gebhart/patrepeval huggingface dataset:
Mitochondria and apoptosis (1998)

Programmed cell death serves as a major mechanism for the precise regulation of cell numbers and as a defense mechanism to remove unwanted and potentially dangerous cells. Despite the striking heterogeneity of cell death induction pathways, the execution of the death program is often associated with characteristic morphological and biochemical changes, and this form of programmed cell death has been termed apoptosis. Genetic studies in Caenorhabditis elegans had led to the identification of cell death genes (ced). The genes ced-3 and ced-4 are essential for cell death; ced-9 antagonizes the activities of ced-3 and ced-4, and thereby protects cells that should survive from any accidental activation of the death program. Caspases (cysteine aspartases) are the mammalian homologues of CED-3. CED-9 protein is homologous to a family of many members termed the Bcl-2 family (Bcl-2s) in reference to the first discovered mammalian cell death regulator. In both worm and mammalian cells, the antiapoptotic members of the Bcl-2 family act upstream of the execution caspases somehow preventing their proteolytic processing into active killers. Two main mechanisms of action have been proposed to connect Bcl-2s to caspases. In the first one, antiapoptotic Bcl-2s would maintain cell survival by dragging caspases to intracellular membranes (probably the mitochondrial membrane) and by preventing their activation. The recently described mammalian protein Apaf-1 (apoptosis protease-activating factor 1) could be the mammalian equivalent of CED-4 and could be the physical link between Bcl-2s and caspases. In the second one, Bcl-2 would act by regulating the release from mitochondria of some caspases activators: cytochrome c and/or AIF (apoptosis-inducing factor). This crucial position of mitochondria in programmed cell death control is reinforced by the observation that mitochondria contribute to apoptosis signaling via the production of reactive oxygen species. Although for a long time the absence of mitochondrial changes was considered as a hallmark of apoptosis, mitochondria appear today as the central executioner of programmed cell death. In this review, we examine the data concerning the mitochondrial features of apoptosis. Furthermore, we discuss the possibility that the mechanism originally involved in the maintenance of the symbiosis between the bacterial ancestor of the mitochondria and the host cell precursor of eukaryotes, provided the basis for the actual mechanism controlling cell survival.
The Formation of the Oxides of Carbon by the Pyrolysis of Tobacco (1975)

Abstract Flue-cured Virginia tobacco has been heated in nitrogen and nitrogen/oxygen mixtures under flow conditions, and the rate of formation of carbon monoxide and carbon dioxide has been determined as a function of temperature, heating rate, and proportion of oxygen in the gas. When the tobacco is heated in nitrogen at heating rates comparable to those in a smouldering cigarette, 27 % of the carbon content of the tobacco is converted to carbon oxides. Both carbon oxides show two distinct formation regions: a low-temperature region (about 100°-450°C), and a high-temperature region (about 550°-900°C). These temperature limits are almost identical to those predicted from studies on the combustion coal of a cigarette burning in air. When tobacco, or the carbonaceous residue remaining after the pyrolysis experiments, is heated in nitrogen / oxygen mixtures, the total amount of carbon converted to carbon monoxide and carbon dioxide is independent of heating rate, but the relative proportions of the two oxides are strongly dependent on heating rate. At the lower heating rate, proportionally less carbon monoxide, and more carbon dioxide, is produced. Under oxidation conditions, about 70 % of both carbon oxides formed in the low-temperature region (100°-450°C) are produced by tobacco decomposition reactions, whereas in the high-temperature region about 10-20 % of the carbon monoxide, and 2-9 % of the carbon dioxide, are produced by tobacco decomposition.
Regulatory T-Cell Generation and Kidney Allograft Tolerance Induced by Mesenchymal Stem Cells Associated With Indoleamine 2,3-Dioxygenase Expression (2010)

IDO secreted by MSCs was responsible, at least in part, for induction of kidney allograft tolerance through generation of Tregs. This study supports the clinical application of MSCs in transplantation.
Biology of Treponema pallidum: correlation of functional activities with genome sequence data. (2001)

Aspects of the biology of T. pallidum subsp. pallidum, the agent of syphilis, are examined in the context of a century of experimental studies and the recently determined genome sequence. T. pallidum and a group of closely related pathogenic spirochetes have evolved to become highly invasive, persistent pathogens with little toxigenic activity and an inability to survive outside the mammalian host. Analysis of the genome sequence confirms morphologic studies indicating the lack of lipopolysaccharide and lipid biosynthesis mechanisms, as well as a paucity of outer membrane protein candidates. The metabolic capabilities and adaptability of T. pallidum are minimal, and this relative deficiency is reflected by the absence of many pathways, including the tricarboxylic acid cycle, components of oxidative phosphorylation, and most biosynthetic pathways. Although multiplication of T. pallidum has been obtained in a tissue culture system, continuous in vitro culture has not been achieved. The balance of oxygen utilization and toxicity is key to the survival and growth of T. pallidum, and the genome sequence reveals a similarity to lactic acid bacteria that may be useful in understanding this relationship. The identification of relatively few genes potentially involved in pathogenesis reflects our lack of understanding of invasive pathogens relative to toxigenic organisms. The genome sequence will provide useful raw data for additional functional studies on the structure, metabolism, and pathogenesis of this enigmatic organism.
Introduction to Algorithms (1991)

From the Publisher:
The updated new edition of the classic Introduction to Algorithms is intended primarily for use in undergraduate or graduate courses in algorithms or data structures. Like the first edition,this text can also be used for self-study by technical professionals since it discusses engineering issues in algorithm design as well as the mathematical aspects. 
In its new edition,Introduction to Algorithms continues to provide a comprehensive introduction to the modern study of algorithms. The revision has been updated to reflect changes in the years since the book's original publication. New chapters on the role of algorithms in computing and on probabilistic analysis and randomized algorithms have been included. Sections throughout the book have been rewritten for increased clarity,and material has been added wherever a fuller explanation has seemed useful or new information warrants expanded coverage. 
As in the classic first edition,this new edition of Introduction to Algorithms presents a rich variety of algorithms and covers them in considerable depth while making their design and analysis accessible to all levels of readers. Further,the algorithms are presented in pseudocode to make the book easily accessible to students from all programming language backgrounds. 
Each chapter presents an algorithm,a design technique,an application area,or a related topic. The chapters are not dependent on one another,so the instructor can organize his or her use of the book in the way that best suits the course's needs. Additionally,the new edition offers a 25% increase over the first edition in the number of problems,giving the book 155 problems and over 900 exercises thatreinforcethe concepts the students are learning.
Sterols. I. A Study of the 22-Ketosteroids<sup>1</sup> (1945)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSterols. I. A Study of the 22-Ketosteroids1Wayne Cole and Percy L. JulianCite this: J. Am. Chem. Soc. 1945, 67, 8, 1369–1375Publication Date (Print):August 1, 1945Publication History Published online1 May 2002Published inissue 1 August 1945https://pubs.acs.org/doi/10.1021/ja01224a044https://doi.org/10.1021/ja01224a044research-articleACS PublicationsRequest reuse permissionsArticle Views175Altmetric-Citations34LEARN 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
TCP Alternatives with Interactive Connectivity Establishment (ICE (2005)

Interactive Connectivity Establishment (ICE) defines a mechanism for
NAT traversal for multimedia communication protocols based on the
offer/answer model of session negotiation. ICE works by providing a
set of candidate transport addresses for each media stream, which are
then validated with peer-to-peer connectivity checks based on Simple
Traversal of UDP over NAT (STUN). ICE provides a general framework for
describing alternates, but only defines UDP-based transport protocols.
This specification extends ICE to TCP-based media, including the
ability to offer a mix of TCP and UDP-based candidates for a single
stream.
Electrochemistry of Nucleic Acids and Development of DNA Sensors (2002)

Click to increase image sizeClick to decrease image sizeKeywords: DNA damage detectionDNA hybridization at magnetic beadselectrochemical DNA sensorsnucleic acid electrochemistryDNA at electrode surfacesdecentralized DNA diagnostics.
Cyclopropanol derivatives as intermediates for organochemical synthesis (1970)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTCyclopropanol derivatives as intermediates for organochemical synthesisErnest Wenkert, Richard August Mueller, Edward J. Reardon Jr., S. S. Sathe, D. J. Scharf, and Giorgio TosiCite this: J. Am. Chem. Soc. 1970, 92, 25, 7428–7436Publication Date (Print):December 1, 1970Publication History Published online1 May 2002Published inissue 1 December 1970https://pubs.acs.org/doi/10.1021/ja00728a029https://doi.org/10.1021/ja00728a029research-articleACS PublicationsRequest reuse permissionsArticle Views888Altmetric-Citations83LEARN 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
Dynamic holographic 3-D image projection (2003)

The display of dynamic holographic images is possible by computing the hologram of objects in a three-dimensional scene and then transcribing the two-dimensional digital hologram onto a digital micromirror system illuminated with coherent light. Proof-of-principle instruments that reconstruct real and virtual images are described. The underlying process, its characteristics, limitations and utility are discussed.
Isolated follicular lymphoma cells are resistant to apoptosis and can be grown in vitro in the CD40/stromal cell system (1993)

Low-grade follicular non-Hodgkin's lymphomas are characterized by the presence of a t(14;18) chromosomal translocation that results in deregulation of the B-cell lymphoma (Bcl-2) gene. Studies in cell lines and transgenic animal models have suggested that this results in the suppression of apoptotic cell death in germinal centers. B lymphocytes from normal germinal centers and lymph nodes infiltrated by follicular lymphoma were isolated by immunomagnetic depletion of cells bearing CD4, CD8, or slgD for study in vitro. Follicular lymphoma cells expressing Bcl-2 protein were shown to resist apoptosis after isolation, and could be induced to proliferate in a culture system previously described for the growth of normal B lymphocytes. By the use of a mouse fibroblast monolayer transfected with the CDw32 Fc receptor to present CD40 monoclonal antibody in the presence of interleukin-4, prolonged culture was possible. Karyotypic analysis of cultured lymphoma cells showed the t(14;18) translocation, with clonal identity confirmed by polymerase chain reaction amplification of the breakpoints and direct sequence analysis. These findings support the hypothesis that resistance to apoptosis is an influence on the initiation of follicular lymphoma, and provide a novel means of studying in vitro the intercellular reactions that may be important in progression of the disease.
Electrical resistivity and<sup>7</sup>Li Knight shift of liquid Li-Si alloys (1989)

The electrical resistivity rho and the 7Li Knight shift K of liquid Li-Si alloys have been measured for Li concentrations between 0 and 50 at.% Si. From 0 to 20 at.% Si both the electrical conductivity and the Knight shift decrease strongly. Above 20 at.% Si, rho levels off at approximately 650 mu Omega cm and also K remains nearly constant at approximately 25% of the pure-Li Knight shift. When the results are combined with available T1 data, the Korringa enhancement eta is calculated. The approximate relation between rho and eta proposed by Warren (1971) for the diffusive motion regime holds very well. An interpretation on the atomic level is proposed by assuming that in the alloys with more than 20 at.% Si the Si atoms form just the number of covalent bonds necessary to keep EF at a minimum in the density of states
Receptor for advanced glycation end‐products is a marker of type I lung alveolar cells (2004)

Lung alveolar epithelial cells are comprised of type I (ATI) and type II (ATII) cells. ATI cells are polarized, although they have very flat morphology. The identification of marker proteins for apical and basolateral membranes of ATI cells is important to investigate into the differentiation of ATI cells. In this paper, we characterized receptor for advanced glycation end-products (RAGE) as a marker for ATI cells. RAGE was localized on basolateral membranes of ATI cells in the immunoelectron microscopy and its expression was enhanced in a parallel manner to the differentiation of ATI cells in vivo and in primary cultures of ATII cells. RAGE and T1 alpha, a well-known ATI marker protein, were targeted to basolateral and apical membranes, respectively, when expressed in polarized Madine Darby canine kidney cells. Moreover, RAGE was expressed in ATI cells after T1 alpha in vivo and in ex in vivo organ cultures. In conclusion, RAGE is a marker for basolateral membranes of well-differentiated ATI cells. ATI cells require some signal provided by the in vivo environment to express RAGE.
Transient Characteristics of Split Air-Conditioning Systems Using R-22 and R-410A as Refrigerants (2009)

All air-conditioning systems experience transient processes during start-up and shutdown and varying boundary conditions during operation due to changes in space loads and outdoor air loads, control loop operation, etc. Transient characteristics of split air conditioners that use R-22 and R-410A as refrigerants are presented in this paper. The model used for the overall system simulation comprises compressor, capillary, condenser, and evaporator submodels. The condenser and evaporator are modelled using continuity, momentum, and energy equations over the space and time span, using the implicit finite difference approach. Both of the heat exchangers are assumed to be made up of microfin tubes, although a comparison of transient pressure response with smooth tubes is presented in the paper. Appropriate correlations are used for calculating the two-phase heat transfer coefficients, the liquid vapor slip, and the friction factors. A simulation program is developed in the MATLAB (Mathworks 2004) environment linked with REFPROP for refrigerant properties. The program is validated with measured and published experimental data. The transient simulation results including the pressure, the temperature, and the mass flow rate response for a start-up transient are compared for R-22 and its alternative R-410A. The transient loss during start-up due to the reconditioning of thermal mass of the system and redistribution of the refrigerant among the system components is also compared for the two refrigerants.
Rhenium 188–labeled anti-CD66 (a, b, c, e) monoclonal antibody to intensify the conditioning regimen prior to stem cell transplantation for patients with high-risk acute myeloid leukemia or myelodysplastic syndrome: results of a phase I-II study (2001)

The conditioning regimen prior to stem cell transplantation in 36 patients with high-risk acute myeloid leukemia (AML) and myelodysplastic syndrome (MDS) was intensified by treating patients with a rhenium 188-labeled anti-CD66 monoclonal antibody. Dosimetry was performed prior to therapy, and a favorable dosimetry was observed in all cases. Radioimmunotherapy with the labeled antibody provided a mean of 15.3 Gy of additional radiation to the marrow; the kidney was the normal organ receiving the highest dose of supplemental radiation (mean 7.4 Gy). Radioimmunotherapy was followed by standard full-dose conditioning with total body irradiation (12 Gy) or busulfan and high-dose cyclophosphamide with or without thiotepa. Patients subsequently received a T-cell-depleted allogeneic graft from a HLA-identical family donor (n = 15) or an alternative donor (n = 17). In 4 patients without an allogeneic donor, an unmanipulated autologous graft was used. Infusion-related toxicity due to the labeled antibody was minimal, and no increase in treatment-related mortality due to the radioimmunoconjugate was observed. Day +30 and day +100 mortalities were 3% and 6%, respectively, and after a median follow-up of 18 months treatment-related mortality was 22%. Late renal toxicity was observed in 17% of patients. The relapse rate of 15 patients undergoing transplantation in first CR (complete remission) or second CR was 20%; 21 patients not in remission at the time of transplantation had a 30% relapse rate. (Blood. 2001;98:565-572)
HPLC Separation of Taxol and Cephalomannine (1991)

Abstract Taxol [1], a highly functionalized antimitotic diterpene which occurs as a minor component of extracts of the bark from trees of the genus Taxus, is required in increasingly larger quantities for clinical trials. Final purification of taxol requires separation from cephalomannine [2]. an efficient separation of those closely related analogs has been achieved by normal phase HPLC on a cyanopropyl column.
Immediately detachable coil for aneurysm treatment. (1995)

We developed an endovascular coil that is instantly detached by high-frequency electrical current. By applying the electrical current, a polyvinyl alcohol junction between the coil and the delivery wire is disrupted by heat within a second. This detachment system was shown to be reliable in the treatment of experimental aneurysms.
Characterization of a novel pyruvylated carbohydrate unit implicated in the cell aggregation of the marine sponge Microciona prolifera (1993)

The species-specific Ca(2+)-dependent reaggregation of dissociated cells of the marine sponge Microciona prolifera is mediated by a large extracellular adhesion proteoglycan. The glycans of this molecule are involved in the interactions of the proteoglycan with itself and with the sponge cells. Monoclonal antibodies against the glycans block the aggregation of sponge cells (Misevic, G. N., Finne, J., and Burger, M. M. (1987) J. Biol. Chem. 262, 5870-5877). Proteoglycan oligosaccharides were prepared by partial acid hydrolysis of the isolated glycans, and their reactivity with the monoclonal antibodies was monitored after linkage to phospholipid and immunostaining of thin layer chromatograms. One major antibody-reactive oligosaccharide was detected and purified by ion-exchange chromatography and high performance liquid chromatography. 1H NMR spectroscopy, fast atom bombardment-mass spectrometry, methylation analysis, and sequential chemical and enzymatic degradation studies indicated the structure [formula: see text] for the oligosaccharide. The depyruvylated derivative of the oligosaccharide did not react with the aggregation-blocking antibody, which indicates that the pyruvate acetal is an essential part of the epitope.
Different effects of cyclic AMP and butyrate on eosinophilic differentiation, apoptosis and bcl-2 expression of a human eosinophilic leukemia cell line, EoL-1 (1996)

A human eosinophilic leukemia cell line, EoL-1, stopped proliferating at the G1 phase, differentiated into eosinophilic granule-containing cells, and died by apoptosis when stimulated with dibutyryl cyclic AMP (dbcAMP). To clarify the effects of dbcAMP, the effects of butyrate and cAMP-increasing reagents, prostaglandin E2 (PGE2) and forskolin, on EoL-1 cellular differentiation and apoptosis were examined and compared. PGE2 and forskolin but not butyrate induced differentiation to eosinophilic granule-containing cells, suggesting that cAMP played a primary role in eosinophilic differentiation of EoL-1 cells. PGE2, forskolin and butyrate, when used alone, did not induce apoptosis of EoL-1 cells significantly at the concentrations used, but sequential stimulation of EoL-1 cells with the cAMP-increasing reagents and butyrate showed that butyrate induced further maturation and apoptosis of cAMP-induced eosinophilic granule-containing cells. These results showed that cAMP and butyrate have different effects on eosinophilic differentiation and apoptosis of EoL-1 cells. The cAMP-increasing reagents and butyrate also showed different effects on expression of members of the bcl-2 family; PGE2 decreased bcl-2 and bax levels, whereas butyrate increased the bcl-2 level. PGE2 or PGE2+butyrate, but not butyrate alone, induced bcl-XS expression. EoL-1 cells constitutively expressed Fas and anti-Fas antibody induced EoL-1 cell death, but the Fas/Fas ligand system was not involved in dbcAMP-induced EoL-1 cell apoptosis. The EoL-1 cell line is thus a useful model in which to examine differentiation and apoptosis of eosinophilic leukemia cells.