gebhart/patrepeval huggingface dataset:
The central nervous system in a case of cyclopia in homo (1913)

The specimen was preserved immediately after death, under Dr. Le Count's direction, by an injection through the carotid artery of 10 per cent formalin (4 per cent formaldehyde) after which the whole body was immersed in a solution of the same.On account of this careful fixation, the histological preservation was excellent.*4 research had been begun upon this specimen before it came into my possession, and on this account I have been unable to determine the exact attachments of the cerebral roof over the thalaniic mass.I am indebted to Miss Katherine Hill, medical artist at the Hull Laboratory of Anatomy, for the four drawings of the entire brain made shortly after its removal from the skull cavity and before the relations referred to above had been disturbed.
The Refined Crystal Structure of Hexon, the Major Coat Protein of Adenovirus Type 2, at 2·9 Å Resolution (1994)

The crystal structure of hexon, the major coat protein from adenovirus type 2, has been refined at 2.9 A resolution. Hexon is a homo-trimer (molecular mass 3 x 109,077 Da) and crystallizes in the cubic space group P2(1)3, with a cell edge of 150.5 A. There are four molecules in the unit cell so that the crystallographic asymmetric unit contains one subunit of the trimer. The electron density in most regions is well-defined and 880 amino acid residues, of the 967 in this unusually long polypeptide chain, have been located and fitted. The N terminus (1 to 43) and three internal stretches (192 to 203, 270 to 291 and 444 to 453) are not defined, and a stretch (168 to 207) with unclear side-chain density is modelled as poly(Ala/Gly). The current refined model, consisting of 6943 non-hydrogen protein atoms and 85 water molecules, yields an R-factor of 19.9% for 18,176 reflections in the resolution range 5.0 to 2.9 A. The model has reasonable geometry with root-mean-square deviations from ideal bond lengths of 0.022 A and angle-related 1-3 distances of 0.056 A. The overall shape of the trimeric hexon molecule is unusual and may be divided into a pseudo-hexagonal base rich in beta-structure, and a triangular top formed from three long loops containing some secondary structure. The base contains two similar pedestal domains, P1 and P2, each of which is a flattened eight-stranded beta-barrel with the "jelly-roll greek key" topology characteristic of other viral coat proteins. P1 and P2 are related by an approximate 6-fold operation about the molecular 3-fold axis so that six barrels form the walls of the tubular hexon base. The hexon bases form close-packed p3 arrays on each facet of the icosahedral adenovirus virion. Unlike other viral capsids, the barrel axes are almost perpendicular to rather than parallel with the capsid surface. The hexon top, which consists of intimately interacting loops emerging from P1 and P2 in the base, has a triangular outline and so does not exhibit the pseudo-symmetry of the base. The structure of the hexon trimer shows how economically it meets the demands of its function as a stable protective viral coat, reveals the significance of the special features in its unusual amino acid sequence, and explains its biochemical and immunological properties. The molecule is hollow, with a large central cavity, and so has a high effective volume for its mass.(ABSTRACT TRUNCATED AT 400 WORDS)
Potential Growth Antagonists. I. Hydantoins and Disubstituted Glycines1,2 (1960)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTPotential Growth Antagonists. I. Hydantoins and Disubstituted Glycines1,2LOUIS H. GOODSON, IRWIN L. HONIGBERG, J. J. LEHMAN, and W. H. BURTONCite this: J. Org. Chem. 1960, 25, 11, 1920–1924Publication Date (Print):November 1, 1960Publication History Published online1 May 2002Published inissue 1 November 1960https://pubs.acs.org/doi/10.1021/jo01081a024https://doi.org/10.1021/jo01081a024research-articleACS PublicationsRequest reuse permissionsArticle Views277Altmetric-Citations47LEARN 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
Light-Regulated Transcription (1995)

This review focuses on light regulation of transcription, from light perception to changes in transcription, with an emphasis on regulatory elements in the promoters of light-regulated genes and proteins that bind to them. The abundance of over 100 mRNAs is regulated by light, and at least three photoreceptors influence transcription, but the importance of each photoreceptor may vary from gene to gene. Light-regulated promoters are composed of ubiquitous regulatory elements; the specific combination of elements appears to make a promoter light-regulated, and these combinations vary widely. Numerous proteins that bind to elements in light-regulated promoters have been identified and many have been cloned, but no cloned gene has been unequivocally assigned a function in light-regulated transcription. Substantial progress has been made in identifying steps in signal transduction from light perception to transcription, but these steps have yet to be assembled into complete pathways.
Cloning and surface expression of Pseudomonas aeruginosa O antigen in Escherichia coli. (1992)

As a step toward developing recombinant oral vaccines, we have explored the feasibility of expression of O polysaccharide antigens from Pseudomonas aeruginosa by Escherichia coli. We cloned in E. coli HB101 a 26.2-kilobase DNA fragment from P. aeruginosa strain PA103 that specifies the production of the O polysaccharide of Fisher immunotype 2 (IT-2) strains. The recombinant organism incorporated the P. aeruginosa IT-2 O polysaccharide onto the core of the E. coli lipopolysaccharide (LPS). Transfer of the recombinant plasmid to three LPS-rough strains of P. aeruginosa resulted in synthesis of IT-2 O antigen, and two of these transconjugant strains also synthesized a second O polysaccharide, presumably representing expression of a repressed, or an incomplete, set of genes for an endogenous O polysaccharide. Rabbits injected with the purified recombinant LPS made antibody specific for P. aeruginosa IT-2 O side chains, as did mice fed the recombinant E. coli strain. Expression of P. aeruginosa O antigens by enteric bacteria makes it possible to study these recombinant strains as oral vaccines to prevent P. aeruginosa infections.
Apolipoprotein E-derived peptides reduce CNS inflammation: implications for therapy of neurological disease (2006)

The apolipoprotein E4 isoform (apoE4) was initially identified as a susceptibility gene for the development of Alzheimer's disease, and has also recently been associated with poor outcome after acute traumatic and ischemic brain injury. One mechanism by which apoE may influence outcome in acute and chronic neurological disease is by downregulating glial activation and the neuroinflammatory response. Because it does not readily cross the blood-brain barrier (BBB), the apoE holoprotein has limited therapeutic potential. However, smaller peptides derived from the receptor binding region of apoE have been developed that mimic the functional anti-inflammatory and neuroprotective effects of the intact apoE protein. These apoE-derived therapeutic peptides cross the BBB and have been demonstrated to improve functional and histological outcomes in murine models of brain injury. Thus, the development of apoE-derived peptides represent a novel therapeutic strategy for the treatment of acute and chronic neurological disease.
Nucleic Acid–Metal Organic Framework (MOF) Nanoparticle Conjugates (2014)

Nanoparticles of a metal-organic framework (MOF), UiO-66-N3 (Zr6O4OH4(C8H3O4-N3)6), were synthesized. The surface of the MOF was covalently functionalized with oligonucleotides, utilizing a strain promoted click reaction between DNA appended with dibenzylcyclooctyne and azide-functionalized UiO-66-N3 to create the first MOF nanoparticle-nucleic acid conjugates. The structure of the framework was preserved throughout the chemical transformation, and the surface coverage of DNA was quantified. Due to the small pore sizes, the particles are only modified on their surfaces. When dispersed in aqueous NaCl, they exhibit increased stability and enhanced cellular uptake when compared with unfunctionalized MOF particles of comparable size.
The ts13 Mutation in the TAFII250 Subunit (CCG1) of TFIID Directly Affects Transcription of D-Type Cyclin Genes in Cells Arrested in G1 at the Nonpermissive Temperature (1997)

The general transcription initiation factor TFIID contains the TATA-binding protein (TBP) and TBP-associated factors (TAFs) implicated in the function of gene-specific activators. Previous studies have indicated that a hamster cell line (ts13) with a point mutation in the TAF(II)250/CCG1 (TAF(II)250) gene shows temperature-sensitive expression of a subset of genes and arrests in late G1 at 39.5 degrees C. Here, we report the identification of cell cycle-specific (G1-specific) genes that appear to be regulated directly through TAF(II)250 both in vivo and in vitro. Transcription rates of several cell cycle-regulatory genes were determined by run-on assays in nuclei from ts13 cells grown at permissive (33 degrees C) and nonpermissive (39.5 degrees C) temperatures. Temperature-dependent differences in transcription rates were observed for cyclin A, D1, and D3 genes. In transient-transfection assays, the human cyclin D1 promoter fused to a luciferase reporter showed a temperature-dependent reduction in activity in ts13 cells but not in parental BHK cells. In in vitro assays, upstream sequence-dependent transcription from the human cyclin D1 promoter was significantly reduced in ts13 nuclear extracts preincubated at 30 degrees C but not in similarly treated BHK nuclear extracts, and transcription in the ts13 extract was restored by addition of an affinity-purified human TFIID. Preincubation of the ts13 nuclear extracts did not affect the function of several GAL4-activation domain fusion proteins (GAL4-VP16, GAL4-p65, and GAL4-p53) on either the adenovirus major late or cyclin D1 core promoter bearing GAL4 sites, further indicating that the effect of the TAF(II)250 mutation is both core promoter and activator specific.
Cell-to-Cell Connection of Endothelial Progenitor Cells With Cardiac Myocytes by Nanotubes (2005)

The regeneration of new myocardium by stem or progenitor cells is an important therapeutic option. Cellular or nuclear fusion is considered as an alternative to cell reprogramming by transdifferentiation. However, the generation of hybrid cells may also be a consequence of a transient transmembrane exchange of proteins and organelles between cells. Therefore, we investigated the formation of intercellular connections, which may allow the transport of macromolecular structures between labeled adult human endothelial progenitor cells (EPC) and GFP-expressing neonatal rat cardiomyocytes (CM) in a coculture system. FACS analysis revealed that, 6 days after initiation of coculture, 2.1+/-0.4% of the cells stained positive for GFP and Dil-ac-LDL. 6 hours after initiation of the coculture, ultrafine intercellular structures between Dil-ac-LDL-labeled EPC and GFP-expressing CM were observed. The number of EPC, which established nanotubular connections with CM increased from 0.5+/-0.2% after 6 hours to 2.6+/-0.3% after 24 hours of coculture. The intercellular connections had a diameter from 50 to 800 nm, a length of 5 to 120 mum, and were only transiently established. To determine whether the nanotubular structures allowed the transport of organelles, we labeled CM with a mitochondrial live tracker (MitoTracker). Using time-lapse video microscopy, we observed the transport of stained complexes between CM and EPC resulting in up-take of MitoTracker-positive structures in EPC. Thus, the present study shows a novel type of cell-to-cell communication between progenitor cells and CM in vitro, which may contribute to the acquisition of a cardiomyogenic phenotype independent of permanent cellular or nuclear fusion.
Pathogenesis of pulmonary arterial hypertension: lessons from cancer (2013)

Although the causal pathomechanisms contributing to remodelling of the pulmonary vascular bed in pulmonary arterial hypertension (PAH) are still unclear, several analogous features with carcinogenesis have led to the emergence of the cancer-like concept. The major similarities concern the altered crosstalk between cells from different tissue types, unexplained proliferation and survival of pulmonary smooth muscle and endothelial cells, the metabolic (glycolytic) shifts, and the association with the immune system. However, major differences between PAH and cancer exist, including the absence of invasion and metastasis, as well as the pathogenic genes involved and the degrees of angiogenesis impairment and genetic instability. It is clear that PAH is not a cancer, but this cancer-like concept has opened a new field of investigation and raises the possibility that antiproliferative and/or oncological drugs may exert therapeutic effects not only in cancer, but also in PAH. Such analogies and differences are discussed here.
A comparison of different numerical methods for solving the forward problem in EEG and MEG (1993)

In view of the complexity of the conductivity and the geometry of the human head, a numerical method would appear to be necessary for the adequate calculation of the electric potential and the magnetic induction generated by electric sources within the brain. Four numerical methods that could be used for solving this problem are the finite-difference method, the finite-element method, the boundary-element method, and the finite-volume method. These methods could be used to calculate the electric potential and the magnetic induction directly. Alternatively, they could be applied to the electric potential or the electric field and the magnetic induction could then be determined by numerical integration of the Biot-Savart law. In this paper the four numerical methods are briefly reviewed. Thereafter the relative merits of the methods and the various options for using them to solve the EEG and MEG problem are evaluated.
Utilization of map-reduce for parallelization of resource scheduling using MPI (2011)

Scheduling for speculative parallelization is a problem that remained unsolved despite its importance [2]. In the previous work scheduling was done based on Fixed-Size Chunking (FSC) technique which needed several 'dry-runs' before an acceptable finalized chunk size that will be scheduled to each processors is found. There are many other scheduling methods which were originally designed for loops with no dependences, but they were primarily focused in the problem of load balancing. In this work we address the problem of scheduling tasks with and without dependences for speculative execution. We have found that a complexity between minimizing the number of re-executions and reducing overheads can be found if the size of the scheduled block of iterations is calculated at runtime. We introduce here a scheduling method called Parallelization of Resource scheduling (PRS) in which we first analyze the processing speed of each worker based on that further division of the actual task will be done. The result shows a 5% to 10% speedup improvement in real applications with dependences with respect to a carefully tuned PRS strategy.
Metadata harvesting for content‐based distributed information retrieval (2007)

Abstract We propose an approach to content‐based Distributed Information Retrieval based on the periodic and incremental centralization of full‐content indices of widely dispersed and autonomously managed document sources. Inspired by the success of the Open Archive Initiative's (OAI) Protocol for metadata harvesting , the approach occupies middle ground between content crawling and distributed retrieval. As in crawling, some data move toward the retrieval process, but it is statistics about the content rather than content itself; this grants more efficient use of network resources and wider scope of application. As in distributed retrieval, some processing is distributed along with the data, but it is indexing rather than retrieval; this reduces the costs of content provision while promoting the simplicity, effectiveness, and responsiveness of retrieval. Overall, we argue that the approach retains the good properties of centralized retrieval without renouncing to cost‐effective, large‐scale resource pooling. We discuss the requirements associated with the approach and identify two strategies to deploy it on top of the OAI infrastructure. In particular, we define a minimal extension of the OAI protocol which supports the coordinated harvesting of full‐content indices and descriptive metadata for content resources. Finally, we report on the implementation of a proof‐of‐concept prototype service for multimodel content‐based retrieval of distributed file collections.
The mode of protein antigen administration determines preferential presentation of peptide-class II complexes by lymph node dendritic or B cells (1997)

We have compared the capacity of dendritic cells (DC) and B cells to present peptide-class II complexes following administration of protein in adjuvant or in soluble form. Three different antigen-presenting cell (APC) populations were separated from draining lymph node cells from mice immunized s.c. with hen egg-white lysozyme (HEL) in adjuvant or with adjuvant only followed by soluble HEL: DC (N418+, class II+, B220-, low buoyant density), large B cells (B220+, low buoyant density) and small B cells (B220+, high buoyant density). HEL peptide-class II complexes displayed by these APC were evaluated by their capacity to activate HEL-specific T hybridoma cells. Following immunization with HEL in adjuvant, DC are the only lymph node APC population expressing detectable HEL peptide-class II complexes. Conversely, after i.v. administration of soluble HEL in mice previously injected with adjuvant only, lymph node B cells are much more efficient than DC in presenting peptide-class II complexes to T cells. Therefore, different modes of protein antigen administration lead to selective expression of antigenic complexes by different APC populations. These data correlate with the observation that, unlike B cells, DC recruited in lymph nodes of mice injected with adjuvant only present in vitro processed protein antigen much less efficiently than synthetic peptides, probably as a consequence of their maturation in vivo.
Studies on the Mechanism of Action of Isoniazid and Ethionamide in the Chemotherapy of Tuberculosis (1995)

The inactivation of the enoyl-reductase InhA from Mycobacterium tuberculosis by reactive intermediates formed during the oxidn. of isoniazid and ethionamide was studied. Both drugs can generate electrophilic intermediates capable of reacting with a nucleophilic group of InhA, leading to its inactivation. After inactivation of InhA by isoniazid, one mol. of isoniazid per InhA is covalently bound to the enzyme. Mapping studies suggest that Cys243 is the residue modified in the course of the inactivation. [on SciFinder (R)]
Biochemical characterization of the murine S100A9 (MRP14) protein suggests that it is functionally equivalent to its human counterpart despite its low degree of sequence homology (2000)

Due to the low degree of sequence similarity it has been speculated that murine and human S100A9 (MRP14), an inflammatory marker protein belonging to the S100 protein family, may have different cellular functions in mouse and man. The present study was undertaken to investigate the murine S100A9 protein (mS100A9) biochemically. We demonstrate that in murine peripheral CD11b+ cells up to 20% of the protein of the cytosolic fraction consists of mS100A9 and that several minor mS100A9 isoforms are present. Cell fractionation experiments with CD11b+ murine leukocytes showed that mS100A9 is found in the cytosol as well as in the insoluble fraction. Transient expression of a green fluorescence protein-mS100A9 fusion in mammalian cells revealed that mS100A9 is localized in neither the nucleus nor the vesicles. Recombinantly expressed murine S100A9 interacts in vitro with murine and human S100A8 in an in vitro glutathione S-transferase pull-down assay. Homodimerization was not observed. For further biochemical analysis the myeloid 32D cell line is presented as a suitable model, to study murine myeloid expressed S100 proteins. Both murine S100A9 and its dimerization partner mS100A8 are expressed at the onset of granulocyte-colony stimulating factor induced myeloid differentiation. Substantial amounts of this complex are constitutively secreted by granulocytic 32D cells into the medium. In summary, these data suggest, that the human and murine S100A9 may share a higher degree of functional homology than of sequence similarity.
Preparation and Electrical Properties of An Amorphous SiC/Crystalline Si P+n Heterostructure (1984)

An amorphous SiC/crystalline Si heterostructure has been fabricated and its electrical properties investigated. The amorphous film was prepared in an inductive-coupled plasma chemical vapor deposition system, and its properties studied for the first time. X-ray diffraction pattern studies revealed that films do not grow epitaxially at a deposition substrate temperature of 450°C and that they are amorphous in nature. An amorphous p + SiC/crystalline n-Si heterostructure showed good rectifying properties. Temperature measurements indicate that the current is dominated by the injection component at higher temperatures and by tunneling and recombination at lower temperatures. The electron affinity of the doped a-SiC film was estimated to be 3.24 eV. A possible energy band diagram is presented in this paper.
Engagement of p75/AIRM1 or CD33 inhibits the proliferation of normal or leukemic myeloid cells (1999)

P75/AIRM1 is a recently identified surface molecule that belongs to the sialoadhesin family and displays homology with the myeloid cell antigen CD33. In lymphoid cells, p75/AIRM1 is confined to natural killer cells and mediates inhibition of their cytolytic activity. In this study, we show that p75/AIRM1 is also expressed by cells of the myelomonocytic cell lineage, in which it appears at a later stage as compared with CD33. In vitro proliferation and differentiation of cord blood-derived CD34(+) cells (induced by stem cell factor and granulocyte-macrophage colony-stimulating factor) were consistently inhibited by the addition of anti-p75/AIRM1 mAb. Engagement of CD33 led to inhibition in some experiments. A sharp decrease of cell proliferation/survival was detected in all three p75/AIRM1+ chronic myeloid leukemias analyzed when cultured in the presence of either anti-p75/AIRM1 or anti-CD33 mAbs. Thus, the present study suggests that p75/AIRM1 and CD33 may play a regulatory role in normal myelopoiesis and may be viewed as suitable target molecules to counteract the proliferation/survival of chronic myeloid leukemias.