gebhart/patrepeval huggingface dataset:
The Specific Monocarboxylate Transporter (MCT1) Inhibitor, AR-C117977, a Novel Immunosuppressant, Prolongs Allograft Survival in the Mouse (2007)

Novel small molecular weight compounds that act by inhibiting the monocarboxylate transporter (MCT1) receptor have been found to cause profound inhibition of T-cell responses to alloantigen in vitro. Here, we have investigated the ability of one compound in this series, AR-C117977, a potent MCT1 inhibitor, to prevent the acute and chronic rejection of vascularized and nonvascularized allografts in the mouse. Treatment with AR-C117977 or cyclosporin A (CsA) administered at a dose of 30 mg/kg subcutaneously for 15 days to adult CBA. Ca (H2(k)) mice, commencing either 3 days or 1 day before transplantation, was found to prolong the survival of an allogeneic (C57BL/10 H2(b); NZW H2(z); or BALB/c H2(d)) heart, aorta, or skin allograft significantly compared with treatment with vehicle alone (median survival time [MST] AR-C117977 treated 15; 19 and 18 days [skin] and 73; 66 and 67 days ([heart] vs. vehicle treated 8, 8 and 9 days [skin] and 9, 8, 10 days [heart] for B10, NZW and BALB grafts, respectively). AR-C117977 also inhibited the development of transplant arteriosclerosis in aortic allografts partially, but was unable to inhibit alloantibody production after transplantation. The specific MCT1 inhibitor AR-C117977 has potent immunosuppressive properties in vivo effectively preventing acute but not chronic allograft rejection in the mouse.
Posterior C1–C2 Fusion With Polyaxial Screw and Rod Fixation (2001)

Fixation of the atlantoaxial complex using polyaxial-head screws and rods seems to be a reliable technique and should be considered an efficient alternative to the previously reported techniques.
Strategies for the visualization of multiple 2D vector fields (2006)

Strategies for effectively visualizing colocated 2D vector fields enable understanding of key physical structures of one vector field within the context of a related vector field. This article describes the range of effects possible by combining several existing flow visualization techniques for analyzing multiple vector fields. Our present efforts focus primarily on the investigation of methods for effectively visualizing multiple fields defined over a 2D domain; the problem of effectively visualizing multiple fields defined over a 3D domain is even more challenging, and an important area for future work
Study on the Combination of In-situ Chemical Oxidation Method by using Hydrogen Peroxide with the Air-sparging Method for Diesel Contaminated Soil and Groundwater (2006)

Laboratory scale experiments were performed to investigate the removal efficiency of the in-situ chemical oxidation method and the air-sparging method for diesel contaminated soil and groundwater. Two kinds of diesel contaminated soils (TPH concentration : 2,401 mg/kg and 9,551 mg/kg) and groundwater sampled at Busan railroad station were used for the experiments. For batch experiments of chemical oxidation by using 50% hydrogen peroxide solution, TPH concentration of soil decreased to 18% and 15% of initial TPH concentration. For continuous column experiments, more than 70% of initial TPH in soil was removed by using soil flushing with 20% hydrogen peroxide solution, suggesting that most of diesel in soil reacted with hydrogen peroxide and degraded into or gases. Batch experiment for the air-sparging method with artificially contaminated groundwater (TPH concentration : 810 mg/L) was performed to evaluate the removal efficiency of the air-sparging method and TPH concentration of groundwater decreased to lower than 5 mg/L (waste water discharge tolerance limit) within 72 hours of air-sparging. For box experiment with diesel contaminated real soil and groundwater, the removal efficiency of air-sparging was very low because of the residual diesel phase existed in soil medium, suggesting that the air-sparging method should be applied to remediate groundwater after the free phase of diesel in soil medium was removed. For the last time, the in-situ box experiment for a unit process mixed the chemical oxidation process with the air-sparging process was performed to remove diesel from soil and groundwater at a time. Soil flushing with 20% hydrogen peroxide solution was applied to diesel contaminated soils in box, and subsequently contaminated groundwater was purified by the air-sparging method. With 23 L of 20% hydrogen peroxide solution and 2,160 L of air-sparging, TPH concentration of soil decreased from 9,551 mg/kg to 390 mg/kg and TPH concentration of groundwater reduced to lower than 5 mg/L. Results suggested that the combination process of the in-situ hydrogen peroxide flushing and the air-sparging has a great possibility to simultaneously remediate fuel contaminated soil and groundwater.
Ethnicity and Space (2008)

This chapter examines the field of ethnic geography and the geography of race and racism. It begins with a discussion of two schools that explain the relationships between ethnic minority groups and the dominant group in mainstream American society: acculturation-assimilation and ethnicity-pluralism. It then considers the spatial forms of ethnicity and race, with particular emphasis on two major forms of ethnic concentrations: ghettos and ethnic enclaves. It also describes an influential theory that accounts for the replacement of one neighborhood population by another, namely, the invasion-succession model, and compares it with the downtown versus uptown model. Furthermore, it explores the economic structure of racial/ethnic groups, focusing on three types of ethnic economy: ethnic economic niches, ethnic enclave economies, and contemporary integrated ethnic economies. The chapter concludes by explaining how transnationalism links international migration, ethnic and racial identity, the changing global economy, and nation-states.
Diaphragm-based extrinsic Fabry-Perot interferometric optical fiber sensor for acoustic wave detection under high background pressure (2005)

A new structure for diaphragm-based extrinsic Fabry-Perot interferometric (EFPI) optical fiber sensors is presented. This structure introduces a through hole in a conventional diaphragm-based EFPI sensor and significantly reduces the effect of operating point drift due to the background pressure and fluctuations. This structure also potentially has high temperature stability.
Reactions of magnesium hydrides. 1. Reduction of organic functional compounds by magnesium hydride and 2,6-diisopropylphenoxymagnesium hydride (1978)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTReactions of magnesium hydrides. 1. Reduction of organic functional compounds by magnesium hydride and 2,6-diisopropylphenoxymagnesium hydrideE. C. Ashby, J. J. Lin, and A. B. GoelCite this: J. Org. Chem. 1978, 43, 8, 1557–1560Publication Date (Print):April 1, 1978Publication History Published online1 May 2002Published inissue 1 April 1978https://pubs.acs.org/doi/10.1021/jo00402a017https://doi.org/10.1021/jo00402a017research-articleACS PublicationsRequest reuse permissionsArticle Views292Altmetric-Citations31LEARN 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
What Did STAR*D Teach Us? Results From a Large-Scale, Practical, Clinical Trial for Patients With Depression (2009)

The authors provide an overview of the Sequenced Treatment Alternatives to Relieve Depression (STAR*D) study (www.star-d.org), a large-scale practical clinical trial to determine which of several treatments are the most effective "next-steps" for patients with major depressive disorder whose symptoms do not remit or who cannot tolerate an initial treatment and, if needed, ensuing treatments. Entry criteria were broadly defined and inclusive, and patients were enrolled from psychiatric and primary care clinics. All participants began on citalopram and were managed by clinic physicians, who followed an algorithm-guided acute-phase treatment through five visits over 12 weeks. At the end of each sequence, patients whose depression had not fully remitted were eligible for subsequent randomized trials in a sequence of up to three clinical trials. In general, remission rates in the study clinics were lower than expected, suggesting the need for several steps to achieve remission for most patients. There was no clear medication "winner" for patients whose depression did not remit after one or more aggressive medication trials. Both switching and augmenting appeared to be reasonable options when an initial antidepressant treatment failed, although these two strategies could not be directly compared. Further, the likelihood of remission after two vigorous medication trials substantially decreased, and remission would likely require more complicated medication regimens for which the existing evidence base is quite thin. STAR*D demonstrated that inclusion of more real-world patients in clinical trials is both feasible and informative. Policy implications of the findings, as well as the study's limitations, are discussed.
Reaction of Olefins with Solid Cuprous Halides (1941)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTReaction of Olefins with Solid Cuprous HalidesE. R. Gilliland, H. L. Bliss, and C. E. KipCite this: J. Am. Chem. Soc. 1941, 63, 8, 2088–2090Publication Date (Print):August 1, 1941Publication History Published online1 May 2002Published inissue 1 August 1941https://doi.org/10.1021/ja01853a017RIGHTS & PERMISSIONSArticle Views94Altmetric-Citations37LEARN 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 (253 KB) Get e-Alerts Get e-Alerts
Estimation of globular protein secondary structure from circular dichroism (1981)

A new method is developed in which a circular dichroism (CD) spectrum is analyzed directly as a linear combination of the CD spectra (from 190 to 240 nm) of 16 proteins whose secondary structures are known from X-ray crystallography. This avoids the dilemma encountered in previous methods of trying to define single reference CD spectra that were supposed to characterize such broad and variable classes as helix, beta sheet, beta turn, and "remainder". It also permits a more accurate and flexible analysis. The usual instability in using so many parameters is automatically controlled by a simple constrained statistical regularization procedure (similar to ridge regression). Sixteen tests were made by removing 1 spectrum at a time from the set of 16 and analyzing it in terms of the other 15. The product moment correlation coefficients between the computed fractions of helix, beta sheet, beta turn, and remainder and the fractions from the X-ray data were 0.96, 0.94, 0.31,, and 0.49, respectively. Thus, the helix and beta-sheet accuracy is very good. (The corresponding values calculated by a previous method with four reference spectra were 0.85, 0.25, --0.31, and 0.46.).
Iridium compounds in catalysis (1979)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTIridium compounds in catalysisRobert CrabtreeCite this: Acc. Chem. Res. 1979, 12, 9, 331–337Publication Date (Print):September 1, 1979Publication History Published online1 May 2002Published inissue 1 September 1979https://pubs.acs.org/doi/10.1021/ar50141a005https://doi.org/10.1021/ar50141a005research-articleACS PublicationsRequest reuse permissionsArticle Views10739Altmetric-Citations778LEARN 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
Induction of gp130-related Cytokines and Activation of JAK2/STAT3 Pathway in Astrocytes Precedes Up-regulation of Glial Fibrillary Acidic Protein in the 1-Methyl-4-phenyl-1,2,3,6-tetrahydropyridine Model of Neurodegeneration (2004)

Reactive gliosis is a hallmark of disease-, trauma-, and chemical-induced damage to the central nervous system. The signaling pathways associated with this response to neural injury remain to be elucidated, but recent evidence implicates the Janus kinase (JAK)-signal transducer and activator of transcription (STAT) pathway. Here, we used the known dopaminergic neurotoxicant, 1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine (MPTP), to selectively damage striatal dopaminergic nerve terminals and elicit a glial response. We then analyzed changes in gene expression and protein phosphorylation, in vivo, to identify ligands and mediators of the JAK-STAT pathway that accompany glial activation. Administration of MPTP caused rapid tyrosine (Tyr-705) phosphorylation and nuclear translocation of STAT3 in striatal astrocytes, prior to the induction of glial fibrillary acidic protein mRNA and protein. Pharmacological protection of dopaminergic nerve terminals with nomifensine abolished MPTP-mediated phosphorylation and translocation of STAT3 and prevented induction of astrogliosis. Among the Janus kinase family of tyrosine kinases, only JAK2 was associated with the phosphorylation of STAT3 after MPTP and, inhibition of JAK2 by AG490, in vivo, attenuated both the phosphorylation of STAT3 and induction of GFAP. The p44/42 mitogen-activated protein kinase (MAPK; ERK1/2) also was activated by MPTP, but was not associated with activation of STAT3, because serine (Ser-727) was not phosphorylated. The mRNA for ligands of the gp130-JAK/STAT3 signaling pathway, interleukin-6, leukemia inhibitory factor, and oncostatin M were elevated prior to activation of STAT3 and induction of astrogliosis; neuroprotection with nomifensine blocked these effects of MPTP. Taken together, our results suggest that the gp130-mediated activation of JAK2/STAT3 signaling pathway may play a key role in the induction of astrogliosis.
The single-strand DNA binding activity of human PC4 prevents mutagenesis and killing by \noxidative DNA damage (2004)

Human positive cofactor 4 (PC4) is a transcriptional coactivator with a highly conserved single-strand DNA (ssDNA) binding domain of unknown function. We identified PC4 as a suppressor of the oxidative mutator phenotype of the Escherichia coli fpg mutY mutant and demonstrate that this suppression requires its ssDNA binding activity. Saccharomyces cerevisiae mutants lacking their PC4 ortholog Sub1 are sensitive to hydrogen peroxide and exhibit spontaneous and peroxide-induced hypermutability. PC4 expression suppresses the peroxide sensitivity of the yeast sub1Delta mutant, suggesting that the human protein has a similar function. A role for yeast and human proteins in DNA repair is suggested by the demonstration that Sub1 acts in a peroxide resistance pathway involving Rad2 and by the physical interaction of PC4 with the human Rad2 homolog XPG. We show that XPG recruits PC4 to a bubble-containing DNA substrate with a resulting displacement of XPG and formation of a PC4-DNA complex. We discuss the possible requirement for PC4 in either global or transcription-coupled repair of oxidative DNA damage to mediate the release of XPG bound to its substrate.
Oncotator: Cancer Variant Annotation Tool (2015)

Oncotator is a tool for annotating genomic point mutations and short nucleotide insertions/deletions (indels) with variant- and gene-centric information relevant to cancer researchers. This information is drawn from 14 different publicly available resources that have been pooled and indexed, and we provide an extensible framework to add additional data sources. Annotations linked to variants range from basic information, such as gene names and functional classification (e.g. missense), to cancer-specific data from resources such as the Catalogue of Somatic Mutations in Cancer (COSMIC), the Cancer Gene Census, and The Cancer Genome Atlas (TCGA). For local use, Oncotator is freely available as a python module hosted on Github (https://github.com/broadinstitute/oncotator). Furthermore, Oncotator is also available as a web service and web application at http://www.broadinstitute.org/oncotator/.
Structure and stability of DNA quadruplexes under molecular crowding conditions (2005)

A living cell contains generally macromolecules occupying 20-40% of the total volume. To mimic the crowded cellular condition, we prepared solutions including various cosolutes and investigated the influence of the cosolute on the structure and stability of DNA G-quadruplex. As a result, Tetrahymena telomere sequences form well-ordered G-wires in the presence of cosolutes, whereas human telomere sequences remain as compact G-quadruplexes. Since these sequence motif differ by only one base, these results demonstrate that a single base difference in telomere sequences leads to drastically different structures under the molecular crowding conditions. The findings are useful for understanding G-quadruplex structures in cell-like conditions and for design of DNA nanomaterials.
Tumor necrosis factor induces neuroendocrine differentiation in small cell lung cancer cell lines (1998)

We studied tumor necrosis factor (TNF)-alpha as a candidate cytokine to promote neuroendocrine cell differentiation in a nitrosamine-hyperoxia hamster lung injury model. Differential screening identified expression of the genes modulated by TNF-alpha preceding neuroendocrine cell differentiation. Undifferentiated small cell lung carcinoma (SCLC) cell lines NCI-H82 and NCI-H526 were treated with TNF-alpha for up to 2 wk. Both cell lines demonstrated rapid induction of gastrin-releasing peptide (GRP) mRNA; H82 cells also expressed aromatic-L-amino acid decarboxylase mRNA within 5 min after TNF-alpha was added. Nuclear translocation of nuclear factor-kappaB immunostaining occurred with TNF-alpha treatment, suggesting nuclear factor-kappaB involvement in the induction of GRP and/or aromatic-L-amino acid decarboxylase gene expression. We also demonstrated dense core neurosecretory granules and immunostaining for proGRP and neural cell adhesion molecule in H82 cells after 7-14 days of TNF-alpha treatment. We conclude that TNF-alpha can induce phenotypic features of neuroendocrine cell differentiation in SCLC cell lines. Similar effects of TNF-alpha in vivo may contribute to the neuroendocrine cell differentiation/hyperplasia associated with many chronic inflammatory pulmonary diseases.
Analysis and initial experiments for a novel elephant's trunk robot (2002)

The idea of studying tentacle and trunk type biological manipulation is not new, but there has been little progress in the development and application of physical devices to simulate these types of manipulation. Our research in this area is centered on a novel elephant trunk robot. We review the construction of the robot and how it compares to biological manipulators. We then apply our previously designed kinematic model to describe the kinematics of the robot. We finish by providing some examples of intelligent manipulation using the robot.
Effect of bases contiguous to AUG on translation initiation. (1982)

Chemical Synthesis and Characterization of Oli onucleotides The o e e t r a m e r s and hexamers) :sed in this work were prepared by the general phoaphotriester Synthesis method (15-171, Preparative d a t a , pur~fication procedure and characterization by NllR work rill be published elsewhere.D a t a for other ollgoaers is incremental analysis (32.331 of tetramers and hexamers used kr.this included in a previous publication (121.The "Materials and Methods" are presented in miniprint as prepared by the authors.Miniprint is easily read with the aid of a standard magnifying glass.
The global distribution of the arbovirus vectors Aedes aegypti and Ae. albopictus (2015)

Dengue and chikungunya are increasing global public health concerns due to their rapid geographical spread and increasing disease burden. Knowledge of the contemporary distribution of their shared vectors, Aedes aegypti and Aedes albopictus remains incomplete and is complicated by an ongoing range expansion fuelled by increased global trade and travel. Mapping the global distribution of these vectors and the geographical determinants of their ranges is essential for public health planning. Here we compile the largest contemporary database for both species and pair it with relevant environmental variables predicting their global distribution. We show Aedes distributions to be the widest ever recorded; now extensive in all continents, including North America and Europe. These maps will help define the spatial limits of current autochthonous transmission of dengue and chikungunya viruses. It is only with this kind of rigorous entomological baseline that we can hope to project future health impacts of these viruses.