gebhart/patrepeval huggingface dataset:
Differential Expression of Metabotropic Glutamate Receptors 2 and 3 in Schizophrenia: A Mechanism for Antipsychotic Drug Action? (2009)

Increased GCP II expression and low mGluR3 expression in the dorsolateral prefrontal cortex suggest that NAAG-mediated signaling is impaired in this brain region in schizophrenia. Further, these data implicate the mGluR3 receptor in the antipsychotic action of mGluR2/mGluR3 agonists.
4-1BB and CD28 Signaling Plays a Synergistic Role in Redirecting Umbilical Cord Blood T Cells Against B-Cell Malignancies (2009)

Umbilical cord blood (UCB) T cells can be redirected to kill leukemia and lymphoma cells by engineering with a single-chain chimeric antigen receptor (CAR) and thus may have general applications in adoptive cell therapy. However, the role of costimulatory molecules in UCB T-cell activation and effector functions in context with CAR remains elusive. To investigate the effect of costimulatory molecules (4-1BB and CD28) on UCB T cells, we transduced UCB T cells with lentiviral vectors expressing Green Fluorescent Protein (GFP) and CAR for CD19 containing an intracellular domain of the CD3zeta chain and either a 4-1BB (UCB-19BBzeta) or a CD28 intracellular domain (UCB-1928zeta), both (UCB-1928BBzeta), or neither (UCB-19zeta). We found that UCB-19BBzeta and UCB-28BBzeta T cells exhibited more cytotoxicity to CD19(+) leukemia and lymphoma cell lines than UCB-19zeta and UCB-1928zeta, although differences in secretion of interleukin-2 and interferon-gamma by these T cells were not evident. In vivo adoptive transfer of these T cells into intraperitoneal tumor-bearing mice demonstrated that UCB-19BBzeta and UCB-1928BBzeta T cells mounted the most potent antitumor response. The mice adoptively transferred with UCB-1928BBzeta cells survived longer than the mice with UCB-19BBzeta. Moreover, UCB-1928BBzeta T cells mounted a more robust antitumor response than UCB-19BBzeta in a systemic tumor model. Our data suggest a synergistic role of 4-1BB and CD28 costimulation in engineering antileukemia UCB effector cells and implicate a design for redirected UCB T-cell therapy for refractory leukemia.
Control of cable actuated devices using smooth backlash inverse (2010)

Cable conduit actuation provides a simple yet dexterous mode of power transmission for remote actuation. However, they are not preferred because of the nonlinearities arising from friction and cable compliance which lead to backlash type of behavior. Unlike most of the current research in backlash control which generally assumes no knowledge of one of the intermediate states, the controller design in this case can be significantly simplified if output feedback of the system is available. This paper uses a simple feedforward control law for backlash compensation. A novel smooth backlash inverse is proposed, which takes the physical limitations of the actuator in consideration, unlike other designs, and thus makes it more intuitive to use. Implementation of this inverse on physical systems can also improve the system performance over the theoretical exact inverse, as well as other existing smooth inverse designs. Improvement in the performance is shown through experiments on a robot arm of Laprotek surgical system as well as on an experimental setup using polymeric cables for actuation.
Long duration electroporation for achieving high level expression of glucocorticoid receptors in mammalian cell lines (1999)

A method is presented that utilizes long duration electroporation (LDE) to more efficiently introduce DNA into mammalian cell lines than standard electroporation techniques. With SV40-based vectors, more than 550,000 glucocorticoid receptors (GRs) per cell could be obtained in COS-7 cells with good cell survival. In experiments with a CMV-driven vector expressing an enhanced Green Fluorescent Protein (EGFP), 54% of the cells were transfected, and 77% of EGFP positive cells expressed EGFP at moderate to high levels. In cell lines not containing the large T antigen, a CMV-driven vector for the GR was superior to the SV40-based vector. In EDR3, DG44, and CV-1 cell lines approximately 220,000, 190,000 and 150,000 GRs/cell were obtained, respectively. Transfection efficiency of the EGFP vector ranged from 44 to 55% for the three cell lines. Cortisol treatment of COS-7 and DG44 cultures cotransfected with vectors expressing the GR and a GRE driven luciferase gene produced 4 to 12 times more enzyme activity per plate with LDE than conventional electroporation protocols. LDE allows transient overexpression of proteins in COS-7 cells at the high levels generally achieved by mammalian overexpression systems only in stable cell lines.
Fermentation of Wood Sugars to Ethyl Alcohol. (1945)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTFermentation of Wood Sugars to Ethyl Alcohol.R. H. Leonard and G. J. HajnyCite this: Ind. Eng. Chem. 1945, 37, 4, 390–395Publication Date (Print):April 1, 1945Publication History Published online1 May 2002Published inissue 1 April 1945https://pubs.acs.org/doi/10.1021/ie50424a025https://doi.org/10.1021/ie50424a025research-articleACS PublicationsRequest reuse permissionsArticle Views524Altmetric-Citations98LEARN 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 InRedditEmail Other access options Get e-Alerts
Identification of an IκBα-associated Protein Kinase in a Human Monocytic Cell Line and Determination of Its Phosphorylation Sites on IκBα (1995)

Nuclear factor kappa B (NF-kappa B) is stored in the cytoplasm as an inactive form through interaction with I kappa B. Stimulation of cells leads to a rapid phosphorylation of I kappa B alpha, which is presumed to be important for the subsequent degradation. We have recently reported the establishment of a lipopolysaccharide (LPS)-dependent cell-free activation system of NF-kappa B in association with the induction of I kappa B alpha phosphorylation. In this study, we have identified a kinase in cell extracts from the LPS-stimulated human monocytic cell line, THP-1, that specifically binds and phosphorylates I kappa B alpha. LPS stimulation transiently enhanced the I kappa B alpha-bound kinase activity in THP-1 cells. Mutational analyses of I kappa B alpha and competition experiments with the synthetic peptides identified major phosphorylation sites by the bound kinase as Ser and Thr residues in the C-terminal acidic domain of I kappa B alpha. Moreover, we show that the peptide, corresponding to the C-terminal acidic domain of I kappa B alpha, blocked the LPS-induced NF-kappa B activation as well as inducible phosphorylation of endogenous I kappa B alpha in a cell-free system using THP-1 cells. These results suggested that the bound kinase is involved in the signaling pathway of LPS by inducing the phosphorylation of the C-terminal region of I kappa B alpha and subsequent dissociation of the NF-kappa B.I kappa B alpha complex.
Oxygen Microsensor and Its Application to Single Cells and Mouse Pancreatic Islets (1999)

An oxygen microsensor with a < 3-micron tip diameter was developed for monitoring oxygen levels at single cells and mouse pancreatic islets. The sensor was fabricated by electrochemically recessing an etched Pt wire inside a pulled glass micropipet and then coating with cellulose acetate. This fabrication process was found to be simpler than previous oxygen electrode designs of comparable size. The microsensors had a average sensitivity of 0.59 +/- 0.29 pA/mmHg (mean +/- SD, n = 42), signals that were minimally perturbed by convection, and response times of < 1 s. The electrode was used to measure the oxygen gradient around and inside single mouse islets. The measurements demonstrate that oxygen levels within even the largest islets at maximal glucose stimulation are 67 +/- 1.6 mmHg (mean +/- SD, n = 5), indicating that islets have adequate oxygen supplies by diffusion under tissue culture conditions to support insulin secretion. The electrode was also used to record the dynamics of oxygen level at single islets as a function of glucose concentration. As glucose level was changed from 3 to 10 mM, oxygen level decreased by 15.8 +/- 2.3 mmHg (mean +/- SEM, n = 6) and oscillations with a period of 3.3 +/- 0.6 min (mean +/- SEM, n = 6) appeared in the oxygen level. In islets bathed in quiescent solutions containing 10 mM glucose, similar oscillations could be observed. In addition, in the quiet solutions it was possible to detect faster oscillations with a period of 12.1 +/- 1.7 s (mean +/- SEM, n = 6) superimposed on the slower oscillations. Oxygen consumption could also be observed at single insulinoma cells using the electrode. Individual cells also showed oscillations in oxygen consumption with a period of a few seconds. The results demonstrate that the electrode can be used for dynamic oxygen level recordings in biological microenvironments.
The Synthesis of Propterol, a Novel 1,3-Diarylpropan-2-ol from Pterocarpus marsupium (1985)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTThe Synthesis of Propterol, a Novel 1,3-Diarylpropan-2-ol from Pterocarpus marsupiumR. Maurya, A. B. Ray, S. K. Chattopadhyay, F. K. Duah, M. C. Lin, D. J. Slatkin, and P. L. Schiff Jr.Cite this: J. Nat. Prod. 1985, 48, 2, 313–315Publication Date (Print):March 1, 1985Publication History Published online1 July 2004Published inissue 1 March 1985https://pubs.acs.org/doi/10.1021/np50038a020https://doi.org/10.1021/np50038a020research-articleACS PublicationsRequest reuse permissionsArticle Views128Altmetric-Citations3LEARN 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 InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Protein crystallization for genomics: towards high-throughput optimization techniques (2002)

Protein crystallization has gained a new strategic and commercial relevance in the next phase of the genome projects, in which X-ray crystallography will play a major role. Considerable advances have been made in the automation of protein preparation and also in the X-ray analysis and bioinformatics stages once diffraction-quality crystals are available. These advances have not yet been matched by equally good methods for the crystallization process itself. In the area of crystallization, the main effort and resources are currently being invested into the automation of screening procedures to identify potential crystallization conditions. However, in spite of the ability to generate numerous trials, so far only a small percentage of the proteins produced have led to structure determinations. This is because screening in itself is not usually enough; it has to be complemented by an equally important procedure in crystal production, namely crystal optimization. In the rush towards structural genomics, optimization techniques have been somewhat neglected, mainly because it was hoped that large-scale screening alone would produce the desired results. In addition, optimization has relied on particular individual methods that are often difficult to automate and to adapt to high throughput. This article addresses a major gap in the field of structural genomics by describing practical ways of automating individual optimization methods in order to adapt them to high-throughput techniques.
Anaplastic lymphoma kinase: role in cancer pathogenesis and small-molecule inhibitor development for therapy (2009)

Anaplastic lymphoma kinase (ALK), a receptor tyrosine kinase in the insulin receptor superfamily, was initially identified in constitutively activated oncogenic fusion forms - the most common being nucleophosmin-ALK - in anaplastic large-cell lymphomas, and subsequent studies have identified ALK fusions in diffuse large B-cell lymphomas, systemic histiocytosis, inflammatory myofibroblastic tumors, esophageal squamous cell carcinomas and non-small-cell lung carcinomas. More recently, genomic DNA amplification and protein overexpression, as well as activating point mutations, of ALK have been described in neuroblastomas. In addition to those cancers for which a causative role for aberrant ALK activity is well validated, more circumstantial links implicate the full-length, normal ALK receptor in the genesis of other malignancies - including glioblastoma and breast cancer - via a mechanism of receptor activation involving autocrine and/or paracrine growth loops with the reported ALK ligands, pleiotrophin and midkine. This review summarizes normal ALK biology, the confirmed and putative roles of ALK in the development of human cancers and efforts to target ALK using small-molecule kinase inhibitors.
Detection and exploitation of file working sets (2002)

The work habits of many individuals yield file access patterns that are quite pronounced and can be regarded as defining working sets of files used for particular applications. A client management technique for detecting these patterns and then exploiting them to successfully prefetch files from servers is described. Trace-driven simulations show the technique substantially increases file cache hit rate in a single-user environment. Successful file prefetching carries three major advantages: applications run faster, there is less burst load placed on the network, and properly loaded client caches can better survive network outages. The technique requires little extra code, and-because it is simply an augmentation of the standard LRU client cache management algorithm-is easily incorporated into existing software.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
An Arabidopsis Mutant with a Reduced Level of cab140 RNA Is a Result of Cosuppression (1993)

Judy A. Brussian, George A. Karlin-Neumann, Lu Huang, Elaine M. Tobin, An Arabidopsis Mutant with a Reduced Level of cab140 RNA Is a Result of Cosuppression, The Plant Cell, Vol. 5, No. 6 (Jun., 1993), pp. 667-677
Spectral Hashing (2008)

Semantic hashing[1] seeks compact binary codes of data-points so that the Hamming distance between codewords correlates with semantic similarity. In this paper, we show that the problem of finding a best code for a given dataset is closely related to the problem of graph partitioning and can be shown to be NP hard. By relaxing the original problem, we obtain a spectral method whose solutions are simply a subset of thresholded eigenvectors of the graph Laplacian. By utilizing recent results on convergence of graph Laplacian eigenvectors to the Laplace-Beltrami eigenfunctions of manifolds, we show how to efficiently calculate the code of a novel data-point. Taken together, both learning the code and applying it to a novel point are extremely simple. Our experiments show that our codes outperform the state-of-the art.
The QUEST System for Quantitative Analysis of Two-dimensional Gels (1989)

The strategies and methods used by the QUEST system for two-dimensional gel analysis are described, and the performance of the system is evaluated. Radiolabeled proteins, resolved on two-dimensional gels and detected using calibrated exposures to film, are quantified in units of disintegrations per minute or as a fraction of the total protein radioactivity applied to the gel. Spot quantitation and resolution of overlapping spots is performed by two-dimensional gaussian fitting. Pattern matching is carried out for groups of gels called matchsets, and within each matchset every gel is matched to every other gel. During the matching process, spots are automatically added to each pattern at positions where unmatched spots were detected in other patterns. This results in enhanced accuracy for both spot detection and for matching. The spot fitting procedure is repeated after matching. Tests show that up to 97% of spots in each pattern can be matched and that fewer than 1% of the spots are matched inconsistently. Approximately 2000 proteins are detected from typical gels. Of these 1600 are high quality spots. Tests to measure the coefficient of variation of spot quantitation versus spot quality show that the average coefficient of variation for high quality spots is 21%. The intensities of the detected proteins range from 4 to 20,000 ppm of total protein synthesis. The QUEST analysis system has been used to build a quantitative database for the proteins of normal and transformed REF52 cells, as presented in the accompanying reports (Garrels, J., and Franza, B. R., Jr. (1989) J. Biol. Chem. 264, 5283-5298, 5299-5312).
Effects of Lactation and Prenatal Androgenization on the Performance, Carcass Composition, and Longissimus Muscle Sensory Characteristics of Heifers in the Single-Calf Heifer System (1999)

Two experiments were conducted to evaluate feedlot performance, lactational characteristics, and carcass composition and quality of heifers and the performance of their calves in a single-calf heifer (SCH) system. In Exp. 1, 13 [10 lactating (L) and 3 nonlactating (NL)] prenatally androgenized (PA) heifers, born to cows implanted with testosterone propionate (TP) and 19 (13 L and 6 NL) control (C) heifers, born to nonimplanted cows, were used. Heifers were calved and the pairs were placed in feedlot pens to evaluate the effects of PA on feedlot performance and lactation. Heifers were fed an 85% concentrate diet and fed to a compositional endpoint of 1.1 cm of subcutaneous fat cover, at which point calves were weaned and heifers slaughtered approximately 12 h later. The NL heifers consumed 17.0% less (P<0.01) dry matter and were 30.8% more (P<0.01) efficient in feed conversion. When calf performance was included, overall feed efficiency of L heifers was 26.9% greater (P<0.05; 0.151 vs 0.119) than that of the NL feedlot heifers. Prenatal androgenization had no effect on heifer performance. Four percent fat-corrected milk yield averaged 7.79 and 5.62 kg/d for PA and C heifers, respectively. The NL heifers had 11.0% greater (P<0.01) marbling score and yield grades were 3.77 and 3.03 (P<0.05) for NL and L heifers, respectively. Livers (P<0.01) and kidneys (P<0.05) as a percentage of shrunk weight were heavier for L heifers than for NL heifers. Two carcasses were classified as hard-boned (C-maturity) and 74% received a USDA Choice grade. The L heifers tended (P<0.10) to have lower taste panel tenderness scores; however, shearforce was similar (P=0.81) for L and NL heifers. In Exp. 2, 24 Angus × Holstein heifers were utilized in the single-calf heifer system, similar to Exp. 1. Calves were weaned from their dam between d 64 and 89 postpartum. Heifers that had their calves early weaned (EW) gained 44.2% faster (P<0.01) and consumed 10.8% less (P<0.05) DM than L heifers. The EW heifers were 60.0% more (P<0.01) efficient than L heifers. However, when calf performance was included with heifer performance, L heifers were 23.7% more (P<0.05) efficient than EW heifers. The EW heifers had 18.9% heavier (P<0.01) hot carcasses than L heifers. Backfat thickness was 1.07 and 0.66 cm (P<0.01) for the EW and L heifers.
Hyaluronan as Carrier of Carboranes for Tumor Targeting in Boron Neutron Capture Therapy (2007)

Boron neutron capture therapy (BNCT) represents a promising approach for tumor therapy. A critical requirement for BNCT is tumor targeting, a goal that is currently addressed with the development of low and high molecular weight agents capable of interacting with receptors expressed by cancer cells. Here, we describe a new bioconjugate (HApCB) composed by n-propyl carborane linked to hyaluronan (HA) via an ester linkage for a degree of substitution of approximately 30%, leading to a water-soluble derivative. The structure and main physicochemical characteristics of the new HA derivative were determined by means of Fourier transform infrared, fluorescence, and 1H, 13C, and 10B NMR analysis and are herein reported in detail. As HA is recognized by the CD44 antigen, densely populating the surface of many tumor cells, HApCB is expected to deliver boron atoms from the locally released carborane cages directly to target cells for antitumor application in BNCT. In vitro biological experiments showed that HApCB was not toxic for a variety of human tumor cells of different histotypes, specifically interacted with CD44 as the native unconjugated HA, and underwent uptake by tumor cells, leading to accumulation of amounts of boron atoms largely exceeding those required for a successful BNCT approach. Thus, HApCB may be regarded as a promising new BNCT agent for specific targeting of cancer cells overexpressing the CD44 receptor.
Heat-Labile Enterotoxin: Beyond G M1 Binding (2010)

Enterotoxigenic Escherichia coli (ETEC) is a significant source of morbidity and mortality worldwide. One major virulence factor released by ETEC is the heat-labile enterotoxin LT, which is structurally and functionally similar to cholera toxin. LT consists of five B subunits carrying a single catalytically active A subunit. LTB binds the monosialoganglioside G(M1), the toxin's host receptor, but interactions with A-type blood sugars and E. coli lipopolysaccharide have also been identified within the past decade. Here, we review the regulation, assembly, and binding properties of the LT B-subunit pentamer and discuss the possible roles of its numerous molecular interactions.
Source/Drain Formation of Self-Aligned Top-Gate Amorphous GaInZnO Thin-Film Transistors by $\hbox{NH}_{3}$ Plasma Treatment (2009)

<para xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> The source/drain region of amorphous GaInZnO thin-film transistor with self-aligned top-gate structure was defined by simple <formula formulatype="inline"><tex Notation="TeX">$\hbox{NH}_{3}$</tex></formula> plasma treatment instead of complicated processes, such as ion implantation and activation. When the source/drain region of active layer was exposed to <formula formulatype="inline"><tex Notation="TeX">$\hbox{NH}_{3}$</tex></formula> gas plasma, the series resistance of the transistor decreased considerably. It exhibited electrical properties, such as a field-effect mobility of 6 <formula formulatype="inline"><tex Notation="TeX">$\hbox{cm}^{2}/\hbox{V} \cdot \hbox{s}$</tex></formula>, a threshold voltage of 0.21 V, and a subthreshold swing of 0.23 V/dec. </para>