50%) released proportionately more of the lower molecular weight components (160,000-30,000) which incorporated IPA-c and IPA-H antigens. Antigen IPA-H bound to concanavalin A and so could be partially purified by affinity chromatography. Antigens IPA-a, IPA-b and IPA-H were shared by kidney MF, but IPA-c and PMA might be tissue specific.
Translational coupling of the maize chloroplast atpB and atpE genes (1989)

The genes for the beta and epsilon subunits of maize chloroplast ATP synthase are encoded by the organelle genome, are cotranscribed, and have overlapping translation initiation and termination codons. To determine whether the atpB and atpE genes are translationally coupled, they were transformed into Escherichia coli on a multicopy plasmid. Synthesis of full-length beta and epsilon polypeptides demonstrated correct initiation of translation by the bacterial ribosomes. To assay for translational coupling, the promoter-distal atpE gene was fused to lacZ, resulting in the synthesis of an active hybrid beta-galactosidase. A frameshift mutation was introduced into the promoter-proximal atpB gene, and its effect on the transcription and translation of the atpE::lacZ fusion was measured. The mutation resulted in a 1000- to 2000-fold reduction in beta-galactosidase activity, but only a 2-fold decrease in LacZ mRNA synthesis rates or galactoside transacetylase levels. Similar results were obtained when the atpB/atpE::lacZ fusion and the atpB frameshift mutation were introduced into the photosynthetic cyanobacterium Synechocystis sp. PCC6803. We show that >99% of atpE translation depends on successful translation of atpB and, thus, conclude that the two genes are translationally coupled.
Evaluation of Hunter color values L, a, and b of mixed powder (2010)

Abstract Hunter color values (HCVs) L, a, and b of powder are the important components of powder quality in the agricultural, food, and pigment industries according to the Commission Internationale de l'Éclairage (CIE) definitions. Relations between the HCVs L , a , and b of mixed powder and mass percent (MP) of each individual powder were studied. It was found that good linear relations existed between them and then could be expressed by three corresponding equations. According to these equations, the HCVs L , a , and b of mixed powder were only related to the HCVs L , a , and b and MP of each individual powder, respectively. Therefore, these equations could simply and rapidly evaluate the HCVs L , a , and b of mixed powder in the powder‐matching process. © 2010 Wiley Periodicals, Inc. Col Res Appl, 2010
Quantitative Transcriptomic Profiling of Branching in a Glycosphingolipid Biosynthetic Pathway (2011)

Cellular biosynthesis of macromolecules often involves highly branched enzyme pathways, thus cellular regulation of such pathways could be rather difficult. To understand the regulatory mechanism, a systematic approach could be useful. We genetically analyzed a branched biosynthetic pathway for glycosphingolipid (GSL) GM1 using correlation index-based responsible enzyme gene screening (CIRES), a novel quantitative phenotype-genotype correlation analysis. CIRES utilizes transcriptomic profiles obtained from multiple cells. Among a panel of B cell lines, expression of GM1 was negatively correlated with and suppressed by gene expression of CD77 synthase (CD77Syn), whereas no significant positive correlation was found for enzymes actually biosynthesizing GM1. Unexpectedly, a GM1-suppressive phenotype was also observed in the expression of catalytically inactive CD77Syn, ruling out catalytic consumption of lactosylceramide (LacCer) as the main cause for such negative regulation. Rather, CD77Syn seemed to limit other branching reaction(s) by targeting LacCer synthase (LacCerSyn), a proximal enzyme in the pathway, because they were closely localized in the Golgi apparatus and formed a complex. Moreover, turnover of LacCerSyn was accelerated upon CD77Syn expression to globally change the GSL species expressed. Collectively, these data suggest that transcriptomic assessment of macromolecule biosynthetic pathways can disclose a global regulatory mechanism(s) even when unexpected.