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A Scalable Peer-to-Peer Architecture for Distributed Information Monitoring Applications

B. Gedik, Ling Liu
2005 IEEE transactions on computers  
Second, we introduce an effective service partitioning scheme at the P2P protocol layer to distribute the processing of CQs over a peer-to-peer information monitoring overlay network while maintaining  ...  reliable processing of a large number of CQs over a network of loosely coupled, heterogeneous, and possibly unreliable nodes (peers).  ...  ACKNOWLEDGMENTS This work is partially supported by the US National Science Foundation (NSF) under a CNS Grant, an ITR grant, a Research Infrastructure grant, and a US Department of Energy (DoE) SciDAC  ... 
doi:10.1109/tc.2005.87 fatcat:6snsdjpiwzelribjsr42rktf4q

freqpcr: interval estimation of population allele frequency based on quantitative PCR ΔΔCq measures from bulk samples [article]

Masaaki Sudo, Masahiro Osakabe
2021 bioRxiv   pre-print
PCR techniques, both quantitative (qPCR) and non-quantitative, have been used to estimate allele frequency in a population.  ...  We assumed a gamma distribution as the individual DNA yield and developed an R package for parameter estimation, which was verified with real DNA samples from acaricide-resistant spider mites, as well  ...  applications for diagnostic use, ΔΔCq is often used with calibration.  ... 
doi:10.1101/2021.01.19.427228 fatcat:i5xqgn2mqnexvofl3dt5nar3la

Chloroquine and Hydroxychloroquine Interact Differently with ACE2 Domains Reported to Bind with the Coronavirus Spike Protein: Mediation by ACE2 Polymorphism

Riadh Badraoui, Mohd Adnan, Fevzi Bardakci, Mousa M. Alreshidi
2021 Molecules  
Chloroquine (CQ) and its metabolite hydroxychloroquine (HCQ) are mainly used to prevent and treat malaria and rheumatic diseases.  ...  Further explorations of the relationship and the interactions between ACE2 polymorphism and CQ/HCQ would certainly help to better understand the COVID-19 management strategies, particularly their use in  ...  Then, the processed proteins with polar hydrogens and Coleman charges were used to generate different poses. Regarding chirality, (S)-enantiomers particularly S-13a, of both CQ and HCQ were used.  ... 
doi:10.3390/molecules26030673 pmid:33525415 fatcat:nq6ovewh6fe2rehaxth7f5aiou

Pairwise Efficiency: A new mathematical approach to qPCR data analysis increases the precision of the classical calibration curve assay [article]

Yulia Panina, Arno Germond, Gracy Brit David, Tomonobu M Watanabe
2018 bioRxiv   pre-print
The real-time quantitative polymerase chain reaction (qPCR) is routinely used for quantification of nucleic acids and is considered the gold standard in the field of relative nucleic acid measurements.  ...  The efficiency of the qPCR reaction is one of the most important parameters that needs to be determined, reported, and incorporated into data analysis in any qPCR experiment.  ...  and E) and "all calculate a target quantity using an efficiency value and a Cq value" (6) .  ... 
doi:10.1101/399337 fatcat:2t56z5r4cncp7okc5soudvfape

Distributed Iterative Solution of Numerical Simulation Problems on Infiniband and Ethernet Clusters via the P2PSAP Self-Adaptive Protocol

S. R. Tembo, The Tung Nguyen, D. El Baz
2013 2013 21st Euromicro International Conference on Parallel, Distributed, and Network-Based Processing  
New functionalities of the P2PSAP communication protocol aimed at using Infiniband clusters are presented. A series of computational results is presented and analyzed.  ...  It has been designed for the solution of large scale numerical simulation problems via distributed iterative algorithms.  ...  Experiments presented in this paper were carried out using the Grid'5000 experimental testbed.  ... 
doi:10.1109/pdp.2013.25 dblp:conf/pdp/TemboNB13 fatcat:cd5c6r6iwfez5dockuze7nk3vy

Swab pooling for large-scale RT-qPCR screening of SARS-CoV-2 [article]

Ana Paula Christoff, Giuliano Netto Flores Cruz, Aline Fernanda Rodrigues Sereia, Dellyana Rodrigues Boberg, Daniela Carolina de Bastiani, Lais Eiko Yamanaka, Gislaine Fongaro, Patricia Hermes Stoco, Maria Luiza Bazzo, Edmundo Carlos Grisard, Camila Hernandes, Luiz Felipe Valter de Oliveira
2020 medRxiv   pre-print
Mean Cq differences between individual and corresponding pool samples ranged from 0.1 Cq (Cr.I. -0.98 to 1.17) to 2.09 Cq (Cr.I. 1.24 to 2.94).  ...  Overall, 19,535 asymptomatic and presymptomatic patients were screened using 4,400 RT-qPCR assays, resulting in 246 positive patients (positivity rate 1.26%).  ...  (B) Expected Cq variations (ΔCq) for sample pooling methods with 10, 16 or 32 samples compared to swab pooling in different amplification efficiencies.  ... 
doi:10.1101/2020.09.03.20187732 fatcat:mogb3n5zkjdpfb2y4cmt4z3udq

Targeted Delivery of Chloroquine to Plasmacytoid Dendritic Cells Enhances Inhibition of the Type I Interferon Response [article]

Marilyn E Allen, Amit Golding, Violeta Rus, Nicholas B Karabin, Sophia Li, Chamille Lescott, Sharan Bobbala, Evan A Scott, Gregory L Szeto
2021 bioRxiv   pre-print
Antimalarial drugs, such as chloroquine (CQ), are TLR antagonists used to alleviate inflammation in SLE.  ...  using real-time RT-qPCR.  ...  Porter Imaging Facility and Wonseok Hwang for SAXS assistance at the University of Maryland, College Park X-ray Crystallographic Center. was not certified by peer review) is the author/funder.  ... 
doi:10.1101/2021.06.09.447773 fatcat:k5ktm5depfelzekj22b5ebkb2i

Auto-regressive modeling and diagnostics for qPCR amplification [article]

Benjamin Hsu, Valeriia Sherina, Matthew N McCall
2019 bioRxiv   pre-print
Commonly-used 4- and 5-parameter sigmoidal models appear to be particularly susceptible to this issue, often displaying patterns of autocorrelation in the residuals.  ...  Current methods used to analyze real-time quantitative polymerase chain reaction (qPCR) data exhibit systematic deviations from the assumed model over the progression of the reaction.  ...  Figure 5 . 5 (Durbin-Watson Test Statistic for Residuals) Heat map with overlay of contour plot for the density distribution of Durbin-Watson test statistic and Cq value using the SDM.  ... 
doi:10.1101/665596 fatcat:trb6zbp4k5cbrp6vjmtvxh6v2q

Confidentiality and integrity for data aggregation in WSN using peer monitoring

Roberto Di Pietro, Pietro Michiardi, Refik Molva
2009 Security and Communication Networks  
Hop-by-hop data aggregation is a very important technique used to reduce the communication overhead and energy expenditure of sensor nodes during the process of data collection in a Wireless Sensor Network  ...  Our protocol is based on the concept of delayed aggregation and peer monitoring and requires local interactions only.  ...  Peer monitoring nodes are used to verify that the aggregation process is carried out correctly, i.e. they detect the subversive activity aiming at compromising the integrity of the aggregated data.  ... 
doi:10.1002/sec.93 fatcat:abdoquoznbcsfpfu4i7jtjt6l4

Open problems in data collection networks

Jonathan Ledlie, Jeff Shneidman, Matt Welsh, Mema Roussopoulos, Margo Seltzer
2004 Proceedings of the 11th workshop on ACM SIGOPS European workshop: beyond the PC - EW11  
CQ, peer-to-peer (P2P), and other research areas are building top down, examining in-network services, naming, decentralized queries, and scale.  ...  While many research groups use the same types of applications to motivate their work, many of these applications cannot be built today because of missing bridge research.  ...  Efficiency is gained by intelligently inferring events from the sensed data using in-network processing [14] .  ... 
doi:10.1145/1133572.1133575 dblp:conf/sigopsE/LedlieSWRS04 fatcat:f4kfne52pjbgxpj5wioexgoqqq

Logical foundations of peer-to-peer data integration

Diego Calvanese, Giuseppe De Giacomo, Maurizio Lenzerini, Riccardo Rosati
2004 Proceedings of the twenty-third ACM SIGMOD-SIGACT-SIGART symposium on Principles of database systems - PODS '04  
In this paper, we compare the commonly adopted approach of interpreting peerto-peer systems using a first-order semantics, with an alternative approach based on epistemic logic.  ...  In peer-to-peer data integration, each peer exports data in terms of its own schema, and data interoperation is achieved by means of mappings among the peer schemas.  ...  A P-Grid is a virtual binary tree that distributes replication over community of peers and supports efficient search.  ... 
doi:10.1145/1055558.1055593 dblp:conf/pods/CalvaneseGLR04 fatcat:cnoyyzlocff7dkvwy2giw4ch7i

Optimized CRISPR tools and site-directed transgenesis in Culex quinquefasciatus mosquitoes for gene drive development [article]

Xuechun Feng, Victor Lopez Del Amo, Enzo Mameli, Megan Lee, Alena Lauren Bishop, Norbert Perrimon, Valentino Matteo Gantz
2021 bioRxiv   pre-print
We showed that gRNA scaffold variants improve transgenesis efficiency in both Culex and Drosophila and boost gene-drive performance in the fruit fly.  ...  Here, we developed a Culex-specific Cas9/gRNA expression toolkit and used site-directed homology-based transgenesis to generate and validate a Culex quinquefasciatus Cas9-expressing line.  ...  Histogram bars represent the mean; error bars and dots represent SD and distribution of 3 biological replicates. Cq = C. quinquefasciatus ; Dm = D. melanogaster ; Aa = Ae. Aegypti.  ... 
doi:10.1101/2021.02.10.430702 fatcat:ktizdbadqvbvtjczbtyndwv2vq

Potential Early Rabies Infection Detected in Two Raccoon Cases by LN34 pan-lyssavirus real-time RT-PCR Assay in Pennsylvania [article]

Lisa Dettinger, Crystal Marie Gigante, Maria Strohecker, Melanie Seiders, Puja Patel, Lillian Ann Orciari, Pamela Yager, James Lute, Annette Regec, Yu Li, Dongxiang Xia
2021 bioRxiv   pre-print
During 2017 - 2019, the Pennsylvania Department of Health Bureau of Laboratories (PABOL) tested 6,855 animal samples for rabies using both the gold standard direct fluorescent antibody (DFA) test and LN34  ...  Cross-contamination was ruled out in the case of the 2019 juvenile raccoon by sequencing, as nucleoprotein and glycoprotein gene sequences displayed >1% nucleotide differences to sequences from all positive samples processed  ...  Amount of target 103 was estimated as 1.93 -ΔΔCq , based on the efficiency of the LN34 assay as 93% for rabies virus based on 104 previous estimation (14) .  ... 
doi:10.1101/2021.02.01.429287 fatcat:2kj32bajqzeenmapa5vbll64wa

Efficient Processing of XPath Queries with Structured Overlay Networks [chapter]

Gleb Skobeltsyn, Manfred Hauswirth, Karl Aberer
2005 Lecture Notes in Computer Science  
Though the use of a distributed index (typically a distributed hash table) makes the implementation of structured queries more efficient, it also introduces considerable complexity, and thus only a few  ...  Structured P2P systems are an efficient alternative as they typically offer logarithmic search complexity in the number of peers.  ...  Conclusions In this paper we presented the efficient solution for indexing structural information in a structured overlay network used as distributed P2P storage of XML documents.  ... 
doi:10.1007/11575801_20 fatcat:i6q2wdwwjjdt3kpykyjyowevl4

An Indexing Method of Continuous Spatiotemporal Queries for Stream Data Processing Rules of Detected Target Objects

Muhammad Habibur Rahman, Bonghee Hong, Hari Setiawan, Sanghyun Lee, Dongjun Lim, Woochan Kim
2021 Sensors  
For performance measurement, processing time was measured for the change in the number of rules, the change in the number of objects, and the distribution of objects.  ...  Real-time performance is important in rule-based continuous spatiotemporal query processing for risk analysis and decision making of target objects collected by sensors of combat vessels.  ...  Hence, the rule processing performance was not efficient when the number of rules was significant.  ... 
doi:10.3390/s21238013 pmid:34884018 fatcat:kq75yhhgyfbitblt3jqzhowixe
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