gebhart/patrepeval huggingface dataset:
Isolation of a Zebrafish Rod Opsin Promoter to Generate a Transgenic Zebrafish Line Expressing Enhanced Green Fluorescent Protein in Rod Photoreceptors (2001)

To exploit zebrafish as a transgenic model, tissue-specific promoters must be identified. We isolated a 20-kilobase (kbp) zebrafish rod opsin genomic clone, which consists of 18 kbp of 5'-flanking region, the entire coding region, and 0.5 kbp of 3'-flanking sequence. Polymerase chain reaction, Southern blotting, and DNA sequencing revealed the rod opsin gene lacks introns. The transcription start site was localized 94 nucleotides upstream of the translation initiation site. Sequence alignment with orthologous promoters revealed conserved cis-elements including glass, NRE, OTX/Bat-1, Ret-1/PCE-1, Ret-4, and TATA box. A 1.2-kbp promoter fragment was cloned upstream of the enhanced green fluorescent protein (EGFP) cDNA and microinjected into 1- to 2-cell stage zebrafish embryos. EGFP expression was detected in the ventral-nasal eye at 3 days postfertilization and spread throughout the eye. Progeny of the positive founder fish, which were identified by polymerase chain reaction amplification of fin genomic DNA, exhibited EGFP expression in the retina, confirming the germline transmission of the transgene. Frozen eye sections demonstrated the EGFP expression was rod-specific and exhibited a similar developmental expression profile as the rod opsin protein. This stable transgenic line provides a novel tool for identification of genes regulating development and maintenance of rod photoreceptors.
H3‐Receptors Control Histamine Release in Human Brain (1988)

The regulation of histamine release was studied on slices prepared from pieces of human cerebral cortex removed during neurosurgery and labeled with L-[3H]histidine. Depolarization by increased extracellular K+ concentration induced [3H]histamine release, although to a lesser extent than from rat brain slices. Exogenous histamine reduced by up to 60% the K+-evoked release, with an EC50 of 3.5 +/- 0.5 X 10(-8) M. The H3-receptor antagonists impromidine and thioperamide reversed the histamine effect in an apparently competitive manner and enhanced the K+-evoked release, indicating a participation of endogenous histamine in the release control process. The potencies of histamine and the H3-receptor antagonists were similar to those of these agents at presynaptic H3-autoreceptors controlling [3H]histamine release from rat brain slices. It is concluded that H3-receptors control histamine release in the human brain.
User profiling in an ego network (2014)

User attributes, such as occupation, education, and location, are important for many applications. In this paper, we study the problem of profiling user attributes in social network. To capture the correlation between attributes and social connections, we present a new insight that social connections are discriminatively correlated with attributes via a hidden factor -- relationship type. For example, a user's colleagues are more likely to share the same employer with him than other friends. Based on the insight, we propose to co-profile users' attributes and relationship types of their connections. To achieve co-profiling, we develop an efficient algorithm based on an optimization framework. Our algorithm captures our insight effectively. It iteratively profiles attributes by propagation via certain types of connections, and profiles types of connections based on attributes and the network structure. We conduct extensive experiments to evaluate our algorithm. The results show that our algorithm profiles various attributes accurately, which improves the state-of-the-art methods by 12%.
Recent Advances in Sensing Applications of Two‐Dimensional Transition Metal Dichalcogenide Nanosheets and Their Composites (2017)

Two‐dimensional (2D) transition metal dichalcogenide (TMD) nanosheets, such as MoS 2 , WS 2 , etc., are attracting increasing interest due to their intriguing physical, chemical, electronic, and optical properties. Success in development of methods for large‐scale production of 2D TMD nanosheets and their composites has given great potential for various novel applications. In this review, recent progress in sensing applications of 2D TMD nanosheets and their composites is introduced. Moreover, different sensing strategies and signal‐transducing mechanisms for sensing devices based on 2D TMD nanosheets and their composites are also summarized and discussed.
Protection of hydroxyl groups as tert-butyldimethylsilyl derivatives (1972)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTProtection of hydroxyl groups as tert-butyldimethylsilyl derivativesE. J. Corey and A. VenkateswarluCite this: J. Am. Chem. Soc. 1972, 94, 17, 6190–6191Publication Date (Print):August 1, 1972Publication History Published online1 May 2002Published inissue 1 August 1972https://pubs.acs.org/doi/10.1021/ja00772a043https://doi.org/10.1021/ja00772a043research-articleACS PublicationsRequest reuse permissionsArticle Views33190Altmetric-Citations1649LEARN 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
Embryonic stem cells make human T cells (2006)

Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans the biological, physical, and social sciences.
Microscale synthesis of quantum dots (2010)

Microfluidic reactors are emerging as a highly promising technology for quantum dot synthesis due to the unparalleled control they provide over particle properties. In this article, we review recent developments in the microfluidic synthesis of quantum dots, and discuss some of the advantages and challenges of preparing nanocrystalline materials in microscale fluidic channels. The relative merits of continuous-flow and segmented-flow reactors are considered, together with a number of outstanding issues that must be successfully addressed for microfluidics to become a truly viable technology for quantum dot synthesis.
Circulating Nucleic Acids as a Potential Source for Cancer Biomarkers (2010)

Since the association of circulating DNA level changes with tumor growth was discovered many attempts have been made to develop the sensitive and robust blood-based tests for early tumor diagnostics. Both genomic as well as mitochondrial DNA quantification in the circulation have been extensively evaluated as a diagnostic and prognostic tool to monitor cancer therapy. Cell-free DNA bearing the same genetic and epigenetic changes as the tumor tissues were shown to be detectable in plasma / serum of cancer patients indicating the principal possibility to create the minimally invasive diagnostic tests based on tumor-specific DNA markers. Apart from circulating DNA, tumor-derived RNA in plasma / serum was found to be a promising approach for the development of cancer markers. Results of the last two years establish the quantification of the tumor-derived microRNAs in plasma / serum as an extremely promising approach for cancer diagnostics. The aim of this publication was to review the recently reported studies on the circulating DNA and RNA in cancer patients and to estimate their impact on making the ongoing research closer to clinical application.
Whispering gallery mode bio-sensor  for label-free detection of single molecules: thermo-optic vs reactive mechanism (2009)

Thermo-optic and reactive mechanisms for label-free sensing of bio-particles are compared theoretically for Whispering Gallery Mode (WGM) resonators (sphere, toroid) formed from silica and stimulated into a first order equatorial mode. Although it has been expected that a thermo-optic mechanism should "greatly enhance" wavelength shift signals [A.M. Armani et al, Science 317, 783-787 (2007)] accompanying protein binding on a silica WGM cavity having high Q (10(8)), for a combination of wavelength (680 nm), drive power (1 mW), and cavity size (43 microm radius), our calculations find no such enhancement. The possible reasons for this disparity are discussed.
Cantharidin treatment for recalcitrant facial flat warts: A preliminary study (2008)

Cantharidin is safe and effective when applied to flat warts without occlusion for 4-6 hours every 3 weeks till clear.
Interspecies scaling: predicting clearance of drugs in humans. Three different approaches (1996)

1. The interspecies scaling approach to predict clearance in humans from animal data was tested for a wide variety of drugs. 2. Three different methods were utilized to generate plots to scale-up the clearance values: (i) method I, clearance versus body weight (simple allometric equation); (ii) method II, product of clearance and maximum life-span potential; (iii) method III, product of clearance and brain weight versus body weight. 3. The circumstances under which the three methods can be applied to predict clearance in humans were evaluated. 4. If the exponent lies between 0.55 to 0.7 then method I predicts clearance reasonably well. 5. If the exponent lies between 0.71 to 1.0 clearance can be predicted reasonably well by method II. 6. If the exponent is > 1.0 clearance can be predicted using method III.
A mean field annealing approach to robust corner detection (1998)

This paper is an extension of our previous paper to improve the capability of detecting corners. We proposed a method of boundary smoothing for curvature estimation using a constrained regularization technique in the previous paper. We propose another approach to boundary smoothing for curvature estimation in this paper to improve the capability of detecting corners. The method is based on a minimization strategy known as mean field annealing which is a deterministic approximation to simulated annealing. It removes the noise while preserving corners very well. Thus, we can detect corners easier and better in this approach than in the constrained regularization approach. Finally, some matching results based on the corners detected by corner sharpness in the mean field annealing approach are presented as a demonstration of the power of the proposed algorithm.
N-Methyl-d-Aspartic Acid Receptor Expression in the Dorsolateral Prefrontal Cortex of Elderly Patients With Schizophrenia (2001)

NMDA receptor subunits are abnormally expressed in elderly patients with schizophrenia. The disproportionate expression of the NR(1) and NR(2A) subunits relative to NR(2B) expression may have implications for the pathophysiology of schizophrenia and the sensitivity of schizophrenic patients to glutamate and glutamatergic drugs.
Antiproliferative Effects of 111 In- or 177 Lu-DOTATOC on Cells Exposed to Low Multiplicity-of-Infection Double-Deleted Vaccinia Virus Encoding Somatostatin Subtype-2 Receptor (2010)

Oncolytic viruses may be limited in their ability to infect and lyse tumor cells because of penetration barriers and viral elimination by the immune system. Combining virotherapy with targeted radiotherapy that uses (111)In- or (177)Lu-DOTATOC may address such issues by spatially enhancing antitumor effects through bystander and/or cross-fire phenomena. In this study, a double-deleted vaccinia virus (vvDD) encoding the gene for somatostatin subtype-2 receptor (sstr-2) infected MC-38 murine colon adenocarcinoma cells and increased their sstr-2 expression by 2-fold. A low multiplicity-of-infection (MOI = 0.1) of vvDD and short exposure time (48 hours) preserved MC-38 viability (>80%-90%) for up to 3 days, permitting targeting of sstr-2 by (111)In- or (177)Lu-DOTATOC. (111)In-DOTATOC, alone or in combination with vvDD, was less effective than (177)Lu-DOTATOC at decreasing the growth of sstr-2-gene-transfected human embryonic kidney (HEK)-293 cells or MC-38 cells in monolayer. However, (111)In- or (177)Lu-DOTATOC combined with vvDD provided equivalent growth inhibition of HEK-293 or MC-38 cells as spheroids, suggesting a bystander effect from (111)In-DOTATOC. Growth of the cells was reduced 4-fold (from 20% to <5%) at 8 days in this case. Further evaluation of low-MOI vvDD in combination with (111)In- or (177)Lu-DOTATOC for the treatment of MC-38 tumors in mice is planned.
Method for manufacturing whole‐genome microarrays by rolling circle amplification (2004)

Comparative genomic hybridization (CGH) to metaphase chromosomes is a method for genome-wide detection of chromosomal aberrations in DNA samples. Recent advances in microarray technology have improved CGH by replacing metaphase chromosomes with a collection of mapped genomic clones placed on glass slides. However, it is quite expensive and labor-intensive to prepare DNA from the genomic clones for use in constructing genomic microarrays. Here we used strand-displacement rolling circle amplification (RCA) to manufacture whole-genome microarrays by using a collection of about 4,500 mapped RPCI-11 BAC clones that cover the human genome at approximately a 1-Mb resolution. These genomic microarrays detected all major chromosomal aberrations in cancer cells lines and in cell lines with aneuploidy. In this article, we discuss the advantages of using RCA for the manufacturing of large genomic microarrays.
Resident and Staff Ratings of Foodservices in Long-Term Care: Implications for Autonomy and Quality of Life (2003)

Foodservices contribute to the health status, quality of life, and autonomy of long-term care (LTC) residents, yet malnutrition is prevalent. To improve nutritional status, LTC facilities should determine which aspects of foodservices are important to residents and which provoke the most dissatisfaction. Because staff control foodservices, it is equally important to examine their beliefs. Data were collected from nine LTC facilities in Quebec. Means and t tests of differences between residents' (n = 69) and staff 's (n = 52) mean importance and satisfaction rankings of 29 foodservice items are presented. Although residents rated foodservice choice and autonomy items lower in importance, these items were generally less satisfied. Staff consistently overrated both importance and satisfaction among residents. Specific recommendations for foodservice quality improvements are discussed in relation to residents' quality of life, autonomy, and nutritional status.
Protein-RNA Interactions in an Icosahedral Virus at 3.0 Å Resolution (1989)

Nearly 20 percent of the packaged RNA in bean-pod mottle virus (BPMV) binds to the capsid interior in a symmetric fashion and is clearly visible in the electron density map. The RNA displaying icosahedral symmetry is single-stranded with well-defined polarity and stereochemical properties. Interactions with protein are dominated by nonbonding forces with few specific contacts. The tertiary and quaternary structures of the BPMV capsid proteins are similar to those observed in animal picornaviruses, supporting the close relation between plant comoviruses and animal picornaviruses established by previous biological studies.
Instruction Set Processor Specifications for Simulation, Evaluation, and Synthesis (1979)

Formal descriptions of digital computers have been used traditionally for pedagogical purposes [Barbacci75]. Recent developments however, illustrate that a formal computer description is highly useful in the simulation, evaluation, and synthesis of computers and other digital systems. In this paper we shall review the use of the ISP notation [Bell71, Barbacci76, Barbacci77] at Carnegie-Mellon University. The paper is organized into three sections that deal with the language, its use in the simulation and evaluation of computer architectures, and finally, its use in computer aided design. I this paper we emphasize the commonality between these seemingly disjoint application. The reader is invited to consult the specific references for additional information of any particular subject.
Age-Associated Changes in Basal c-fos Transcription Factor Binding Activity in Rat Hearts (1996)

The early response proto-oncogene c-fos is expressed at very low levels in the mammalian heart at baseline. To further investigate the mechanism of altered c-fos expression with age, we studied in the basal state the binding of five transcription proteins to their cognate sites in the c-fos promoter/enhancer region, in adult and old F344 rats. Our results show a reduced binding of E2F and AP1 proteins to the c-fos promoter in aging hearts. The major calcium/cyclic AMP response element (CRE) and SP1 binding was unchanged. The only increase seen with age was in the serum response element (SRE) binding proteins. SRE is the point of convergence of different signal transduction pathways (via MAP kinases and the Rho family of GTPases) at the c-fos promoter. Increased SRE binding may reflect a compensation for a decreased binding of other transcription proteins to the c-fos promoter, alteration in the phosphorylation status of SRF, or a change in the ternary complex factors Elk 1 or SAP 1. Other possibilities include defects in the signal transduction pathways with aging, which combine to produce an overall negative balance in the function of the c-fos promoter despite the increased SRE binding activity. Both in vitro and in vivo experiments have shown decreased c-fos expression with age. This may be due partly to alterations in the basal levels of transcription factor binding.
Preferential expression of the mucosal homing receptor integrin alpha 4 beta 7 in gastrointestinal non-Hodgkin's lymphomas. (1997)

Recent studies have identified the integrin alpha 4 beta 7 as a mucosal homing receptor that mediates lymphocyte migration to the intestinal mucosa by binding to MAdCAM-1, a vascular recognition molecule (addressin) selectively expressed on mucosal endothelium. In the present study, we have assessed the expression of alpha 4 beta 7 on B- and T-cell non-Hodgkin's lymphomas of different primary localization and on related normal lymphocytes. Among B-lineage lymphomas, expression of alpha 4 beta 7 was present in the majority of cases of malignant lymphomatous polyposis of the intestine and low-grade lymphoma of the mucosa-associated lymphoid tissue/monocytoid B-cell lymphoma and in some cases of precursor B-cell lymphoma. CLL/small lymphocytic lymphoma, (nodal) mantle cell lymphoma, follicular center cell lymphoma, Burkitt's lymphoma, and diffuse large B-cell lymphoma were virtually always alpha 4 beta 7 negative, as was the case when localized in the mucosa-associated lymphoid tissue. The normal B cells of the follicle mantles and part of the B cells of the extrafollicular B-cell compartment of lymphoid tissues expressed moderate levels of alpha 4 beta 7. By contrast, follicular center cells were alpha 4 beta 7 negative. Among T-lineage lymphomas, expression of alpha 4 beta 7 was also strongly related to the primary localization; in mucosal, nodal, and cutaneous T cell lymphomas the percentage of positive cases was 56%, 17%, and 0%, respectively. All cases of precursor T-cell lymphoma were alpha 4 beta 7 negative. High expression of alpha 4 beta 7 was found on a subset of peripheral blood memory T cells as well as on lymphocytes in the intestinal mucosa. We conclude that non-Hodgkin's lymphomas that are related to mucosa-associated B- and T-lymphocyte populations selectively express the mucosal homing receptor alpha 4 beta 7. The presence of this receptor underscores their distinctive character and may play an important role in determining their characteristic mucosal dissemination pattern.
A theorem prover-based analysis tool for object-oriented databases (1998)

Abstract. We present a theorem-prover based analysis tool for object-oriented database systems with integrity constraints. Object-oriented database specifica-tions are mapped to higher-order logic (HOL). This allows us to reason about the semantics of database operations using a mechanical theorem prover such as Isabelle or PVS. The tool can be used to verify various semantics requirements of the schema (such as transaction safety, compensation, and commutativity) to support the advanced transaction models used in workflow and cooperative work. We give an example of method safety analysis for the generic structure editing operations of a cooperative authoring system. 1
Relative Risk of Upper Gastrointestinal Complications among Users of Acetaminophen and Nonsteroidal Anti-Inflammatory Drugs (2001)

Nonsteroidal anti-inflammatory drugs (NSAIDs) have been associated with an increase in upper gastrointestinal complications. There is no agreement, however, on whether all conventional NSAIDs have a similar relative risk (RR), and epidemiologic data are limited on acetaminophen. We studied the association between these medications and the risk of upper gastrointestinal bleed/perforation in a population-based cohort of 958,397 persons in the United Kingdom between 1993 and 1998. Our nested case-control analysis included 2,105 cases and 11,500 controls. RR estimates were adjusted for several factors known to be associated with upper gastrointestinal bleed/perforation. Compared with non-users, users of acetaminophen at doses less than 2 gm did not have an increased risk of upper gastrointestinal complications. The adjusted RR for acetaminophen at doses greater than 2 gm was 3.6 [95% confidence interval (95% CI) = 2.6-5.1]. The corresponding RRs for low/medium and high doses of NSAIDs were 2.4 (95% CI = 1.9-3.1) and 4.9 (95% CI = 4.1-5.8). The RR was 3.1 (95% CI = 2.5, 3.8) for short plasma half-life, 4.5 (95% CI = 3.5-5.9) for long half-life, and 5.4 (95% CI = 4.0-7.1) for slow-release formulations of NSAIDs. After adjusting for daily dose, the differences in RR between individual NSAIDs tended to diminish except for apazone. Users of H2 receptor antagonists, omeprazole, and misoprostol had RRs of 1.4 (95% CI = 1.2-1.8), 0.6 (95% CI = 0.4-0.9), and 0.6 (95% CI = 0.4-1.0), respectively. Among NSAID users, use of nitrates was associated with an RR of 0.6 (95% CI = 0.4-1.0).
Molecular Breeding of Tomato Lines for Mass Production of Miraculin in a Plant Factory (2010)

A transgenic tomato line (56B, "Moneymaker") that expresses the miraculin gene driven by the CaMV 35S promoter was crossed with a dwarf tomato ("Micro-Tom") for the molecular breeding of cultivars that are suitable for miraculin production in a closed cultivation system. Plant size, miraculin accumulation, and self-pruning growth were used as selection indicators for F2 plants. Two lines were chosen for further analysis, bred to the F6 or F7 generation and cultivated in a closed cultivation system. In 56B and the two crossed lines, the concentrations of miraculin in the pericarp were 140, 367, and 343 microg/g FW, respectively. We also estimated that 26.2, 73.6, and 45.9 kg FW/m2 of tomatoes and 2.2, 16.6, and 9.8 mg/m2 of miraculin in the pericarp, respectively, could be harvested per year. These two crossed lines will be useful for the mass production of miraculin, especially in a closed cultivation system.