gebhart/patrepeval huggingface dataset:
Human Dendritic Cells Activated by TSLP and CD40L Induce Proallergic Cytotoxic T Cells (2003)

Human thymic stromal lymphopoietin (TSLP) is a novel epithelial cell-derived cytokine, which induces dendritic cell (DC)-mediated CD4+ T cell responses with a proallergic phenotype. Although the participation of CD8+ T cells in allergic inflammation is well documented, their functional properties as well as the pathways leading to their generation remain poorly understood. Here, we show that TSLP-activated CD11c+ DCs potently activate and expand naive CD8+ T cells, and induce their differentiation into interleukin (IL)-5 and IL-13-producing effectors exhibiting poor cytolytic activity. Additional CD40L triggering of TSLP-activated DCs induced CD8+ T cells with potent cytolytic activity, producing large amounts of interferon (IFN)-gamma, while retaining their capacity to produce IL-5 and IL-13. These data further support the role of TSLP as initial trigger of allergic T cell responses and suggest that CD40L-expressing cells may act in combination with TSLP to amplify and sustain pro-allergic responses and cause tissue damage by promoting the generation of IFN-gamma-producing cytotoxic effectors.
MMDetection: Open MMLab Detection Toolbox and Benchmark (2019)

We present MMDetection, an object detection toolbox that contains a rich set of object detection and instance segmentation methods as well as related components and modules. The toolbox started from a codebase of MMDet team who won the detection track of COCO Challenge 2018. It gradually evolves into a unified platform that covers many popular detection methods and contemporary modules. It not only includes training and inference codes, but also provides weights for more than 200 network models. We believe this toolbox is by far the most complete detection toolbox. In this paper, we introduce the various features of this toolbox. In addition, we also conduct a benchmarking study on different methods, components, and their hyper-parameters. We wish that the toolbox and benchmark could serve the growing research community by providing a flexible toolkit to reimplement existing methods and develop their own new detectors. Code and models are available at https://github.com/open-mmlab/mmdetection. The project is under active development and we will keep this document updated.
Expression of the M-CSF (CSF-1) gene by human monocytes (1987)

Monocyte colony-stimulating factor (M-CSF, CSF-1) is a macrophage lineage-specific growth factor. Northern blot analysis using a human M-CSF cDNA probe and a specific bioassay for human M-CSF were used to investigate the cellular sources of M-CSF. Expression of the M-CSF gene was induced in blood mononuclear cells stimulated by phorbol myristate acetate (PMA) or gamma-interferon. When mononuclear cells were fractionated into highly purified populations of T cells and monocytes, M-CSF transcripts were detected predominantly in monocytes. Further, monocytes stimulated with PMA released an M-CSF-like activity. These results demonstrate that M-CSF can be produced by activated cells of the macrophage lineage.
The promoter for the procyclic acidic repetitive protein (PARP) genes of Trypanosoma brucei shares features with RNA polymerase I promoters. (1992)

All eukaryotic protein-coding genes are believed to be transcribed by RNA polymerase (Pol) II. An exception may exist in the protozoan parasite Trypanosoma brucei, in which the genes encoding the variant surface glycoprotein (VSG) and procyclic acidic repetitive protein (PARP) are transcribed by an RNA polymerase that is resistant to the Pol II inhibitor alpha-amanitin. The PARP and VSG genes were proposed to be transcribed by Pol I (C. Shea, M. G.-S. Lee, and L. H. T. Van der Ploeg, Cell 50:603-612, 1987; G. Rudenko, M. G.-S. Lee, and L. H. T. Van der Ploeg, Nucleic Acids Res. 20:303-306, 1992), a suggestion that has been substantiated by the finding that trypanosomes can transcribe protein-coding genes by Pol I (G. Rudenko, H.-M. Chung, V. P. Pham, and L. H. T. Van der Ploeg, EMBO J. 10:3387-3397, 1991). We analyzed the sequence elements of the PARP promoter by linker scanning mutagenesis and compared the PARP promoter with Pol I, Pol II, and Pol III promoters. The PARP promoter appeared to be of limited complexity and contained at least two critical regions. The first was located adjacent to the transcription initiation site (nucleotides [nt] -69 to +12) and contained three discrete domains in which linker scanning mutants affected the transcriptional efficiency: at nt -69 to -56, -37 to -11, and -11 to +12. The second region was located between nt -140 and -131, and a third region may be located between nt -228 and -205. The nucleotide sequences of these elements, and their relative positioning with respect to the transcription initiation site did not resemble those of either Pol II or Pol III promoter elements, but rather reflected the organization of Pol I promoters in (i) similarity in the positioning of essential domains in the PARP promoter and Pol I promoter, (ii) strong sequence homology between the PARP core promoter element (nt -37 to -11) and identically positioned nucleotide sequences in the trypanosome rRNA and VSG gene promoters, and (iii) moderate effects on promoter activity of mutations around the transcription initiation site.
Liposomal transfection efficiency and toxicity on glioma cell lines (1998)

To evaluate the influence of cell type and cationic liposomal formulation on gene transfection efficiency three liposomes (lipofectin, lipofectamine and DOTAP) were used to transfect the human (A172 and MOG-G-CCM) and rodent (C6 and A15A5) glioma cell lines with the Lac Z gene. Parallel studies evaluated in vitro cytotoxicity and the neuropathological changes following intracerebral injection. The transfection efficiency and cytotoxicity of the liposomes varied both quantitatively and qualitatively between the cell lines. There were no behavioural disturbances following intrastriatal or hippocampal injection and the neuropathological changes at the injection sites were focal and similar for all liposomes. The influence of glial cell lineage on both liposomal transfection facility and cytotoxicity may have important implications for in vivo gene transfection in the central nervous system.
OCT4 and lung cancer (2011)

OCT4,a totipotent or pluripotent stem cell marker,is an essential transcription factor to maintain the pluripotency and self-renewal of embryonic stem cells.Recent studies found that the abnormal expression of OCT4 is closely related with the progression,metastasis and prognosis of lung cancer.

Key words: 
OCT4 ;  Lung cancer ; Cancer stem cells;  Stem cells
Cranio-Caudal Movements of the Liver, Pancreas and Kidneys in Respiration (1984)

The range of movement of the liver, pancreas and kidneys in maximum and normal respiration, and the ability to suspend respiration repeatedly leaving the organs in exactly the same position with the aid of given instructions or a combination of instructions and a simple tool were investigated. The range of movement of the most mobile organ (liver) was 5.5 cm during maximum, 2.5 cm during normal, 0.9 cm during suspended respiration, and 0.2 cm during suspended respiration with a bar placed above the abdomen.
Genetic Dissection of Memory Formation in Drosophila melanogaster (1990)

Over a decade ago, the last mutagenesis to generate mutations affecting associative learning in Drosophila ended. In all, about 3500 strains, mutagenized with ethylmethane sulfonate (EMS), were screened first in S. Benzer's laboratory at CalTech and then in W.G. Quinn's laboratory at Princeton (for review, see Aceves-Pina et al. 1983). Associative learning was assayed with an olfactory shock-avoidance conditioning procedure specifically designed to produce an average learning index for a population of flies, which were trained and tested en masse (Quinn et al. 1974). The conditioning procedure employed two conditioned stimuli (CSs): Flies received electric shock (US) if they approached one odor (CS+), but not if they approached a second odor (CS−). In a subsequent test trial, one could conclude that associative learning occurred only if more flies avoided the CS+ than the CS−, and only in this case would the learning index be greater than zero (for more details,...
Secondary structure in the target as a confounding factor in synthetic oligomer microarray design (2005)

Secondary structure in the target is pervasive, and a significant fraction of the target is found in double stranded conformations even at high temperature. Stable structure in the target has the potential to interfere with hybridization and should be a factor in interpretation of microarray results, as well as an explicit criterion in array design. Inclusion of this property in an oligonucleotide design procedure would change the definition of an optimal oligonucleotide significantly.
Expression profiling of human idiopathic dilated cardiomyopathy (2003)

Objective: To investigate the global changes accompanying human dilated cardiomyopathy (DCM) we performed a large-scale expression screen using myocardial biopsies from a group of DCM patients with moderate heart failure. By hierarchical clustering and functional annotation of the deregulated genes we examined extensive changes in the cellular and molecular processes associated to DCM. Methods: The expression profiles were obtained using a whole genome covering library (UniGene RZPD1) comprising 30 336 cDNA clones and amplified RNA from myocardiac biopsies from 10 DCM patients in comparison to tissue samples from four non-failing, healthy donors. Results: By setting stringent selection criteria 364 differentially expressed, sequence-verified non-redundant transcripts were identified with a false discovery rate of <0.001. Numerous genes and ESTs were identified representing previously recognised, as well as novel DCM-associated transcripts. Many of them were found to be upregulated and involved in cardiomyocyte energetics, muscle contraction or signalling. Two hundred and twenty-two deregulated transcripts were functionally annotated and hierarchically clustered providing an insight into the pathophysiology of DCM. Data was validated using the MLP-deficient mouse, in which several differentially expressed transcripts identified in the human DCM biopsies could be confirmed. Conclusions: We report the first genome-wide expression profile analysis using cardiac biopsies from DCM patients at various stages of the disease. Although there is a diversity of links between the cytoskeleton and the initiation of DCM, we speculate that genes implicated in intracellular signalling and in muscle contraction are associated with early stages of the disease. Altogether this study represents the most comprehensive and inclusive molecular portrait of human cardiomyopathy to date.
Obstructive Sleep Apnea in a Clinical Series of Adult Epilepsy Patients: Frequency and Features of the Comorbidity (2003)

Systematic investigation reveals that OSA is frequent in epilepsy patients. The major risk factors for OSA in our epilepsy patients were the same as those typically found in the general population. Of the epilepsy-related factors, older age at onset of seizures appears to be significantly related to comorbidity with OSA (p < 0.05). The presence in epilepsy patients of these features should alert the clinician to the possibility of an underlying OSA.
Catalyst-free stereoselective cyclopropanation of electron deficient alkenes with ethyl diazoacetate (2013)

Doubly activated electron deficient alkenes react with ethyl diazoacetate in a Michael Initiated Ring Closure (MIRC) fashion to yield highly diastereoselective cyclopropanes even without any added base or metal catalyst. Following the strategy, a one-pot, two-step, three-component reaction of aldehydes, malononitrile/ethyl cyanoacetate, and ethyl diazoacetate was successfully developed.
Major Simplifications in Oligosaccharide Syntheses Arising from a Solid-Phase Based Method: An Application to the Synthesis of the Lewis b Antigen (1995)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTMajor Simplifications in Oligosaccharide Syntheses Arising from a Solid-Phase Based Method: An Application to the Synthesis of the Lewis b AntigenJohn T. Randolph, Kim F. McClure, and Samuel J. DanishefskyCite this: J. Am. Chem. Soc. 1995, 117, 21, 5712–5719Publication Date (Print):May 1, 1995Publication History Published online1 May 2002Published inissue 1 May 1995https://pubs.acs.org/doi/10.1021/ja00126a012https://doi.org/10.1021/ja00126a012research-articleACS PublicationsRequest reuse permissionsArticle Views598Altmetric-Citations125LEARN 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-AlertscloseSupporting Info (2)»Supporting Information Supporting Information Get e-Alerts
Cryptic Peptides of the Kringle Domains Preferentially Bind to Disease-Associated Prion Protein (2009)

Prion diseases are a group of fatal neurodegenerative disorders characterized by the accumulation of a misfolded form (PrP(Sc)) of the cellular prion protein (PrP(C)) in the brains of affected individuals. The conversion of PrP(C) to PrP(Sc) is thought to involve a change in protein conformation from a normal, primarily alpha-helical structure into a beta-sheet conformer. Few proteins have been identified that differentially interact with the two forms of PrP. It has been reported that plasminogen binds to PrP(Sc) from a variety of prion phenotypes. We have examined potential motifs within the kringle region that may be responsible for binding to PrP. We synthesized 12-15-mer peptides that contain small, repetitive stretches of amino acid residues found within the kringle domains of plasminogen. These synthetic peptides were found to capture PrP(Sc) from the brain homogenates of bovine spongiform encephalopathy affected cattle, chronic wasting disease affected elk, experimental scrapie of hamsters and that of subjects affected by Creutzfeldt-Jakob disease, without binding to PrP(C) in unaffected controls. Therefore, we have identified critical peptide motifs that may be important for protein-protein interactions in prion disease pathogenesis. The ability of these synthetic peptides to bind preferentially to PrP(Sc) suggests a potential application in the diagnosis of prion diseases.
Metabolic regulation of Escherichia coli and its gdhA, glnL, gltB, D mutants under different carbon and nitrogen limitations in the continuous culture (2010)

The metabolic regulation of E.coli was clarified under both carbon (C)- limitation and nitrogen (N)- limitation based on fermentation, transcriptional mRNA level and enzyme activities. The overall regulation mechanism was proposed. The effects of knocking out N- assimilation pathway genes were also clarified.
Glia-dependent TGF-β signaling, acting independently of the TH17 pathway, is critical for initiation of murine autoimmune encephalomyelitis (2007)

Autoimmune encephalomyelitis, a mouse model for multiple sclerosis, is characterized by the activation of immune cells, demyelination of axons in the CNS, and paralysis. We found that TGF-beta1 synthesis in glial cells and TGF-beta-induced signaling in the CNS were activated several days before the onset of paralysis in mice with autoimmune encephalomyelitis. While early production of TGF-beta1 was observed in glial cells TGF-beta signaling was activated in neurons and later in infiltrating T cells in inflammatory lesions. Systemic treatment with a pharmacological inhibitor of TGF-beta signaling ameliorated the paralytic disease and reduced the accumulation of pathogenic T cells and expression of IL-6 in the CNS. Priming of peripheral T cells was not altered, nor was the generation of TH17 cells, indicating that this effect was directed within the brain, yet affected the immune system. These results suggest that early production of TGF-beta1 in the CNS creates a permissive and dangerous environment for the initiation of autoimmune inflammation, providing a rare example of the brain modulating the immune system. Importantly, inhibition of TGF-beta signaling may have benefits in the treatment of the acute phase of autoimmune CNS inflammation.
IL-4 and IL-13 induce Lsk, a Csk-like tyrosine kinase, in human monocytes. (1994)

Lsk is a protein tyrosine kinase with homology to the COOH-terminal Src kinase (Csk). Unlike Csk that is ubiquitously expressed, Lsk has limited tissue distribution. Here we have examined the expression and regulation of Lsk and Csk in peripheral human monocytes. We have found that Lsk mRNA and protein were not expressed in resting monocytes but were induced by treatment with interleukin 4 (IL-4) or IL-13 but not by interferon gamma (IFN-gamma) or IL-2. In fact, IFN-gamma, but not IL-2, efficiently blocked Lsk induction by IL-4 or IL-13. In contrast, Csk was constitutively present in human monocytes and was upregulated by IFN-gamma but not by IL-4 or IL-13. These results suggest that despite their structural similarities, Lsk and Csk may play distinct regulatory roles in monocyte functions elicited by cytokines, with Lsk functioning specifically within the context of a Th2-type immune response.
Miniature Organic Transistors with Carbon Nanotubes as Quasi-One-Dimensional Electrodes (2004)

As the dimensions of electronic devices approach those of molecules, the size, geometry, and chemical composition of the contact electrodes play increasingly dominant roles in device functions. It is shown here that single-walled carbon nanotubes (SWNT) can be used as quasi-one-dimensional (1D) electrodes to construct organic field effect transistors (FET) with molecular scale width ( approximately 2 nm) and channel length (1-3 nm). An important feature owing to the quasi-1D electrode geometry is the favorable gate electrostatics that allows for efficient switching of ultra-short organic channels. This affords room temperature conductance modulation by orders of magnitude for organic transistors that are only several molecules in length, with switching characteristics superior to similar devices with lithographically patterned metal electrodes. With nanotubes, covalent carbon-carbon bonds could be utilized to form contacts to molecular materials. The unique geometrical, physical, and chemical properties of carbon nanotube electrodes may lead to various interesting molecular devices.
Optical coherence tomography imaging of severe commotio retinae and associated macular hole (2002)

Commotio retinae results in retinal opacification following blunt trauma. Mild commotio retinae usually settles spontaneously with minimal sequelae but more severe cases are associated with visual loss. We are not aware of any previous reports describing optical coherence tomography (OCT) imaging of severe commotio retinae with an associated full thickness macular hole (FTMH).

A 15 year old boy presented 24 hours after blunt trauma from a football striking his right eye. On examination his best corrected visual acuity was counting fingers right eye and 6/6 left. Biomicroscopic examination revealed extensive commotio retinae over the posterior pole, no posterior vitreous detachment (PVD), and a FTMH. Colour photography and OCT imaging (OCT 2000 scanner, Zeiss-Humphrey) were performed (Fig 1). OCT confirms a FTMH and demonstrates extensive disruption of photoreceptor outer segments …
Emigrated Neutrophils Regulate Ventricular Contractility via α4Integrin (1999)

We have previously shown that CD18 and alpha4 integrin were important in the adherence of emigrated neutrophils to cardiac myocytes. Whether either of these molecules is important in myocyte dysfunction is unclear. In this study, we measured contractility as an index of myocyte function. Control contractility was compared with shortening response in myocytes exposed to neutrophils in the presence and absence of anti-CD18 or anti-alpha4 antibodies. Control unloaded cell shortening, expressed as a percentage of resting cell length, measured 10.06+/-1.16% (n=10) at 5 minutes. Circulating neutrophils caused a 35% reduction in cell shortening, an event prevented by anti-CD18, but not by anti-alpha4 antibody. When emigrated neutrophils were added to the myocytes, a profound reduction (50%) in unloaded cell shortening was noted. A significant increase in CD18 and alpha4 integrin was found on emigrated neutrophils. Addition of anti-CD18 antibody did not protect the myocyte from the emigrated neutrophils, whereas the addition of an anti-alpha4 antibody significantly reduced neutrophil-induced cell shortening, despite some neutrophils still adhering to the myocytes. Furthermore, emigrated neutrophils were able to cause myocytes to go into contracture within 5 minutes in the presence of neutrophils with or without anti-CD18 antibody. In addition to the impairment in unloaded cell shortening, at later times (10 minutes), neutrophils also caused a 40% reduction in the rate of contraction and relaxation. The addition of either anti-CD18 or anti-alpha4 antibody protected the myocytes from these changes. The data suggest that immunosuppression of CD18 on emigrated neutrophils was only partially effective in reducing myocyte dysfunction. In contrast, immunosuppression of the alpha4 integrin alone was sufficient to dramatically reduce all parameters of cell dysfunction measured in this study.
Introduction to Neural Stem Cells (2007)

Neural stem cells self-renew and give rise to neurons, astrocytes and oligodendrocytes. These cells hold great promise for neural repair after injury or disease. However, a great deal of information needs to be gathered before optimally using neural stem cells for neural repair. This brief review provides an introduction to neural stem cells and briefly describes some advances in neural stem-cell biology and biotechnology.
Potassium Chloride Pulse Enhances Mitogen‐Activated Protein Kinase Activity in Rat Hippocampal Slices (1996)

Mitogen-activated protein (MAP) kinases have been implicated in multiple responses to extracellular stimuli. In this study we show that MAP kinase activity is enhanced after a KCl pulse. This activation correlates with an increased tyrosine phosphorylation of a 42-kDa protein as determined by antiphosphotyrosine immunoblot. The same band is found in an anti-MAP kinase immunoblot. Activity is enhanced within 1 min, reaches a maximum at 2 min, and returns to basal level after 10 min. A second peak of activity is observed between 12 and 30 min. The activation is completely blocked by 6-cyano-7-nitroquinoxaline-2,3-dione (CNQX), showing the involvement of the AMPA type of glutamate receptor. Partial inhibition of MAP kinase activation by 2-amino-5-phosphonovalerate (APV) also shows the involvement of the NMDA receptor. Because the KCl pulse used induces long-term potentiation (LTP) in rat hippocampal slice, we conclude that MAP kinase may be involved in neuronal transduction events leading to LTP.