gebhart/patrepeval huggingface dataset:
Inhaled particles and lung cancer. Part A: Mechanisms (2004)

Both occupational and environmental exposure to particles is associated with an increased risk of lung cancer. Particles are thought to impact on genotoxicity as well as on cell proliferation via their ability to generate oxidants such as reactive oxygen species (ROS) and reactive nitrogen species (RNS). For mechanistic purposes, one should discriminate between a) the oxidant-generating properties of particles themselves (i.e., acellular), which are mostly determined by the physicochemical characteristics of the particle surface, and b) the ability of particles to stimulate cellular oxidant generation. Cellular ROS/RNS can be generated by various mechanisms, including particle-related mitochondrial activation or NAD(P)H-oxidase enzymes. In addition, since particles can induce an inflammatory response, a further subdivision needs to be made between primary (i.e., particle-driven) and secondary (i.e., inflammation-driven) formation of oxidants. Particles may also affect genotoxicity by their ability to carry surface-adsorbed carcinogenic components into the lung. Each of these pathways can impact on genotoxicity and proliferation, as well as on feedback mechanisms involving DNA repair or apoptosis. Although abundant evidence suggests that ROS/RNS mediate particle-induced genotoxicity and mutagenesis, little information is available towards the subsequent steps leading to neoplastic changes. Additionally, since most of the proposed molecular mechanisms underlying particle-related carcinogenesis have been derived from in vitro studies, there is a need for future studies that evaluate the implication of these mechanisms for in vivo lung cancer development. In this respect, transgenic and gene knockout animal models may provide a useful tool. Such studies should also include further assessment of the relative contributions of primary (inflammation-independent) and secondary (inflammation-driven) pathways.
The interaction of RB with E2F coincides with an inhibition of the transcriptional activity of E2F. (1992)

Recent experiments have shown that the E2F transcription factor is in a complex with the RB1 gene product. The E2F-pRB complex can be reconstituted in an in vitro assay using a GST-RB fusion protein isolated from Escherichia coli. This interaction is dependent on pRB sequences involved in E1A/T-antigen binding as well as carboxy-terminal pRB sequences that are not necessary for E1A/T binding. Moreover, reconstitution assays reveal a requirement for an accessory factor, in addition to E2F and pRB, for formation of the E2F-pRB complex. Assays of transcription from the adenovirus E2 promoter in transfection experiments demonstrate that formation of the complex containing pRB and E2F coincides with an inhibition of E2F-dependent transcriptional activity. A mutant pRB protein that does not associate with E2F does not inhibit transcription. We conclude that as a consequence of its interaction with E2F, pRB may regulate the transcriptional function of the E2F factor.
Neutral Proteinases I and II of Aspergillus sojae: Some Physicochemical Properties and Amino Acid Composition (1973)

Some physicochemical properties of neutral proteinases I and II, zinc-containing metalloenzymes, from Aspergillus sojae were investigated. Neutral proteinase I: The enzyme protein had a sedimentation coefficient of 3.90S, an intrinsic viscosity of 0.0315 dl/g, and a partial specific volume, calculated from the amino acid and carbonhydrate composition, of 0.715 cm3/g. The molecular weight was 42,200 from the Yphantis’ procedure, and was 42,500 from the calculation according to the Scheraga-Mandel-kern’s formula. The integral numbers of amino acid residues per molecule calculated on the basis of 42,200 as molecular weight were as follows; Lys16, His6, Arg13, Trp8, Asp56, Thr25, Ser23, Glu31, Pro18, Gly40, Ala33, l/2Cys4, Val11, Met6, Ile15, Leu25, Tyr20, Рһе10, (amide-ammonia)29, in addition to mannose6, galactose1, hexosamine3. Neutral proteinase II: The enzyme protein had a sedimentation coefficient of 2.32S, an intrinsic viscosity of 0.0270 dl/g, and a calculated partial specific volume of 0.714 cm3/g. The molecular weight was 16,800 from the Yphantis’ procedure, and was 18,000 from the sedimentation and intrinsic viscosity. The following amino acid compositions was calculated on the basis of 16,800 as molecular weight; Lys8, His3, Arg3, Asp19, Thr17, Ser11, GIu23, Pro5, Gly9, Ala24, l/2Cys4, Val5, Ile3, Leu13, Tyr10, Phe3, (amide-ammonia)15. In the enzyme preparation, neither methionine nor tryptophan was detected and carbohydrate was also absent. In both neutral proteinases I and II, no free SH group was detected by the PCMB-titration in the presence of 8 M urea.
Molecular Cloning of a Novel Human CC Chemokine EBI1-ligand Chemokine That Is a Specific Functional Ligand for EBI1, CCR7 (1997)

By searching the expressed sequence tag (EST) data base, we identified partial cDNA sequences encoding a novel human CC chemokine. We determined the complete cDNA sequence that encodes a highly basic polypeptide of a total 98 amino acids with 20 to 30% identity to other human CC chemokines. We termed this novel chemokine from EBI1-Ligand Chemokine as ELC (see below). The ELC mRNA was most strongly expressed in the thymus and lymph nodes. Recombinant ELC protein was expressed as a fusion protein with the Flag tag (ELC-Flag). For receptor-binding assays, recombinant ELC protein fused with the secreted form of alkaline phosphatase (SEAP) was used. By stably expressing five CC chemokine receptors (CCR1 to 5) and five orphan receptors, ELC-SEAP was found to bind specifically to an orphan receptor EBI1. Only ELC-Flag, but not MCP-1, MCP-2, MCP-3, eotaxin, MIP-1alpha, MIP-1beta, RANTES (regulated on activation normal T cell expressed and secreted), thymus and activation-regulated chemokine (TARC), or liver and activation-regulated chemokine (LARC), competed with ELC-SEAP for EBI1. ELC-Flag-induced transient calcium mobilization and chemotactic responses in EBI1-transfected cells. ELC-Flag also induced chemotaxis in HUT78 cells expressing endogenous EBI1 at high levels. By somatic hybrid and radiation hybrid analyses, the gene for ELC (SCYA19) was mapped to chromosome 9p13 instead of chromosome 17q11.2 where the genes for CC chemokines are clustered. Taken together, ELC is a highly specific ligand for EBI1, which is known to be expressed in activated B and T lymphocytes and strongly up-regulated in B cells infected with Epstein-Barr virus and T cells infected with herpesvirus 6 or 7. ELC and EBI1 may thus play roles in migration and homing of normal lymphocytes, as well as in pathophysiology of lymphocytes infected with these herpesviruses. We propose EBI1 to be designated as CCR7.
Renin inhibition with aliskiren: where are we now, and where are we going? (2006)

With the development of aliskiren, blockade of the renin-angiotensin-aldosterone system (RAAS) at the level of the interaction of renin with a substrate has become a clinical reality. This review covers the specific features of the first agent likely to achieve widespread clinical exposure, aliskiren. The potential of renin inhibition must be viewed in the context of the remarkable efficacy of both angiotensin-converting enzyme (ACE) inhibition and angiotensin receptor blockers (ARBs). The implications of blockade of the renin system at its rate-limiting step are reviewed, with the therapeutic implications for both the renin inhibitor employed alone or the renin inhibitor combined with an ACE inhibitor or ARB. The relevant and necessary studies are ongoing.
The design and implementation of a low power ad hoc protocol stack (2002)

Low power consumption is a key design metric for wireless network devices that have limited battery energy. The problem of reducing power consumption needs to be addressed at every level of system design. This paper investigates the issues of designing low power protocols in the context of the PEN (Prototype Embedded Network) system, a mobile ad hoc network developed at AT&T Laboratories Cambridge. It describes the ad hoc protocols that have been implemented, outlining both the design of individual protocols and the structure of the overall stack. The power-relevant mechanisms from the various protocols are collated.
Identification and Characterisation of a Novel Acylpeptide Hydrolase from Sulfolobus Solfataricus: Structural and Functional Insights (2012)

A novel acylpeptide hydrolase, named APEH-3(Ss), was isolated from the hypertermophilic archaeon Sulfolobus solfataricus. APEH is a member of the prolyl oligopeptidase family which catalyzes the removal of acetylated amino acid residues from the N terminus of oligopeptides. The purified enzyme shows a homotrimeric structure, unique among the associate partners of the APEH cluster and, in contrast to the archaeal APEHs which show both exo/endo peptidase activities, it appears to be a "true" aminopeptidase as exemplified by its mammalian counterparts, with which it shares a similar substrate specificity. Furthermore, a comparative study on the regulation of apeh gene expression, revealed a significant but divergent alteration in the expression pattern of apeh-3(Ss) and apeh(Ss) (the gene encoding the previously identified APEH(Ss) from S. solfataricus), which is induced in response to various stressful growth conditions. Hence, both APEH enzymes can be defined as stress-regulated proteins which play a complementary role in enabling the survival of S. solfataricus cells under different conditions. These results provide new structural and functional insights into S. solfataricus APEH, offering a possible explanation for the multiplicity of this enzyme in Archaea.
The NHGRI GWAS Catalog, a curated resource of SNP-trait associations (2013)

The National Human Genome Research Institute (NHGRI) Catalog of Published Genome-Wide Association Studies (GWAS) Catalog provides a publicly available manually curated collection of published GWAS assaying at least 100,000 single-nucleotide polymorphisms (SNPs) and all SNP-trait associations with P <1 × 10(-5). The Catalog includes 1751 curated publications of 11 912 SNPs. In addition to the SNP-trait association data, the Catalog also publishes a quarterly diagram of all SNP-trait associations mapped to the SNPs' chromosomal locations. The Catalog can be accessed via a tabular web interface, via a dynamic visualization on the human karyotype, as a downloadable tab-delimited file and as an OWL knowledge base. This article presents a number of recent improvements to the Catalog, including novel ways for users to interact with the Catalog and changes to the curation infrastructure.
The Structure of Dasatinib (BMS-354825) Bound to Activated ABL Kinase Domain Elucidates Its Inhibitory Activity against Imatinib-Resistant ABL Mutants (2006)

Chronic myeloid leukemia (CML) is caused by the constitutively activated tyrosine kinase breakpoint cluster (BCR)-ABL. Current frontline therapy for CML is imatinib, an inhibitor of BCR-ABL. Although imatinib has a high rate of clinical success in early phase CML, treatment resistance is problematic, particularly in later stages of the disease, and is frequently mediated by mutations in BCR-ABL. Dasatinib (BMS-354825) is a multitargeted tyrosine kinase inhibitor that targets oncogenic pathways and is a more potent inhibitor than imatinib against wild-type BCR-ABL. It has also shown preclinical activity against all but one of the imatinib-resistant BCR-ABL mutants tested to date. Analysis of the crystal structure of dasatinib-bound ABL kinase suggests that the increased binding affinity of dasatinib over imatinib is at least partially due to its ability to recognize multiple states of BCR-ABL. The structure also provides an explanation for the activity of dasatinib against imatinib-resistant BCR-ABL mutants.
Thermal lensing compensation objective for high power lasers (2010)

Athermalization of focusing objectives is a common technique for optimizing imaging systems in infrared where thermal effects are a major concern. The athermalization is generally done within the spectrum of interest and not generally applied to a single wavelength. By applying athermalization techniques to a laser system, a significant reduction in thermal lensing of the laser system can be realized. We describe a passive method minimizing thermal lensing of high power lasers.the
Recent progress on 15-MW Silicon-Film/spl trade/ solar cell manufacturing systems (2003)

Recent advances in the development of solar cell manufacturing systems for large-area Silicon-Film/spl trade/ polycrystalline silicon sheet material have focused on cassette-less wet chemical surface etching, production-level silicon nitride anti-reflection coatings, co-fired metal contacts, a highly-automated solar cell tester-sorter system, and magazine-based wafer handling. A single APex/spl trade/ polycrystalline silicon sheet generation system now is capable of producing 200-mm wide sheet at more than 3 meters per minute. This sheet generation rate is used as the basis for designing a single-thread solar cell manufacturing production line with an annual capacity of more than 15MW of large-area APx-8 solar cells.
IP addressing and routing in a local wireless network (1992)

IP is the basic protocol in the Internet. The authors explore a variety of possibilities to adapt the wireless environment to that of IP. They describe the requirements and show how these can be accommodated by using the existing IP. At the heart of the problem is the lack of a capability in the current IP routing services to track topological changes. Several alternatives are described, each making use of a different combination of the addressing and routing features offered by IP. The alternatives are compared. The tradeoffs among these alternatives are explored.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Integrins and cell proliferation (2001)

Cell cycle progression in mammalian cells is strictly regulated by both integrin-mediated adhesion to the extracellular matrix and by binding of growth factors to their receptors. This regulation is mediated by G1 phase cyclin-dependent kinases (CDKs), which are downstream of signaling pathways under the integrated control of both integrins and growth factor receptors. Recent advances demonstrate a surprisingly diverse array of integrin-dependent signals that are channeled into the regulation of the G1 phase CDKs. Regulation of cyclin D1 by the ERK pathway may provide a paradigm for understanding how cell adhesion can determine cell cycle progression.
Development of simple latex agglutination test for detection of astrovirus serotype 1. (2000)

Astroviruses are small RNA viruses associated with pediatric gastroenteritis. A latex agglutination (LA) test is more convenient and rapid than electron microscopy, enzyme immunoassay (EIA) and reverse transcription-polymerase chain reaction (RT-PCR) for detection of astroviruses in stool specimens was developed by using polyclonal antibody against cultured serotype 1 astrovirus, and tested on astrovirus positive- and negative- samples collected between 1985 and 1993 in Ehime, Japan. Cultured serotype 1 astrovirus was detected by the LA test, but serotype 2, 3, 4, 5, 6, and 7 viruses could not be detected, although they yielded high titer of the viruses. When tested on the 27 clinical samples, all 8 serotype 1 astroviruses determined previously by EIA were positive by the LA test, however, 9 other serotype astroviruses and 10 astrovirus negative-samples were all negative. PT-PCR was found to be the most sensitive followed by EIA and LA test. Further development of LA test with other serotypes is necessary.
Ultrastructural Localization of Alkaline Phosphatase in Initial Intramembranous Osteogenesis (1978)

Developing fetal calvariae in which calcification of woven bone has been initiated, have been decalcified with formic acid, buffered with citrate at pH5 to remove all traces of calcium and phosphate from the tissue. The decalcified bone was then incubated in medium containing sodium-beta-glycerophosphate, an artificial substrate for alkaline phosphatase. The Hugon and Borgers-modified Gomori reaction revealed the sites of A-Pase activity as electron dense deposits of lead phosphate. 23,24 One site of A-pase localization was in Golgi vesicles. Another site, at the cell membrane, indicated that A-Pase was apparently secreted from the osteoblasts into the calcifying matrix. A strong reaction in the matrix vesicles and at the periphery of bone nodules (vesicles) indicated that A-Pase was localized ultrastructurally in the precise zones of calcification during initial intramembraneous ossification.
Multi-Functional Macromers for Hydrogel Design in Biomedical Engineering and Regenerative Medicine (2015)

Contemporary biomaterials are expected to provide tailored mechanical, biological and structural cues to encapsulated or invading cells in regenerative applications. In addition, the degradative properties of the material also have to be adjustable to the desired application. Oligo- or polymeric building blocks that can be further cross-linked into hydrogel networks, here addressed as macromers, appear as the prime option to assemble gels with the necessary degrees of freedom in the adjustment of the mentioned key parameters. Recent developments in the design of multi-functional macromers with two or more chemically different types of functionalities are summarized and discussed in this review illustrating recent trends in the development of advanced hydrogel building blocks for regenerative applications.
Engineering nanostructured electrodes and fabrication of film electrodes for efficient lithium ion intercalation (2010)

Lithium ion batteries have been one of the major power supplies for small electronic devices since the last century. However, with the rapid advancement of electronics and the increasing demand for clean sustainable energy, newer lithium ion batteries with higher energy density, higher power density, and better cyclic stability are needed. In addition, newer generations of lithium ion batteries must meet the requirements of low and easy fabrication cost and be free of toxic materials. There have been many novel approaches to gain high energy storage capacities and charge/discharge rates without sacrificing the battery cyclic life. Nanostructured electrodes are seemingly the most promising candidate for future lithium ion batteries. Modification of the electrode surface chemistry and the control of appropriate crystallinity are also reported to improve the electrode intercalation capabilities. The study of appropriately designed nanostructures, interfaces and crystallinity has also promoted and is accompanied with the development of thin film electrodes without the addition of binders and conductive carbon that are typically used in the fabrication of traditional lithium ion battery electrodes, simplifying the electrode fabrication process and enhancing electrode storage density. In this perspective, we summarize and discuss the efforts of fabricating nanostructures, modifying surface chemistry and manipulating crystallinity to achieve enhanced lithium ion intercalation capacities, rate capabilities and cyclic stability, as well as the direct fabrication of binderless film electrodes with desirable nano- and microstructures.
High-performance three-dimensional on-chip inductors in SOI CMOS technology for monolithic RF circuit applications (2003)

This paper presents high-Q and high-inductance-density on-chip inductors fabricated on high-resistivity substrate (HRS) using a 0.12 /spl mu/m SOI CMOS technology with 8 copper metal layers. A peak Q of 52 is obtained at 5 GHz for a 0.6 nH STP (Single-Turn, multiple metal levels in Parallel) inductor. An inductance density of 5302 fH//spl mu/m/sup 2/ is obtained for a 42 nH MTS (Multi-Turn, multiple metal layers in Series) inductor.
DEVELOPMENT OF HUMAN FACTORS GUIDELINES FOR ADVANCED TRAVELER INFORMATION SYSTEMS AND COMMERCIAL VEHICLE OPERATIONS: TASK ANALYSIS OF ATIS/CVO FUNCTIONS (1996)

This working paper documents Task E of the present project, Task Analyses for Advanced Traveler Information Systems (ATIS) and Commercial Vehicle Operations (CVO) systems. The goal of Task E is to conduct detailed analyses of the influence of using ATIS on driving tasks for both private and commercial vehicle operators. The task analyses specifying the tasks to be performed by the users as well as the information displayed in the ATIS (including IRANS, IMSIS, ISIS, and IVSAWS) are based on scenarios developed from previous project tasks. Information for the task analysis was obtained from a review of the literature, observations, and interviews of drivers and dispatchers using prototype and first-generation operational systems. The report organizes the tasks people and systems do while driving into three usable formats: (1) a graphical representation of the interactions that take place between driving and ATIS/CVO functions; (2) a diagram [i.e., an Operational Sequence Diagram (OSD)] of the sequence of task actions, the types of tasks involved, and the relationship between various human and non-human parts of the system; and (3) a description of each task in terms of its purpose, initiating conditions, task type, and performance considerations. General characteristics and performance considerations are examined for four types of tasks: setup, bridging, decision-making, and integrated. A summary of research issues and additional research needs are identified.
Olaparib Maintenance Therapy in Platinum-Sensitive Relapsed Ovarian Cancer (2012)

Olaparib as maintenance treatment significantly improved progression-free survival among patients with platinum-sensitive, relapsed, high-grade serous ovarian cancer. Interim analysis showed no overall survival benefit. The toxicity profile of olaparib in this population was consistent with that in previous studies. (Funded by AstraZeneca; ClinicalTrials.gov number, NCT00753545.).
Change in weed control studies of rice paddy fields in Korea (2002)

This paper was reviewed on the research status of weed control according to cultivating patterns of rice in Korea. Weed control study in a nursery bed was chiefly carried out to control the species of barnyardgrass at the times of machine transplanting. Propanil and nitrofen were applied successfully in wet‐nursery beds, and chlornitrofen and pyrazolate/butachlor were also successfully applied in protected semi‐irrigated rice nursery beds in the 1970s. Sequential application of herbicides in the mid‐1980s has resulted in the end of hand weeding. In machine transplanting, basic research such as the selection of herbicides was conducted in the early 1970s, and its related research including crop injury, seedling age, and reaction of cultivars were done in the late 1970s to early 1980s. Effects of the continuous application of herbicides and its methods of labor saving for rice cultivation were studied in the mid to late 1980s. When the rice planting methods were newly established, such as transplanting when seedlings were 10‐days‐old and direct seeding from the early 1990s, weed control research relating to herbicides was carried out (e.g. herbicide registration, crop injury, water management, appropriate application time, and neighboring application with insecticide). Weed control for the dill seeding of fields in wetted and reclaimed saline land have been experimented with, particularly in terms of the physio‐ecological characteristics and the control of problematic weeds, and the resistance of weeds to herbicides was also investigated systematically.
EFFECTS OF pH ON THE ACTIVITY OF NICOTINE AND NICOTINE MONOMETHIODIDE ON THE RAT DIAPHRAGM PREPARATION (1962)

Results have been obtained which substantiate the view that it is the univalent nicotinium ion rather than the un-ionized base which acts at the neuromuscular junction.