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Search Results: 1 - 10 of 9828 matches for " Patrick Langille "
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Evaluation of Drought Stress-Inducible Wsi18 Promoter in Brachypodium distachyon  [PDF]
Patrick Langille, Wei Wei, Jim Karagiannis, Tim Xing, Lining Tian
Advances in Bioscience and Biotechnology (ABB) , 2018, DOI: 10.4236/abb.2018.911042
Abstract:

The rice Wsi18 promoter confers drought-inducible gene expression. This property makes it a useful candidate to drive relevant genes for developing drought resistant traits for different monocot crops. In this study, we showed that the Bradi2G47700 gene, the closest homologue to rice Wsi18, was upregulated in Brachypodium distachyon plants exposed to ABA and mannitol. Wsi18: uidA transgenic B. distachyon plants were produced and then subjected to ABA or mannitol treatment. The expression of uidA in three transgenic lines (line 10, 18 and 37) was significantly upregulated in plants exposed to ABA (fold increases of 5.61 ± 0.98, 2.88 ± 0.75 and

Navigating the Road to Success: A Systematic Approach to Preparing Competitive Grant Proposals
Lynn Langille,Theresa Mackenzie
Evidence Based Library and Information Practice , 2007,
Abstract: Purpose Difficulty in securing research funding has been cited as one barrier to the involvement of more librarians and information professionals in conducting original research. This article seeks to support the work of librarians who wish to secure research funding by describing a systematic approach to the creation of successful grant applications. Approach The authors draw on more than fifteen years collective experience in supporting the development of successful research grant proposals. Eleven grant‐writing best practicesor ‘key approaches’ are described, and a planning timeline is suggested. Conclusions: Use of these best practices can assist researchers in creating successful research grant proposals that will also help streamline the research process once it is underway. It is important to recognize the competitive nature of research grant competitions, obtain feedback from an internal review panel, and use feedback from funding agencies to strengthen future grant applications.
BioTorrents: A File Sharing Service for Scientific Data
Morgan G. I. Langille,Jonathan A. Eisen
PLOS ONE , 2012, DOI: 10.1371/journal.pone.0010071
Abstract: The transfer of scientific data has emerged as a significant challenge, as datasets continue to grow in size and demand for open access sharing increases. Current methods for file transfer do not scale well for large files and can cause long transfer times. In this study we present BioTorrents, a website that allows open access sharing of scientific data and uses the popular BitTorrent peer-to-peer file sharing technology. BioTorrents allows files to be transferred rapidly due to the sharing of bandwidth across multiple institutions and provides more reliable file transfers due to the built-in error checking of the file sharing technology. BioTorrents contains multiple features, including keyword searching, category browsing, RSS feeds, torrent comments, and a discussion forum. BioTorrents is available at http://www.biotorrents.net.
Evaluation of genomic island predictors using a comparative genomics approach
Morgan GI Langille, William WL Hsiao, Fiona SL Brinkman
BMC Bioinformatics , 2008, DOI: 10.1186/1471-2105-9-329
Abstract: We developed a comparative genomics approach (IslandPick) that identifies both very probable islands and non-island regions. The approach involves 1) flexible, automated selection of comparative genomes for each query genome, using a distance function that picks appropriate genomes for identification of GIs, 2) identification of regions unique to the query genome, compared with the chosen genomes (positive dataset) and 3) identification of regions conserved across all genomes (negative dataset). Using our constructed datasets, we investigated the accuracy of several sequence composition-based GI prediction tools.Our results indicate that AlienHunter has the highest recall, but the lowest measured precision, while SIGI-HMM is the most precise method. SIGI-HMM and IslandPath/DIMOB have comparable overall highest accuracy. Our comparative genomics approach, IslandPick, was the most accurate, compared with a curated list of GIs, indicating that we have constructed suitable datasets. This represents the first evaluation, using diverse and, independent datasets that were not artificially constructed, of the accuracy of several sequence composition-based GI predictors. The caveats associated with this analysis and proposals for optimal island prediction are discussed.Bacteria are the most abundant Domain of life that exists on earth (based on biomass) [1]. The species we see today are highly diverse, reflecting adaptations to a wide range of environments over billions of years. One of the major sources of adaptability for bacteria is the ability to obtain genes horizontally from other sources, including other prokaryotes, viruses, and even eukaryotes [2]. Analysis of bacterial genomic sequences has indicated that many of the horizontal gene transfer (HGT) events observed in bacteria involve clusters of genes. Collectively, these genomic regions are referred to as genomic islands (GIs) [3]. GIs, which range in size from ~5–500 kb, have become of significant interest, since
Knowledge of, beliefs about, and perceived barriers to the use of the emergency contraception pill among women aged 18-51 in Nova Scotia
Whelan AM,Langille DB,White SJK,Asbridge M
Pharmacy Practice (Granada) , 2011,
Abstract: Objectives: To investigate women in Nova Scotia (NS), Canada with respect to their knowledge of, beliefs about, and perceptions of barriers to accessing emergency contraception pills (ECP).Methods: A random digit dialing approach was used to survey a representative sample of NS women aged 18-51. Analyses described the knowledge, beliefs, and perceived barriers associated with ECP access among participants. Particular focus was given to differences between younger (age 18-31) and older (age 32-51) women.Results: The survey response rate of 49% achieved the desired sample size of 770. Overall, women in NS appeared to be poorly informed about ECP with regards to effectiveness, proper timing of administration, how it works, as well as how to access Plan B . Younger women (age 18-31) were significantly more likely than older women (age 32-51) to know that ECP does not always prevent pregnancy (p<0.01), that it can be taken more than 12 hours after unprotected intercourse (p<0.01), and that it is available without a prescription in pharmacies (p<0.01). Thirty percent of women agreed that ECP will cause an abortion, with older women (p<0.01) being more likely than younger women to agree. Cost and lack of privacy in pharmacies were identified as potential barriers to access.Conclusions: Lack of knowledge and the perception that ECP causes an abortion may influence a woman’s ability to consider ECP as an option should she find herself at risk of an unplanned pregnancy. To address this, efforts should be made to educate women (including older women) about ECP and its availability in pharmacies.
Sifting through genomes with iterative-sequence clustering produces a large, phylogenetically diverse protein-family resource
Sharpton Thomas J,Jospin Guillaume,Wu Dongying,Langille Morgan GI
BMC Bioinformatics , 2012, DOI: 10.1186/1471-2105-13-264
Abstract: Background New computational resources are needed to manage the increasing volume of biological data from genome sequencing projects. One fundamental challenge is the ability to maintain a complete and current catalog of protein diversity. We developed a new approach for the identification of protein families that focuses on the rapid discovery of homologous protein sequences. Results We implemented fully automated and high-throughput procedures to de novo cluster proteins into families based upon global alignment similarity. Our approach employs an iterative clustering strategy in which homologs of known families are sifted out of the search for new families. The resulting reduction in computational complexity enables us to rapidly identify novel protein families found in new genomes and to perform efficient, automated updates that keep pace with genome sequencing. We refer to protein families identified through this approach as “Sifting Families,” or SFams. Our analysis of ~10.5 million protein sequences from 2,928 genomes identified 436,360 SFams, many of which are not represented in other protein family databases. We validated the quality of SFam clustering through statistical as well as network topology–based analyses. Conclusions We describe the rapid identification of SFams and demonstrate how they can be used to annotate genomes and metagenomes. The SFam database catalogs protein-family quality metrics, multiple sequence alignments, hidden Markov models, and phylogenetic trees. Our source code and database are publicly available and will be subject to frequent updates (http://edhar.genomecenter.ucdavis.edu/sifting_families/).
Ego Depletion and the Humean Theory of Motivation  [PDF]
Patrick Fleming
Open Journal of Philosophy (OJPP) , 2014, DOI: 10.4236/ojpp.2014.43042
Abstract:

By what capacities do human beings engage in intentional action? Humeans about motivation claim that the source of all action is desire. Volitionalists claim that action has two distinct sources, one in the will and one in desire. Recent work suggests that volitionalism has some empirical support. Roy F. Baumeister and colleagues have argued for a phenomenon called “ego depletion”. They argue that some aspect of the self exerts volition in a number of different contexts. The main evidence for this claim is that experimental subjects who engage in acts of self-regulation are less likely to engage in similar actions on later tests. The evidence calls for a reformulation of the Humean theory, not a rejection of it. And the reformulation is one that still has interest for metaethics. Many philosophers are interested in the Humean theory of motivation because they believe that it has implications for the correct theory of normative practical reasons. Here I argue that if the Humean theory of motivation was ever a threat to the objectivity of morality, it still is.

Letter to Editor  [PDF]
Patrick Velte
Open Journal of Business and Management (OJBM) , 2014, DOI: 10.4236/ojbm.2014.21001
Abstract: Letter to Editor
Rain Attenuation Effects on 2.6 GHz WiMAX Networks Deployment in Ghana  [PDF]
Patrick Fiati
World Journal of Engineering and Technology (WJET) , 2015, DOI: 10.4236/wjet.2015.33009
Abstract: WiMAX communication systems operating at 2.6 G frequencies are used for broadband multimedia and internet based services. At these frequencies, the signal will be affected by various propagation impairments such as rain attenuation, cloud attenuation, tropospheric scintillation, ionospheric scintillation, water vapour attenuation, and rain and ice depolarization. Among all the pro-pagation impairments, rain attenuation is the most important and critical parameter. In this research, rain attenuation is calculated at KNUST, Kumasi using ITU-R rain attenuation model. The preliminary results of the work will be used to calculate the attenuation experimentally and comparison can be made, which helps to develop a new rain attenuation model at 2.6 G bands. Rain attenuation is an important aspect of signal propagation above 2.6 GHz frequency. The attenuation time series generation from point rain rate measurement is crucial due to unavailability of actual signal measurements. In this research, a simple and realistic approach has been demonstrated for better estimation of rain attenuation using WiMAX-band signal propagation data and ground rain rate measurements in Ghana. The ITU-R model of rain attenuation has been modified by incorporating an effective slant path model. The effective slant path has been estimated and modeled in terms of a power-law relationship of rain rate data of 2007-2008. The methodology has been validated with the measured data of 2014. Comparison with ITU-R and GMET clearly demonstrates the improved predictability of the proposed model at the present tropical location.
RapidSCAT Sigma-0 and Tb Measurements Validation  [PDF]
Patrick Fiati
World Journal of Engineering and Technology (WJET) , 2016, DOI: 10.4236/wjet.2016.42017
Abstract: Scatterometer Radar Backscatter Calibration since the first SeaSat-A Satellite Scatterometer (Birer et al., 1982), the Amazon tropical rain forest has been recognized as a spatially large extent, homogeneous radar calibration target. During the commissioning of NSCAT (1996) and later QuikSCAT (1999), CFRSL worked with the JPL Scatterometer Cal/Val team to perform normalized radar cross section (Sigma-0) calibrations using the Amazon (see Zec et al., 1999-A and 1999-B) [1]. It is important to continue this activity using RapidSCAT to validate the Sigma-0 measurement provided in the L-1A data product, and moreover the time series of these backscatter observations can be used to establish an improved Ku-band Amazon calibration site for future on-orbit radar calibration [2]. Unfortunately, the Amazon radar backscatter (Sigma-0) exhibits a time of day dependence that is not well characterized, and for the sun-synchronous polar orbiting satellites (SeaSat-A, ADEOS-I and QuikSCAT), the observations occur at specific times of day, during the morning and night passes. But now with the low-earth-orbit of the ISS, there will be an orderly orbit precession, which allows the region to be uniformly sampled over the 24-hour period [3]. Also, since the RapidSCAT employs a conical scanning geometry, we can examine the isotropic nature of Amazon backscatter established by Zec’s (1998-A) analysis of NSCAT and later (1999-B) of QuikSCAT observations [4]. Thus, observations, collected over the RapidSCAT two-year mission will sample the Amazon with high spatial/temporal resolution, as a function of time of day, and over seasons. We propose to analyze these data to develop a high spatial resolution Sigma-0 Amazon map that can be used by future satellite radar missions.
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