gebhart/patrepeval huggingface dataset:
High-throughput single-cell DNA sequencing of acute myeloid leukemia tumors with droplet microfluidics (2018)

To enable the characterization of genetic heterogeneity in tumor cell populations, we developed a novel microfluidic approach that barcodes amplified genomic DNA from thousands of individual cancer cells confined to droplets. The barcodes are then used to reassemble the genetic profiles of cells from next-generation sequencing data. By using this approach, we sequenced longitudinally collected acute myeloid leukemia (AML) tumor populations from two patients and genotyped up to 62 disease relevant loci across more than 16,000 individual cells. Targeted single-cell sequencing was able to sensitively identify cells harboring pathogenic mutations during complete remission and uncovered complex clonal evolution within AML tumors that was not observable with bulk sequencing. We anticipate that this approach will make feasible the routine analysis of AML heterogeneity, leading to improved stratification and therapy selection for the disease.
A Potential Alternative for Precious Metal Recovery from E-waste: Iodine Leaching (2015)

Printed circuit board (PCB) is the essential part of electronic devices and has an important source of base and precious metals with high economic potential. In this study, selective leaching of gold from PCB was performed in an iodine-hydrogen peroxide (I2-H2O2) solution system. The effects of different parameters such as iodine concentrations, H2O2 concentrations and solids-% on the gold leaching dynamics were investigated. The results show that increasing solids-% has a negative influence on the gold leaching. However, gold recovery from the e-wastes in a solution containing 3% iodine, 1% H2O2 with solids-% of 15% resulted with 100% recovery among all leaching tests.
Interpretation and Enforcement of Patent Claims (1987)

Throughout the world, problems of claim scope determination arise in patent cases involving even the simplest and most mature technologies. How much more likely must it be that such problems lurk beneath the essentially untested waters of claim interpretation involving biotechnological inventions.KeywordsIntellectual PropertySupra NoteAcquire Immune Deficiency SyndromePatent ProtectionPatented InventionThese keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.
Feasibility Study of an Intensity-Modulated Radiation Model for the Study of Erectile Dysfunction (2010)

Tightly conformal dynamic arc prostate irradiation is feasible and results in minimal toxicity and measurable changes in erectile function.
SARS-CoV-2 SPIKE PROTEIN: an optimal immunological target for vaccines (2020)

COVID-19 has rapidly spread all over the world, progressing into a pandemic. This situation has urgently impelled many companies and public research institutes to concentrate their efforts on research for effective therapeutics. Here, we outline the strategies and targets currently adopted in developing a vaccine against SARS-CoV-2. Based on previous evidence and experience with SARS and MERS, the primary focus has been the Spike protein, considered as the ideal target for COVID-19 immunotherapies.
Method of obtaining optical sectioning by using structured light in a conventional microscope (1997)

We describe a simple method of obtaining optical sectioning in a conventional wide-field microscope by projecting a single-spatial-frequency grid pattern onto the object. Images taken at three spatial positions of the grid are processed in real time to produce optically sectioned images that are substantially similar to those obtained with confocal microscopes.
<title>EUV engineering test stand</title> (2000)

The Engineering Test Stand (ETS) is an EUV laboratory lithography tool. The purpose of the ETS is to demonstrate EUV full-field imaging and provide data required to support production-tool development. The ETS is configured to separate the imaging system and stages from the illumination system. Environmental conditions can be controlled independently in the two modules to maximize EUV throughput and environmental control. A source of 13.4 nm radiation is provided by a laser plasma source in which a YAG laser beam is focused onto a xenon-cluster target. A condenser system, comprised of multilayer-coated mirrors and grazing-incidence mirrors, collects the EUV radiation and directs it onto a reflecting reticle. A four-mirror, ring-field optical system, having a numerical aperture of 0.1, projects a 4x-reduction image onto the wafer plane. This design corresponds to a resolution of 70 nm at a k<SUB>1</SUB> of 0.52. The ETS is designed to produce full- field images in step-and-scan mode using vacuum-compatible, one-dimension-long-travel magnetically levitated stages for both reticle and wafer. Reticle protection is incorporated into the ETS design. This paper provides a system overview of the ETS design and specifications.
Hepatitis B virus molecular biology and pathogenesis (2016)

As obligate intracellular parasites, viruses need a host cell to provide a milieu favorable to viral replication. Consequently, viruses often adopt mechanisms to subvert host cellular signaling processes. While beneficial for the viral replication cycle, virus-induced deregulation of host cellular signaling processes can be detrimental to host cell physiology and can lead to virus-associated pathogenesis, including, for oncogenic viruses, cell transformation and cancer progression. Included among these oncogenic viruses is the hepatitis B virus (HBV). Despite the availability of an HBV vaccine, 350-500 million people worldwide are chronically infected with HBV, and a significant number of these chronically infected individuals will develop hepatocellular carcinoma (HCC). Epidemiological studies indicate that chronic infection with HBV is the leading risk factor for the development of HCC. Globally, HCC is the second highest cause of cancer-associated deaths, underscoring the need for understanding mechanisms that regulate HBV replication and the development of HBV-associated HCC. HBV is the prototype member of the <i>Hepadnaviridae</i> family; members of this family of viruses have a narrow host range and predominately infect hepatocytes in their respective hosts. The extremely small and compact hepadnaviral genome, the unique arrangement of open reading frames, and a replication strategy utilizing reverse transcription of an RNA intermediate to generate the DNA genome are distinguishing features of the <i>Hepadnaviridae</i>. In this review, we provide a comprehensive description of HBV biology, summarize the model systems used for studying HBV infections, and highlight potential mechanisms that link a chronic HBV-infection to the development of HCC. For example, the HBV X protein (HBx), a key regulatory HBV protein that is important for HBV replication, is thought to play a cofactor role in the development of HBV-induced HCC, and we highlight the functions of HBx that may contribute to the development of HBV-associated HCC.
Age regression from faces using random forests (2009)

Predicting the age of a person through face image analysis holds the potential to drive an extensive array of real world applications from human computer interaction and security to advertising and multimedia. In this paper the first application of the random forest for age regression is proposed. This method offers the advantage of few parameters that are relatively easy to initialize. Our method learns salient anthropometric quantities without a prior model. Significant implications include a dramatic reduction in training time while maintaining high regression accuracy throughout human development.
Cost of adult chronic rhinosinusitis: A systematic review (2015)

The results of this systematic review have demonstrated substantial direct and indirect costs associated with the management of adult CRS. Future research should continue to improve the costing data, which can be used to improve the value of care provided for this chronic inflammatory disease.
Prognostic factors and scoring systems in chronic myelomonocytic leukemia: a retrospective analysis of 213 patients (2002)

Chronic myelomonocytic leukemia (CMML) is a hematologic malignancy characterized by wide heterogeneity of clinical presentation and course. CMML shares myelodysplastic characteristics with features of myeloproliferative disorders. No treatment has proven effective in modifying the natural course of the disease. To improve the prognostic assessment of clinical outcome, the associations of patient and disease characteristics with survival times of 213 patients with CMML was investigated retrospectively. Median survival was 12 months. Univariate analysis identified low hemoglobin level; low platelet count; high white blood cell, monocyte, and lymphocyte counts; presence of circulating immature myeloid cells, high percentage of marrow blasts, low percentage of marrow erythroid cells, abnormal cytogenetics, and high levels of serum lactate dehydrogenase and beta(2)-microglobulin as characteristics associated with shorter survival. Hemoglobin level below 120 g/L (12 g/dL), presence of circulating immature myeloid cells, absolute lymphocyte count above 2.5 x 10(9)/L, and marrow blasts 10% or more were independently associated with shorter survival by multivariate analysis and were used to generate a prognostic score. The model identified 4 subgroups of patients with median survival of 24, 15, 8, and 5 months for low, intermediate-1, intermediate-2, and high risk, respectively. Researchers could not confer objective evidence suggesting that arbitrary divisions of CMML by white blood cell counts into "dysplastic" and "proliferative" categories reflect clinical entities differing in the risk of acute leukemia development, although a trend of shorter survival in patients with leukocytosis was observed. The prognostic model was compared with 6 previously published scoring systems for myelodysplastic syndrome/CMML. The reported results should provide an improved assessment of prognosis in CMML.
Laser Ablation and the Production of Polymer Films (1993)

The formation of high-quality thin films of polytetrafluoroethylene (PTFE) is important in many applications ranging from material reinforcement to molecular electronics. Laser ablation, a technique widely used to deposit a variety of inorganic materials, can also be used as a simple and highly versatile method for forming thin polymer films. The data presented show that PTFE films can be produced on various supports by the evaporation of a solid PTFE target with a pulsed ultraviolet laser. The composition of the ablation plume suggests that PTFE ablation and subsequent film formation occur by way of a laser-induced pyrolitic decomposition with subsequent repolymerization. The polymer films produced by this method are composed of amorphous and highly crystalline regions, the latter being predominantly in a chain-folded configuration with the molecular axis aligned parallel to the substrate surface.
You are where you tweet (2010)

We propose and evaluate a probabilistic framework for estimating a Twitter user's city-level location based purely on the content of the user's tweets, even in the absence of any other geospatial cues. By augmenting the massive human-powered sensing capabilities of Twitter and related microblogging services with content-derived location information, this framework can overcome the sparsity of geo-enabled features in these services and enable new location-based personalized information services, the targeting of regional advertisements, and so on. Three of the key features of the proposed approach are: (i) its reliance purely on tweet content, meaning no need for user IP information, private login information, or external knowledge bases; (ii) a classification component for automatically identifying words in tweets with a strong local geo-scope; and (iii) a lattice-based neighborhood smoothing model for refining a user's location estimate. The system estimates k possible locations for each user in descending order of confidence. On average we find that the location estimates converge quickly (needing just 100s of tweets), placing 51% of Twitter users within 100 miles of their actual location.
Radioligand Recognition of Insecticide Targets (2018)

Insecticide radioligands allow the direct recognition and analysis of the targets and mechanisms of toxic action critical to effective and safe pest control. These radioligands are either the insecticides themselves or analogs that bind at the same or coupled sites. Preferred radioligands and their targets, often in both insects and mammals, are trioxabicyclooctanes for the γ-aminobutyric acid (GABA) receptor, avermectin for the glutamate receptor, imidacloprid for the nicotinic receptor, ryanodine and chlorantraniliprole for the ryanodine receptor, and rotenone or pyridaben for NADH<sup>+</sup> ubiquinone oxidoreductase. Pyrethroids and other Na<sup>+</sup> channel modulator insecticides are generally poor radioligands due to lipophilicity and high nonspecific binding. For target site validation, the structure-activity relationships competing with the radioligand in the binding assays should be the same as that for insecticidal activity or toxicity except for rapidly detoxified or proinsecticide analogs. Once the radioligand assay is validated for relevance, it will often help define target site modifications on selection of resistant pest strains, selectivity between insects and mammals, and interaction with antidotes and other chemicals at modulator sites. Binding assays also serve for receptor isolation and photoaffinity labeling to characterize the interactions involved.
Large-Area Synthesis of High-Quality and Uniform Graphene Films on Copper Foils (2009)

Graphene has been attracting great interest because of its distinctive band structure and physical properties. Today, graphene is limited to small sizes because it is produced mostly by exfoliating graphite. We grew large-area graphene films of the order of centimeters on copper substrates by chemical vapor deposition using methane. The films are predominantly single-layer graphene, with a small percentage (less than 5%) of the area having few layers, and are continuous across copper surface steps and grain boundaries. The low solubility of carbon in copper appears to help make this growth process self-limiting. We also developed graphene film transfer processes to arbitrary substrates, and dual-gated field-effect transistors fabricated on silicon/silicon dioxide substrates showed electron mobilities as high as 4050 square centimeters per volt per second at room temperature.
A unique T cell subset, Th40, are pathogenic and diagnostic in mulitple sclerosis (101.30) (2011)

Abstract Auto-aggressive T cells have been implicated in the pathogenesis and maintenance of MS, including mouse models and human disease. We described a T cell subset, Th40 cells, which proved highly pathogenic and auto-aggressive in autoimmune diabetes. Using flow cytometry, we compared Th40 levels in 90 MS subjects of all subtypes, 238 T1DM and 208 control patients. A subset of MS patients were followed during and after pregnancy as well. RRMS subjects have significantly increased percentages of Th40 cells in PBL compared to non-autoimmune controls. MS subjects (75) had Th40 cell levels equal to or greater than autoimmune T1D (238) subjects. The majority of Th40 cells from MS subjects' are T helpers producing pro-inflammatory cytokines IFNg, TNFa and IL-17. Th40 cells produce high levels of IL-6, an acute phase response cytokine that shunts regulatory T cells into Th17 pathway. During RRMS Th40 cell expansions occur regardless of age or gender and are responsive to known MS associated self antigens including MOG, MBP and PLP. A clonal expansion of TRAV 8.1.3+ cells within the Th40 population was evident. During pregnancy Th40 cell levels dropped dramatically corresponding with remission returning to pathogenic levels postpartum. In the mouse EAE model of MS Th40 cells are highly expanded. Th40 cells could prove diagnostic in RRMS and prove diagnostic to predict relapse. Th40 cells are pathogenic in MS and identification of a clonal expansion in MS further suggests autoimmunity.
Cutting Edge: Protective Effects of Notch-1 on TCR-Induced Apoptosis (1999)

The Notch receptor protein was originally identified in Drosophila and is known to mediate cell to cell communication and influence cell fate decisions. Members of this family have been isolated from invertebrates as well as vertebrates. We isolated mouse Notch-1 in a yeast two-hybrid screen with Nur77, which is a protein that has been shown previously to be required for apoptosis in T cell lines. The data presented below indicate that Notch-1 expression provides significant protection to T cell lines from TCR-mediated apoptosis. These data demonstrate a new antiapoptotic role for Notch-1, providing evidence that, in addition to regulating cell fate decisions, Notch-1 can play a critical role in controlling levels of cell death in T cells.
Planar-Integrated Magnetics (PIM) Module in Hybrid Bidirectional DC–DC Converter for Fuel Cell Application (2011)

In most power electronics converters, the overall volume is mainly determined by the number of parts and the size of passive components. Integrated magnetics and planar magnetics techniques, therefore, have been an excellent option in order to reduce the counts and the size of magnetic components, hereby increasing the power density of converters. In this paper, a new planar-integrated magnetics (PIM) module for a phase-shift plus duty-cycle-controlled hybrid bidirectional dc-dc converter is proposed, which assembles one boost inductor and two transformers into an E-I-E core geometry, reducing the number of parts, the total volume of converter, as well as the total core loss of the magnetic components. AC losses in the windings and leakage inductance of the transformers are kept low by interleaving the primary and secondary turns of the transformers. To verify the validity of the design approach and theoretical analysis, a laboratory prototype employing the PIM module is implemented for a fuel cell application with 20-40-V input voltage and 400-V output voltage. Detailed results from the experimental comparisons demonstrate that the PIM module is fully functional and electromagnetically equivalent to the discrete magnetics and a significant reduction of size can be achieved by using the PIM module.
Soluble glucan and lymphokine-activated killer (LAK) cells in the therapy of experimental hepatic metastases. (1988)

Previous studies have indicated the efficacy of adoptive immunotherapy utilizing recombinant interleukin-2 (rIL-2) and lymphokine-activated killer (LAK) cells in the treatment of advanced neoplastic disease. However, this therapeutic approach is associated with considerable toxicity, primarily due to the systemic administration of rIL-2. The present study was undertaken to determine the efficacy of a newly developed water-soluble glucan, when administered in combination with LAK cells, in the therapy of experimental hepatic metastases. Mice were challenged subcutaneously (1 X 10(4) cells) with reticulum cell sarcoma M5076 on day 0. Therapy was initiated on day 15, when a palpable primary tumor mass and hepatic micrometastases were evident, and continued at 3-day intervals up to day 54. Sarcoma-bearing mice received glucan (250 mg/kg) intravenously, either alone or in combination with LAK cells (1 X 10(7)/mouse). Control mice received 5% (wt/vol) dextrose in water. Glucan-LAK cell therapy significantly suppressed primary tumor growth, inhibited the progression of hepatic metastases and prolonged survival in sarcoma-bearing mice. Splenocytes, incubated with rIL-2 for 72 h, exhibited significant natural killer (NK) cell activity and were cytotoxic to sarcoma cells in vitro. Glucan-LAK cell administration resulted in significant increases in splenic NK cell activity and Kupffer cell-mediated tumoricidal activity. In addition, bone marrow proliferation was enhanced following the co-administration of glucan and LAK cells. Due to its nontoxic nature and immunostimulating properties, soluble glucan may prove to be an attractive biological response modifying agent for utilization in adoptive immunotherapy of advanced neoplastic disease.
Evolution of T cell receptor (TCR) α β heterodimer assembly with the CD3 complex (2001)

T cell antigen receptors (TCR) are composed of an antigen-recognizing unit, the TCRalpha beta heterodimer, and a signal transduction ensemble, the CD3 complex. Whereas mammals possess three CD3 dimers (delta epsilon, gamma epsilon, and zeta2), birds and amphibians have only two (delta/gamma-epsilon and zeta2). To understand evolutionary changes in TCR/CD3 assembly,a phylogenetic approach was employed to dissect the interaction of TCRalpha beta heterodimers with the CD3 components. While sheep and mouse TCRalpha and TCRbeta chains could replace the corresponding human chains in mutant human T cells to restore surface TCR/CD3 expression and function, chicken TCRalpha, TCRbeta and CD3delta/gamma chains were unable to replace the corresponding human chains in forming a chimeric TCR/CD3 complex. The inability of chicken TCR/CD3 components to replace the human molecules in T cells was found to result from the lack of interaction between chicken TCRalpha beta heterodimers and the human CD3 complex. In contrast, if no CD3 molecules are present (non-T cells), TCRalpha -TCRbeta chain pairing can take place in an apparently non-controlled way. Thus, the TCR-CD3 interactions have changed with the evolutionary divergence of two mammalian CD3gamma and CD3delta genes from a single prototypic chicken delta/gamma gene. Our data suggest that the structures in mammalian TCR.C regions, which distinguish between CD3delta and CD3gamma chains, have evolved with the appearance of two separate CD3delta and CD3gamma functions.
Mite-related bacterial antigens stimulate inflammatory cells in rosacea (2007)

Antigenic proteins related to a bacterium (B. oleronius), isolated from a D. folliculorum mite, have the potential to stimulate an inflammatory response in patients with papulopustular rosacea.