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Fotis Psallidas, Bolin Ding, Kaushik Chakrabarti, Surajit Chaudhuri
2015 Proceedings of the 2015 ACM SIGMOD International Conference on Management of Data - SIGMOD '15  
Jill Hans Surface § Enter example tuples that should be in the output of the desired PJ query § The system replies with the set of PJ queries relevant to the example tuples Contributions  ...  to cover information needs • Spends a lot of time to go over the database schema and manually discover the queries in need Q: How to help the information worker discover the queries of interest?  ...  • Introducing top-k spreadsheet style search and a novel scoring model for error-tolerant but efficient PJ query discovery • Efficiently score the PJ queries using a novel Enumeration-Evaluation framework  ... 
doi:10.1145/2723372.2749452 dblp:conf/sigmod/PsallidasDCC15 fatcat:ypfirr5h7bfr3fkf3ak7h2co4i

Niffler: A Reference Architecture and System Implementation for View Discovery over Pathless Table Collections by Example [article]

Yue Gong, Zhiru Zhu, Sainyam Galhotra, Raul Castro Fernandez
2021 arXiv   pre-print
the data and input queries.  ...  We introduce algorithms for the main components of Niffler, including a signal generation component that helps reduce the size of the candidate views that may be large due to errors and ambiguity in both  ...  For example, date in the UK [15] S N N Top-k Sarma et al. [22] A N N Top-1 SQLSynthe [23] S N N Top-k Zhang et al. [24] A N N All Li et al.  ... 
arXiv:2106.01543v2 fatcat:cfkynongdffsdpn4shlwwalaba

Pytheas: Pattern-based Table Discovery in CSV Files

Christina Christodoulakis, Eric Munson, Moshe Gabel, Angela Demke Brown, Renée J. Miller
2020 Proceedings of the VLDB Endowment  
Finally, we introduce a confidence measure for table discovery and demonstrate its value for accurately identifying potential errors.  ...  While table discovery from HTML pages or spreadsheets has been studied extensively, extracting tables from CSV files still poses a considerable challenge due to their loosely defined format and limited  ...  This work was supported in part by an NSERC Discovery grant.  ... 
dblp:journals/pvldb/Christodoulakis20 fatcat:yv75ouvd5vbfvkgszvyb6yjzsi

A Systematic Literature Review of Automated Query Reformulations in Source Code Search [article]

Mohammad Masudur Rahman, Chanchal K. Roy
2021 arXiv   pre-print
Finally, we discuss several open issues in search query reformulations and suggest multiple future research opportunities.  ...  Then they execute the query with a code search engine (e.g., Lucene) and attempt to find out the exact locations within the software code that need to be changed.  ...  Hit@K determines whether there exists any ground truth within the top K results whereas recall determines the percentage of ground truth present in the top K results.  ... 
arXiv:2108.09646v1 fatcat:7eweftlz4bff5gitbru7et5644

A synteny-based draft genome sequence of the forage grassLolium perenne

Stephen L. Byrne, Istvan Nagy, Matthias Pfeifer, Ian Armstead, Suresh Swain, Bruno Studer, Klaus Mayer, Jacqueline D. Campbell, Adrian Czaban, Stephan Hentrup, Frank Panitz, Christian Bendixen (+3 others)
2015 The Plant Journal  
The genome sequence provides a valuable resource for future breeding efforts based on genomic prediction, and will accelerate the development of new varieties for more productive grasslands.  ...  Reference sequences were used as queries for BLASTP searches (Altschul et al., 1990 ) against a non-redundant database containing Viridiplantae protein sequences.  ...  Top: Design of self-incompatibility transcriptome study.  ... 
doi:10.1111/tpj.13037 pmid:26408275 fatcat:cm4dqzkh6rczlhbzuldbghzvw4

IRRODL Volume 13, Number 5

Various Authors
2012 International Review of Research in Open and Distance Learning  
This is similar to the approach used by teachers when they see suspicious wording in a student's essay; they will search for the particular sentence(s) with conventional search engines such as Google and  ...  Baldiris and colleagues design two processes to solve the problem of searching for learning objects in distributed learning object repositories and placing the learning objects into adaptive learning design  ...  Acknowledgments We would like to thank three anonymous reviewers for their constructive comments and the editors for their time and valuable remarks.  ... 
doi:10.19173/irrodl.v13i5.1424 fatcat:lpe2ose6d5dlpea4xfhtxrbldi

Whole proteome analysis of post-translational modifications: Applications of mass-spectrometry for proteogenomic annotation

N. Gupta, S. Tanner, N. Jaitly, J. N. Adkins, M. Lipton, R. Edwards, M. Romine, A. Osterman, V. Bafna, R. D. Smith, P. A. Pevzner
2007 Genome Research  
For each spectrum, the peptide with the top hit (lowest P-value) was selected. It took 2 d to search all spectra against this database on a 70-node grid.  ...  A total of 10,758 modification sites were seen with a false discovery rate of 5% (Supplemental Table S4 ). Some modifica-tions types were observed on many different sites.  ... 
doi:10.1101/gr.6427907 pmid:17690205 pmcid:PMC1950905 fatcat:kqilgsxkejfa5pkriveyxajoou

Engineering Scalable Distributed Services for Real-Time Big Data Analytics

Sahar Jambi, Kenneth M. Anderson
2017 2017 IEEE Third International Conference on Big Data Computing Service and Applications (BigDataService)  
my advisor, Professor Ken Anderson for his valuable guidance and direction.  ...  I investigate a core set of query types that can answer the wide range of queries asked by analysts who study crisis events.  ...  This query takes five parameters: lower and upper time bounds, a threshold limit or top k, and the tweet attribute for which the trend is calculated.  ... 
doi:10.1109/bigdataservice.2017.22 dblp:conf/bigdataservice/JambiA17 fatcat:ffx657klkbbqvnv7v6yztb6tfi

An approach for pipelining nested collections in scientific workflows

Timothy M. McPhillips, Shawn Bowers
2005 SIGMOD record  
Moreover, he thanks Gianluigi Greco for his recent contribution to the weighted extension, and Alfredo Mazzitelli for his valuable work in designing and implementing the tools for experiments.  ...  When you see these people, please thank them personally for their role in achieving quick reviews of submitted papers.  ...  k, for any fixed k ≥ 2.  ... 
doi:10.1145/1084805.1084809 fatcat:sgtpcat7vzc3veb4dx2jgskpte

Vol. 2, No. 3, August 2009

Editor IES
2009 International Education Studies  
her to "see the flurry of excitement among the younger students as they go about actively searching for new information from search engines on various databases on the internet".  ...  It is not an imitation but a discovery of reality," Cassirer wrote in Essay on Man.  ... 
doi:10.5539/ies.v2n3p0 fatcat:3smidj2gcbd3jlzg6dt56y5e3y

Quantitative proteome landscape of the NCI-60 cancer cell lines

Tiannan Guo, Augustin Luna, Vinodh N. Rajapakse, Ching Chiek Koh, Zhicheng Wu, Wei Liu, Yaoting Sun, Huanhuan Gao, Michael P. Menden, Chao Xu, Laurence Calzone, Loredana Martignetti (+27 others)
2019 iScience  
Here we describe a proteomic data resource for the NCI-60 cell lines generated by pressure cycling technology and SWATH mass spectrometry.  ...  We demonstrate the value of proteome data in predicting drug response for over 240 clinically relevant chemotherapeutic and targeted therapies.  ...  using topotecan as ''Response Identifier'' for the query.  ... 
doi:10.1016/j.isci.2019.10.059 pmid:31733513 pmcid:PMC6889472 fatcat:j4w2gpvfvbhydmhouvykp5quba

Brain-specific Proteins Decline in the Cerebrospinal Fluid of Humans with Huntington Disease

Qiaojun Fang, Andrew Strand, Wendy Law, Vitor M. Faca, Matthew P. Fitzgibbon, Nathalie Hamel, Benoit Houle, Xin Liu, Damon H. May, Gereon Poschmann, Line Roy, Kai Stühler (+10 others)
2008 Molecular & Cellular Proteomics  
and the patented Orbitrap TM technology; HCT-Ultra ion trap, High-Capacity Trap (HCT TM ) mass spectrometer system by Bruker Daltonics; mzXML, XML (extensible markup language)-based common file format for  ...  proteomics mass spectrometric data; FDR, false discovery rate; MAS5, Affymetrix microarray suite version 5 software; GSEA, gene set enrichment analysis; IS, internal standard; BA, Brodmann area; MA plots  ...  Acknowledgments-We thank Allan Tobin from the High Q Foundation for the suggestions and encouragement in this project and Sara Lynn Zriny for project administration. Yan Liu, Jimmy K.  ... 
doi:10.1074/mcp.m800231-mcp200 pmid:18984577 pmcid:PMC2649809 fatcat:5cbev6m4brdudm5bc4zbhv53fi

Social Networks and the Semantic Web

Peter Mika
2015 Proceedings of the 24th International Conference on World Wide Web - WWW '15 Companion  
In practice, we ask the search engine for the top N pages for both persons but in the case of the second person the order is irrelevant for the computation.  ...  For example, when searching for George Bush the beer brewer one would add the term beer to the query.  ...  Browsing Meta-Information 1998-3 Ans Steuten (TUD) A Contribution to the Linguistic Analysis of Business Conversations within the Language/Action Perspective 1998-4 Dennis Breuker (UM) Memory versus Search  ... 
doi:10.1145/2740908.2742138 dblp:conf/www/Mika15 fatcat:ptyntdmnjrc4tcayyytykwlaba

Methods for Evaluating Interactive Information Retrieval Systems with Users

Diane Kelly
2007 Foundations and Trends in Information Retrieval  
feedback and its evaluation in IR, Rorvig's [223] review of psychometric measurement in IR, Harter and Hert's [123] review of IR system evaluation, and Wang's [290] review of methodologies and methods for  ...  of how IR interaction has changed over time, Saracevic's [233] assessment of evaluation in IR, and Ingwersen and Järvelin's [139] book on information seeking and retrieval are great background reading for  ...  ; Fabrizio Sebastiani and Jamie Callan for their great patience and encouragement; and three anonymous reviewers for their careful and thoughtful comments.  ... 
doi:10.1561/1500000012 fatcat:w2ek674zgfbhlnhorrklwmbuyy

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

Brian J Haas, Alexie Papanicolaou, Moran Yassour, Manfred Grabherr, Philip D Blood, Joshua Bowden, Matthew Brian Couger, David Eccles, Bo Li, Matthias Lieber, Matthew D MacManes, Michael Ott (+11 others)
2013 Nature Protocols  
We also present Trinity's supported companion utilities for downstream applications, including RSEM for transcript abundance estimation, R/Bioconductor packages for identifying differentially expressed  ...  In an included tutorial we provide a workflow for genome-independent transcriptome analysis leveraging the Trinity platform.  ...  Acknowledgments We are grateful to David Jaffe and Sarah Young for access to additional computing resources, Zehua Chen for help in R-scripting, to Leslie Gaffney for help with figure illustrations, to  ... 
doi:10.1038/nprot.2013.084 pmid:23845962 pmcid:PMC3875132 fatcat:6wp4rzrkdfgnzadcqj7brd4vra
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