gebhart/patrepeval huggingface dataset:
Immunogenicity and efficacy of a chimpanzee adenovirus-vectored Rift Valley Fever vaccine in mice (2013)

Together the results support further development of RVF vaccines based on replication-deficient adenovirus vectors, with ChAdOx1-GnGc being a potential candidate for use in future human clinical trials.
Novel Treatments for Chronic Lymphocytic Leukemia and Moving Forward (2014)

The last several years have seen an explosion of novel therapies for chronic lymphocytic leukemia (CLL). These include the antibody obintutuzumab (GA-101), as well as small-molecule inhibitors of key pathways involved in the pathogenesis of CLL, specifically the B-cell receptor (BCR) pathway (especially Bruton's tyrosine kinase [BTK] and P13K), and the antiapoptotic pathway (especially BCL-2). We will consider each in turn, focusing on the molecules most advanced in clinical development. There has also been extensive development in rewiring the patient's own immune system to treat CLL. This has been done through modifying autologous T cells to express a chimeric antigen receptor (CAR). Thus far all CAR-T preparations have targeted the CD19 antigen. This is a good rational for B-cell malignancies as CD19 expression is limited to B-cell malignancies and normal B cells. The in vivo amplification of the transduced T cells relies on signaling and co-signaling domains and provides significant killing of CLL cells. As exciting as these novel agents and approaches are, they obviously beg the question, will chemotherapy as a treatment for CLL soon be obsolete? Although chemotherapy is associated with known short-term toxicities, it has the advantage of being completed in a short period of time and being relatively inexpensive in comparison to novel therapies. In addition, long-term follow-up of results with chemoimmunotherapy have now identified a group of patients whose remissions are maintained for more than 10 years. An important question that will arise going forward is how to incorporate novel agents without eliminating the long term benefits possible with chemoimmunotherapy in a subset of patients with CLL.
Efficient collection of single photons emitted from a trapped ion into a single-mode fiber for scalable quantum-information processing (2011)

Interference and coincidence detection of two photons emitted by two remote ions can lead to an entangled state, which is a critical resource for scalable quantum-information processing. Currently the success probabilities of experimental realizations of this protocol are mainly limited by low coupling efficiency of a photon emitted by an ion into a single-mode fiber. Here we consider two strategies to enhance the collection probability of a photon emitted from a trapped Yb${}^{+}$ ion, using analytic methods that can be easily applied to other types of ions or neutral atoms. Our analysis shows that we can achieve fiber coupling efficiency of over 30$%$ with an optical cavity made of a flat fiber tip and a spherical mirror. We also investigate ways to increase the fiber coupling efficiency using high-numerical-aperture optics, and show that collection probability of over 15$%$ is possible with proper control of aberration.
Lymphoma incidence patterns by WHO subtype in the United States, 1992-2001 (2005)

Because the causes of most lymphoid neoplasms remain unknown, comparison of incidence patterns by disease subtype may provide critical clues for future etiologic investigations. We therefore conducted a comprehensive assessment of 114,548 lymphoid neoplasms diagnosed during 1992-2001 in 12 Surveillance, Epidemiology, and End Results (SEER) registries according to the internationally recognized World Health Organization (WHO) lymphoma classification introduced in 2001. Cases coded in International Classification of Diseases for Oncology, Second Edition (ICD-O-2), were converted to ICD-O-3 for WHO subtype assignment. Age-specific and age-adjusted rates were compared by sex and race (white, black, Asian). Age-adjusted trends in incidence were estimated by sex and race using weighted least squares log-linear regression. Diverse incidence patterns and trends were observed by lymphoid neoplasm subtype and population. In the elderly (75 years or older), rates of diffuse large B-cell lymphoma (DLBCL) and follicular lymphoma increased 1.4% and 1.8% per year, respectively, whereas rates of chronic lymphocytic leukemia/small lymphocytic lymphoma (CLL/SLL) declined 2.1% per year. Although whites bear the highest incidence burden for most lymphoid neoplasm subtypes, most notably for hairy cell leukemia and follicular lymphoma, black predominance was observed for plasma cell and T-cell neoplasms. Asians have considerably lower rates than whites and blacks for CLL/SLL and Hodgkin lymphoma. We conclude that the striking differences in incidence patterns by histologic subtype strongly suggest that there is etiologic heterogeneity among lymphoid neoplasms and support the pursuit of epidemiologic analysis by subtype.
Time-domain cross-correlation baroreflex sensitivity (2004)

The xBRS method should be considered for experimental and clinical use, because it yielded values that correlated strongly with and were close to the EUROBAVAR averages, yielded more values per minute, had lower within-patient variance and measured baroreflex delay.
The diagnostic values of UCH-L1 in traumatic brain injury: A meta-analysis (2017)

Traumatic brain injury (TBI) is a major health concern. The purpose of this study is to identify the diagnostic accuracy of ubiquitin C-terminal hydrolase-L1 (UCH-L1)-a protein biomarker-in comparison with CT-scan findings post-TBI. Accordingly, we conducted a systematic review of eligible studies and assessed the risk of bias according to the QUADAS-2 checklist. A total of 13 reports from 10 original studies were included. Based on our analysis, serum UCH-L1 has a high accuracy in predicting CT findings in mild to moderate TBI. Based on the QUADAS-2 checklist, this result has a high risk of bias affecting its applicability. The plasma level of UCH-L1 has moderate accuracy in predicting CT findings when assessed in all GCS levels. This result has a low risk of bias and low concerns regarding applicability. Pooled analysis suggests that the plasma/serum UCH-L1 level has high accuracy in predicting CT findings in a wide range of GCS in patients with TBI. This result has a high risk of bias and high concern about its applicability. The heterogeneity in approaching TBI biomarker interferes with drawing a definitive conclusion. Therefore, although UCH-L1 is a promising blood-based diagnostic biomarker for TBI, but due to differences in reported diagnostic accuracy, further studies are needed to recommend UCH-L1 as an alternative to CT scanning.
Molybdenum Oxide-Modified Iridium Catalysts for Selective Production of Renewable Oils for Jet and Diesel Fuels and Lubricants (2019)

Supported inverse metal–metal oxide catalysts have received significant research interest owing to their effective hydrodeoxygenation (HDO) activity toward biomass substrates, but the high cost of the reported catalysts poses a challenge for commercialization. We present the synthesis of a series of metal–metal oxide catalysts, Ir–MOx/SiO2 (M = Re, Mo, W, V, or Nb) and M′–MoOx/SiO2 (M = Rh, Ru, Pt, or Pd) and their HDO performance on multifuran (high carbon) substrates to produce renewable jet and diesel fuels and lubricant base oils. A MoOx-modified Ir/SiO2 catalyst with a Mo/Ir ratio of 0.13 (Ir–MoOx/SiO2) exhibits the highest product yield (78–96%) under mild reaction conditions. Controlled experiments using probe substrates reveal that furan ring hydrogenation and C–O hydrogenolysis of saturated and unsaturated furan rings occur in a sequential manner. The carbon atom adjacent to the furan or saturated furan ring of substrates or intermediate compounds undergoes slow C–C bond scission, resulting in a small fraction of lighter alkanes. Catalyst characterization suggests that Ir is reduced to a fully metallic state to dissociate hydrogen for hydrogenation. Intact MoOx, partly covering the Ir metal surface, promotes ring opening, hydrogenolysis of etheric and alcoholic C–O bonds, and hydrogenation of C═O bonds. This study highlights the potential of low-cost metal–metal oxide catalysts with low loading of oxophilic metals to enable cost-competitive production of bioproducts and demonstrates applicability of these catalysts on other substrates, including fatty acids, fatty esters, and lipids.
Characterization of Graphene Films and Transistors Grown on Sapphire by Metal-Free Chemical Vapor Deposition (2011)

We present a novel method for the direct metal-free growth of graphene on sapphire that yields high quality films comparable to that of graphene grown on SiC by sublimation. Graphene is synthesized on sapphire via the simple decomposition of methane at 1425-1600 °C. Film quality was found to be a strong function of growth temperature. The thickness, structure, interface characteristics, and electrical transport properties were characterized in order to understand the utility of this material for electronic devices. Graphene synthesized on sapphire is found to be strain relieved, with no evidence of an interfacial buffer layer. There is a strong correlation between the graphene structural quality and carrier mobility. Room temperature Hall effect mobility values were as high as 3000 cm(2)/(V s), while measurements at 2 K reached values of 10,500 cm(2)/(V s). These films also display evidence of the quantum Hall effect. Field effect transistors fabricated from this material had a typical current density of 200 mA/mm and transconductance of 40 mS/mm indicating that material performance may be comparable to graphene on SiC.
Modulation of tRNA Ala identity by inorganic pyrophosphatase (2002)

A highly sensitive assay of tRNA aminoacylation was developed that directly measures the fraction of aminoacylated tRNA by following amino acid attachment to the 3'-(32)P-labeled tRNA. When applied to Escherichia coli alanyl-tRNA synthetase, the assay allowed accurate measurement of aminoacylation of the most deleterious mutants of tRNA(Ala). The effect of tRNA(Ala) identity mutations on both aminoacylation efficiency (k(cat)/K(M)) and steady-state level of aminoacyl-tRNA was evaluated in the absence and presence of inorganic pyrophosphatase and elongation factor Tu. Significant levels of aminoacylation were achieved for tRNA mutants even when the k(cat)/K(M) value is reduced by as much as several thousandfold. These results partially reconcile the discrepancy between in vivo and in vitro analysis of tRNA(Ala) identity.
Heptacene and Beyond: The Longest Characterized Acenes (2010)

The bigger, the better: In the last decade, the development of organic electronics, and particularly of organic field-effect transistors, carbon nanotubes, and graphene, has spurred efforts to prepare larger acenes. Stable, large acenes have been obtained and fully characterized. Developments in the synthesis of heptacenes, as well as the very recent synthesis of octacene and nonacenes, are highlighted.
Notes - Preparation of N-1,1-di-H-perfluoroalkyl Amines (1957)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTNotes - Preparation of N-1,1-di-H-perfluoroalkyl AminesHarvey Brown and George TiersCite this: J. Org. Chem. 1957, 22, 4, 454Publication Date (Print):April 1, 1957Publication History Published online14 April 2003Published inissue 1 April 1957https://pubs.acs.org/doi/10.1021/jo01355a611https://doi.org/10.1021/jo01355a611research-articleACS PublicationsRequest reuse permissionsArticle Views92Altmetric-Citations4LEARN 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
Posttranscriptional regulation of gene expression in learning by the neuronal ELAV-like mRNA-stabilizing proteins (2001)

The view that memory is encoded by variations in the strength of synapses implies that long-term biochemical changes take place within subcellular microdomains of neurons. These changes are thought ultimately to be an effect of transcriptional regulation of specific genes. Localized changes, however, cannot be fully explained by a purely transcriptional control of gene expression. The neuron-specific ELAV-like HuB, HuC, and HuD RNA-binding proteins act posttranscriptionally by binding to adenine- and uridine-rich elements (AREs) in the 3' untranslated region of a set of target mRNAs, and by increasing mRNA cytoplasmic stability and/or rate of translation. Here we show that neuronal ELAV-like genes undergo a sustained up-regulation in hippocampal pyramidal cells only of mice and rats that have learned a spatial discrimination paradigm. This learning-specific increase of ELAV-like proteins was localized within cytoplasmic compartments of the somata and proximal dendrites and was associated with the cytoskeleton. This increase was also accompanied by enhanced expression of the GAP-43 gene, known to be regulated mainly posttranscriptionally and whose mRNA is demonstrated here to be an in vivo ELAV-like target. Antisense-mediated knockdown of HuC impaired spatial learning performance in mice and induced a concomitant down-regulation of GAP-43 expression. Neuronal ELAV-like proteins could exert learning-induced posttranscriptional control of an array of target genes uniquely suited to subserve substrates of memory storage.
Trapping of drops by wetting defects (2014)

Controlling the motion of drops on solid surfaces is crucial in many natural phenomena and technological processes including the collection and removal of rain drops, cleaning technology and heat exchangers. Topographic and chemical heterogeneities on solid surfaces give rise to pinning forces that can capture and steer drops in desired directions. Here we determine general physical conditions required for capturing sliding drops on an inclined plane that is equipped with electrically tunable wetting defects. By mapping the drop dynamics on the one-dimensional motion of a point mass, we demonstrate that the trapping process is controlled by two dimensionless parameters, the trapping strength measured in units of the driving force and the ratio between a viscous and an inertial time scale. Complementary experiments involving superhydrophobic surfaces with wetting defects demonstrate the general applicability of the concept. Moreover, we show that electrically tunable defects can be used to guide sliding drops along actively switchable tracks-with potential applications in microfluidics.
A Quantum CAD Accelerator Based on Grover&amp;#146;s Algorithm for Finding the Minimum Fixed Polarity Reed-Muller Form (2006)

We describe the use of Grover’s algorithm as implemented in a quantum logic circuit that produces a solution for a classical switching circuit design problem. The particular application described here is to determine a Fixed Polarity Reed-Muller (FPRM) form that satisfies a threshold value constraint, thus we find a particular FPRM form among all 2^n FPRM forms that has a number of terms less than or equal to the threshold value. Grover’s algorithm is implemented in a quantum logic circuit that also contains a subcircuit that expresses all possible FPRM solutions of a given function. This approach illustrates how fast transforms as known from spectral theory can be combined with quantum computing as a part of an oracle.
New Real-Time PCR Assay for Rapid Detection of Methicillin- ResistantStaphylococcus aureusDirectly from Specimens Containing a Mixture of Staphylococci (2004)

Molecular methods for the rapid identification of methicillin-resistant Staphylococcus aureus (MRSA) are generally based on the detection of an S. aureus-specific gene target and the mecA gene. However, such methods cannot be applied for the direct detection of MRSA from nonsterile specimens such as nasal samples without the previous isolation, capture, or enrichment of MRSA because these samples often contain both coagulase-negative staphylococci (CoNS) and S. aureus, either of which can carry mecA. In this study, we describe a real-time multiplex PCR assay which allows the detection of MRSA directly from clinical specimens containing a mixture of staphylococci in <1 h. Five primers specific to the different staphylococcal cassette chromosome mec (SCCmec) right extremity sequences, including three new sequences, were used in combination with a primer and three molecular beacon probes specific to the S. aureus chromosomal orfX gene sequences located to the right of the SCCmec integration site. Of the 1,657 MRSA isolates tested, 1,636 (98.7%) were detected with the PCR assay, whereas 26 of 569 (4.6%) methicillin-susceptible S. aureus (MSSA) strains were misidentified as MRSA. None of the 62 nonstaphylococcal bacterial species or the 212 methicillin-resistant or 74 methicillin-susceptible CoNS strains (MRCoNS and MSCoNS, respectively) were detected by the assay. The amplification of MRSA was not inhibited in the presence of high copy numbers of MSSA, MRCoNS, or MSCoNS. The analytical sensitivity of the PCR assay, as evaluated with MRSA-negative nasal specimens containing a mixture of MSSA, MRCoNS, and MSCoNS spiked with MRSA, was approximately 25 CFU per nasal sample. This real-time PCR assay represents a rapid and powerful method which can be used for the detection of MRSA directly from specimens containing a mixture of staphylococci.
Extracting Relations from Large Plain-Text Collections (1999)

Text documents often contain valuable structured data that is hidden in regular English sentences. This data is best exploited if available as a relational table that we could use for answering precise queriesor for running data mining tasks. We explore a technique for extracting such tables from document collections that requires only a handful of training examples from users. These examples are used to generate extraction patterns,that in turn result in new tuples being extracted from the document collection. We build on this idea and present our Snowball system. Snowball introduces novel strategies for generating patterns and extracting tuples from plain-text documents. At each iteration of the extraction process, Snowball evaluates the quality of these patterns and tuples without human intervention,In this paper we also develop a scalable evaluation methodology and metrics for our task, and present a thorough experimental evaluation of Snowball and comparable techniques over a collection of more than 300,000 newspaper documents.
A high-density YAC contig map of human chromosome 22. (1995)

We have constructed a high-resolution clone map of human chromosome 22 which integrates the available physical and genetic information, establishing a single consensus. The map consists of all classes of DNA landmarks ordered on 705 yeast artificial chromosomes (YACs) at an average landmark density of more than one per 70 kilobases. This map represents the practical limits of currently available YAC resources and provides the basis for determination of the entire gene content and genomic DNA sequence of human chromosome 22.
Syntheses of Oligophenylenevinylenes−Polyisoprene Diblock Copolymers and Their Microphase Separation (1999)

A series of functionalized oligophenylenevinylene (OPV) molecules have been synthesized via an orthogonal approach for the purpose of preparing diblock copolymers. The coupling reaction between the aldehyde-terminated OPVs and a “living” polyisoprene (PI) species leads to the formation of OPV−PI diblock copolymers. TEM results on thin films of four copolymers with the same OPV block but different lengths of the PI blocks clearly show nanophase separation. Alternating strips of OPV- and PI-rich lamella domains were observed under TEM, confirmed by the SAXS experiments on bulk samples. Temperature-dependent SAXS studies also revealed an order−disorder transition at around 128 °C for copolymer 1, which is consistent with the TEM results.
Drug delivery to the lymphatic system: importance in future cancer diagnosis and therapies (2009)

Cancer is the second leading cause of death in the US. Currently, protocols for cancer treatment include surgery to remove diseased and suspect tissues, focused radiation, systemic chemotherapy, immunotherapy and their combinations. With conventional chemotherapy, it is almost impossible to deliver anticancer drugs specifically to the tumor cells without damaging healthy organs or tissues. Over the past several decades, efforts have been made to improve drug delivery technologies that target anticancer drugs specifically to tumor cells. It has been known for over four decades that the lymphatics are the first site of metastasis for most solid cancers; however, few efforts have been made to localize chemotherapies to lymphatic tissues. Trials of several systemic targeted drug delivery systems based on nanoparticles containing chemotherapeutic agents (e.g., liposomal doxorubicin) have shown similar antitumor activity but better patient tolerance compared with conventional formulations. Animal studies have demonstrated that nanoparticles made of natural or synthetic polymers and liposomal carriers have higher accumulation in the lymph nodes and surrounding lymphatics compared to conventional intravenous therapies. This combination has the potential to both reduce nonspecific organ toxicities and increase the chemotherapeutic dose to the most likely sites of locoregional cancer metastasis.
Isolation and characterization of an antigen-specific suppressor inducer molecule from serum of hyperimmune mice by using a monoclonal antibody. (1986)

We have used a rat monoclonal antibody (mAb) (called 14-30) to affinity purify the antigen-binding chain of a suppressor inducer factor (TsiF-AB) from the serum of mice hyperimmune to heterologous erythrocytes. The TsiF-AB requires the addition of a second, antigen-nonspecific component for biologic activity as well as Lyt-2+ T cells in the assay culture. This mAb can be used to affinity purify suppressor inducer factor from a well-characterized TsiF but not suppressor effector factor (TseF) from culture supernatants. Binding of mAb 14-30 to TsiF is independent of the antigen specificity of the suppressor factor and of the strain of origin of the TsiF. The TsiF affinity purified from hyperimmune serum has an apparent m.w. of 68,000 by SDS-PAGE analysis. 2D gel analysis shows that the serum-derived TsiF has charge heterogeneity, all in the acid range.
Pyelonephritis in Japan (1965)

The interest in pyelonephritis and its consequences is increasing rapidly in Japan in recent years. I am very honored to have this opportunity to discuss this timely subject-pyelonephritis- and to present some of our clinical and experimental data.