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ORCIDBibTeX records: Dan F. DeBlasio
@article{DBLP:journals/corr/abs-2311-03592,
author = {Guillaume Mar{\c{c}}ais and
Dan F. DeBlasio and
Carl Kingsford},
title = {Sketching methods with small window guarantee using minimum decycling
sets},
journal = {CoRR},
volume = {abs/2311.03592},
year = {2023},
url = {https://doi.org/10.48550/arXiv.2311.03592},
doi = {10.48550/ARXIV.2311.03592},
eprinttype = {arXiv},
eprint = {2311.03592},
timestamp = {Tue, 14 Nov 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2311-03592.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/stoc/BalcanDDKSV21,
author = {Maria{-}Florina Balcan and
Dan F. DeBlasio and
Travis Dick and
Carl Kingsford and
Tuomas Sandholm and
Ellen Vitercik},
editor = {Samir Khuller and
Virginia Vassilevska Williams},
title = {How much data is sufficient to learn high-performing algorithms? generalization
guarantees for data-driven algorithm design},
booktitle = {{STOC} '21: 53rd Annual {ACM} {SIGACT} Symposium on Theory of Computing,
Virtual Event, Italy, June 21-25, 2021},
pages = {919--932},
publisher = {{ACM}},
year = {2021},
url = {https://doi.org/10.1145/3406325.3451036},
doi = {10.1145/3406325.3451036},
timestamp = {Sat, 08 Jan 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/stoc/BalcanDDKSV21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcb/DeBlasioKK20,
author = {Dan F. DeBlasio and
Kwanho Kim and
Carl Kingsford},
title = {More Accurate Transcript Assembly via Parameter Advising},
journal = {J. Comput. Biol.},
volume = {27},
number = {8},
pages = {1181--1189},
year = {2020},
url = {https://doi.org/10.1089/cmb.2019.0286},
doi = {10.1089/CMB.2019.0286},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcb/DeBlasioKK20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/MarcaisDPK19,
author = {Guillaume Mar{\c{c}}ais and
Dan F. DeBlasio and
Prashant Pandey and
Carl Kingsford},
title = {Locality-sensitive hashing for the edit distance},
journal = {Bioinform.},
volume = {35},
number = {14},
pages = {i127--i135},
year = {2019},
url = {https://doi.org/10.1093/bioinformatics/btz354},
doi = {10.1093/BIOINFORMATICS/BTZ354},
timestamp = {Tue, 06 Sep 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/MarcaisDPK19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bcb/DeBlasioGKM19,
author = {Dan F. DeBlasio and
Fiyinfoluwa Gbosibo and
Carl Kingsford and
Guillaume Mar{\c{c}}ais},
editor = {Xinghua Mindy Shi and
Michael Buck and
Jian Ma and
Pierangelo Veltri},
title = {Practical Universal k-mer Sets for Minimizer Schemes},
booktitle = {Proceedings of the 10th {ACM} International Conference on Bioinformatics,
Computational Biology and Health Informatics, {BCB} 2019, Niagara
Falls, NY, USA, September 7-10, 2019},
pages = {167--176},
publisher = {{ACM}},
year = {2019},
url = {https://doi.org/10.1145/3307339.3342144},
doi = {10.1145/3307339.3342144},
timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/bcb/DeBlasioGKM19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1908-02894,
author = {Maria{-}Florina Balcan and
Dan F. DeBlasio and
Travis Dick and
Carl Kingsford and
Tuomas Sandholm and
Ellen Vitercik},
title = {How much data is sufficient to learn high-performing algorithms?},
journal = {CoRR},
volume = {abs/1908.02894},
year = {2019},
url = {http://arxiv.org/abs/1908.02894},
eprinttype = {arXiv},
eprint = {1908.02894},
timestamp = {Fri, 09 Aug 2019 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-1908-02894.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/MarcaisDK18,
author = {Guillaume Mar{\c{c}}ais and
Dan F. DeBlasio and
Carl Kingsford},
title = {Asymptotically optimal minimizers schemes},
journal = {Bioinform.},
volume = {34},
number = {13},
pages = {i13--i22},
year = {2018},
url = {https://doi.org/10.1093/bioinformatics/bty258},
doi = {10.1093/BIOINFORMATICS/BTY258},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/MarcaisDK18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/HassanNDFSPCSMF18,
author = {Mehedi Hassan and
Aishwarya Alex Namasivayam and
Dan F. DeBlasio and
Nazeefa Fatima and
Benjamin Siranosian and
R. Gonzalo Parra and
Bart Cuypers and
Sayane Shome and
Alexander Miguel Monzon and
Julien Fumey and
Farzana Rahman},
title = {Reflections on a journey: a retrospective of the {ISCB} Student Council
symposium series},
journal = {{BMC} Bioinform.},
volume = {19-S},
number = {12},
pages = {347:1--347:8},
year = {2018},
url = {https://doi.org/10.1186/s12859-018-2369-x},
doi = {10.1186/S12859-018-2369-X},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/HassanNDFSPCSMF18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcb/DeBlasioK18,
author = {Dan F. DeBlasio and
John D. Kececioglu},
title = {Adaptive Local Realignment of Protein Sequences},
journal = {J. Comput. Biol.},
volume = {25},
number = {7},
pages = {780--793},
year = {2018},
url = {https://doi.org/10.1089/cmb.2018.0045},
doi = {10.1089/CMB.2018.0045},
timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcb/DeBlasioK18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/JigishaFRFDSSSK18,
author = {Anupama Jigisha and
Margherita Francescatto and
Farzana Rahman and
Nazeefa Fatima and
Dan F. DeBlasio and
Avinash Kumar Shanmugam and
Venkata P. Satagopam and
Alberto Santos and
Pandurang Kolekar and
Magali Michaut and
Emre Guney},
title = {The {ISCB} Student Council Internship Program: Expanding computational
biology capacity worldwide},
journal = {PLoS Comput. Biol.},
volume = {14},
number = {1},
year = {2018},
url = {https://doi.org/10.1371/journal.pcbi.1005802},
doi = {10.1371/JOURNAL.PCBI.1005802},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/JigishaFRFDSSSK18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@book{DBLP:series/cb/DeBlasioK17,
author = {Dan F. DeBlasio and
John D. Kececioglu},
title = {Parameter Advising for Multiple Sequence Alignment},
series = {Computational Biology},
volume = {26},
publisher = {Springer},
year = {2017},
url = {https://doi.org/10.1007/978-3-319-64918-4},
doi = {10.1007/978-3-319-64918-4},
isbn = {978-3-319-64917-7},
timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/series/cb/DeBlasioK17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/DeBlasioK17,
author = {Dan F. DeBlasio and
John D. Kececioglu},
title = {Core column prediction for protein multiple sequence alignments},
journal = {Algorithms Mol. Biol.},
volume = {12},
number = {1},
pages = {11:1--11:16},
year = {2017},
url = {https://doi.org/10.1186/s13015-017-0102-3},
doi = {10.1186/S13015-017-0102-3},
timestamp = {Fri, 13 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/almob/DeBlasioK17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/DeBlasioK17,
author = {Dan F. DeBlasio and
John D. Kececioglu},
title = {Learning Parameter-Advising Sets for Multiple Sequence Alignment},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {14},
number = {5},
pages = {1028--1041},
year = {2017},
url = {https://doi.org/10.1109/TCBB.2015.2430323},
doi = {10.1109/TCBB.2015.2430323},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/DeBlasioK17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/recomb/DeBlasioK17,
author = {Dan F. DeBlasio and
John D. Kececioglu},
editor = {S{\"{u}}leyman Cenk Sahinalp},
title = {Boosting Alignment Accuracy by Adaptive Local Realignment},
booktitle = {Research in Computational Molecular Biology - 21st Annual International
Conference, {RECOMB} 2017, Hong Kong, China, May 3-7, 2017, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {10229},
pages = {1--17},
year = {2017},
url = {https://doi.org/10.1007/978-3-319-56970-3\_1},
doi = {10.1007/978-3-319-56970-3\_1},
timestamp = {Sat, 30 May 2020 20:04:52 +0200},
biburl = {https://dblp.org/rec/conf/recomb/DeBlasioK17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@phdthesis{DBLP:phd/basesearch/DeBlasio16,
author = {Dan F. DeBlasio},
title = {Parameter Advising for Multiple Sequence Alignment},
school = {University of Arizona, Tucson, {USA}},
year = {2016},
url = {https://hdl.handle.net/10150/612932},
timestamp = {Wed, 04 May 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/phd/basesearch/DeBlasio16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/WilkinsHFJPCDJJRLWTMRCRSGSBSTMLLR16,
author = {Katie Wilkins and
Mehedi Hassan and
Margherita Francescatto and
Jakob B. Jespersen and
R. Gonzalo Parra and
Bart Cuypers and
Dan F. DeBlasio and
Alexander Junge and
Anupama Jigisha and
Farzana Rahman and
Griet Laenen and
Sander Willems and
Lieven Thorrez and
Yves Moreau and
Nagarajan Raju and
Sonia P. Chothani and
C. Ramakrishnan and
Masakazu Sekijima and
M. Michael Gromiha and
Paddy J. Slator and
Nigel J. Burroughs and
Przemyslaw Szalaj and
Zhonghui Tang and
Paul J. Michalski and
Oskar Luo and
Xingwang Li and
Yijun Ruan and
Dariusz Plewczynski and
Giulia Fiscon and
Emanuel Weitschek and
Massimo Ciccozzi and
Paola Bertolazzi and
Giovanni Felici and
Pieter Meysman and
Manu Vanaerschot and
Maya Berg and
Hideo Imamura and
Jean{-}Claude Dujardin and
Kris Laukens and
Westa Domanova and
James R. Krycer and
Rima Chaudhuri and
Pengyi Yang and
Fatemeh Vafaee and
Daniel J. Fazakerley and
Sean J. Humphrey and
David E. James and
Zdenka Kuncic},
title = {Highlights from the 11th {ISCB} Student Council Symposium 2015: Dublin,
Ireland. 10 July 2015},
journal = {{BMC} Bioinform.},
volume = {17},
number = {{S-3}},
year = {2016},
url = {https://doi.org/10.1186/s12859-016-0901-4},
doi = {10.1186/S12859-016-0901-4},
timestamp = {Fri, 08 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/WilkinsHFJPCDJJRLWTMRCRSGSBSTMLLR16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bcb/DeBlasioK16,
author = {Dan F. DeBlasio and
John D. Kececioglu},
title = {Adaptive Local Realignment via Parameter Advising},
booktitle = {Proceedings of the 7th {ACM} International Conference on Bioinformatics,
Computational Biology, and Health Informatics, {BCB} 2016, Seattle,
WA, USA, October 2-5, 2016},
pages = {510--511},
publisher = {{ACM}},
year = {2016},
url = {https://doi.org/10.1145/2975167.2985659},
doi = {10.1145/2975167.2985659},
timestamp = {Tue, 06 Nov 2018 16:59:10 +0100},
biburl = {https://dblp.org/rec/conf/bcb/DeBlasioK16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/wabi/DeBlasioK16,
author = {Dan F. DeBlasio and
John D. Kececioglu},
editor = {Martin C. Frith and
Christian N{\o}rgaard Storm Pedersen},
title = {Predicting Core Columns of Protein Multiple Sequence Alignments for
Improved Parameter Advising},
booktitle = {Algorithms in Bioinformatics - 16th International Workshop, {WABI}
2016, Aarhus, Denmark, August 22-24, 2016. Proceedings},
series = {Lecture Notes in Computer Science},
volume = {9838},
pages = {77--89},
publisher = {Springer},
year = {2016},
url = {https://doi.org/10.1007/978-3-319-43681-4\_7},
doi = {10.1007/978-3-319-43681-4\_7},
timestamp = {Tue, 14 May 2019 10:00:40 +0200},
biburl = {https://dblp.org/rec/conf/wabi/DeBlasioK16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/RahmanWJJVDJD15,
author = {Farzana Rahman and
Katie Wilkins and
Annika Jacobsen and
Alexander Junge and
Esmeralda Vicedo and
Dan F. DeBlasio and
Anupama Jigisha and
Tom{\'{a}}s Di Domenico},
title = {Highlights from the tenth {ISCB} Student Council Symposium 2014},
journal = {{BMC} Bioinform.},
volume = {16},
number = {{S-2}},
pages = {A1},
year = {2015},
url = {https://doi.org/10.1186/1471-2105-16-S2-A1},
doi = {10.1186/1471-2105-16-S2-A1},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/RahmanWJJVDJD15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/DeBlasioK15,
author = {Dan F. DeBlasio and
John D. Kececioglu},
title = {Parameter advising for multiple sequence alignment},
journal = {{BMC} Bioinform.},
volume = {16},
number = {{S-2}},
pages = {A3},
year = {2015},
url = {https://doi.org/10.1186/1471-2105-16-S2-A3},
doi = {10.1186/1471-2105-16-S2-A3},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/DeBlasioK15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bcb/DeBlasioK15,
author = {Dan F. DeBlasio and
John D. Kececioglu},
title = {Ensemble multiple sequence alignment via advising},
booktitle = {Proceedings of the 6th {ACM} Conference on Bioinformatics, Computational
Biology and Health Informatics, {BCB} 2015, Atlanta, GA, USA, September
9-12, 2015},
pages = {452--461},
publisher = {{ACM}},
year = {2015},
url = {https://doi.org/10.1145/2808719.2808766},
doi = {10.1145/2808719.2808766},
timestamp = {Tue, 06 Nov 2018 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/bcb/DeBlasioK15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bcb/DeBlasioK14,
author = {Dan F. DeBlasio and
John D. Kececioglu},
editor = {Pierre Baldi and
Wei Wang},
title = {Learning parameter sets for alignment advising},
booktitle = {Proceedings of the 5th {ACM} Conference on Bioinformatics, Computational
Biology, and Health Informatics, {BCB} '14, Newport Beach, California,
USA, September 20-23, 2014},
pages = {230--239},
publisher = {{ACM}},
year = {2014},
url = {https://doi.org/10.1145/2649387.2649448},
doi = {10.1145/2649387.2649448},
timestamp = {Tue, 06 Nov 2018 16:59:10 +0100},
biburl = {https://dblp.org/rec/conf/bcb/DeBlasioK14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcb/KececiogluD13,
author = {John D. Kececioglu and
Dan F. DeBlasio},
title = {Accuracy Estimation and Parameter Advising for Protein Multiple Sequence
Alignment},
journal = {J. Comput. Biol.},
volume = {20},
number = {4},
pages = {259--279},
year = {2013},
url = {https://doi.org/10.1089/cmb.2013.0007},
doi = {10.1089/CMB.2013.0007},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcb/KececiogluD13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/DeBlasioBZ12,
author = {Daniel DeBlasio and
Jocelyne Bruand and
Shaojie Zhang},
title = {A Memory Efficient Method for Structure-Based {RNA} Multiple Alignment},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {9},
number = {1},
pages = {1--11},
year = {2012},
url = {https://doi.org/10.1109/TCBB.2011.86},
doi = {10.1109/TCBB.2011.86},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/DeBlasioBZ12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/recomb/DeBlasioWK12,
author = {Dan F. DeBlasio and
Travis J. Wheeler and
John D. Kececioglu},
editor = {Benny Chor},
title = {Estimating the Accuracy of Multiple Alignments and its Use in Parameter
Advising},
booktitle = {Research in Computational Molecular Biology - 16th Annual International
Conference, {RECOMB} 2012, Barcelona, Spain, April 21-24, 2012. Proceedings},
series = {Lecture Notes in Computer Science},
volume = {7262},
pages = {45--59},
publisher = {Springer},
year = {2012},
url = {https://doi.org/10.1007/978-3-642-29627-7\_5},
doi = {10.1007/978-3-642-29627-7\_5},
timestamp = {Mon, 13 May 2019 09:30:09 +0200},
biburl = {https://dblp.org/rec/conf/recomb/DeBlasioWK12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/wabi/DeBlasioBZ09,
author = {Daniel DeBlasio and
Jocelyne Bruand and
Shaojie Zhang},
editor = {Steven Salzberg and
Tandy J. Warnow},
title = {PMFastR: {A} New Approach to Multiple {RNA} Structure Alignment},
booktitle = {Algorithms in Bioinformatics, 9th International Workshop, {WABI} 2009,
Philadelphia, PA, USA, September 12-13, 2009. Proceedings},
series = {Lecture Notes in Computer Science},
volume = {5724},
pages = {49--61},
publisher = {Springer},
year = {2009},
url = {https://doi.org/10.1007/978-3-642-04241-6\_5},
doi = {10.1007/978-3-642-04241-6\_5},
timestamp = {Tue, 14 May 2019 10:00:40 +0200},
biburl = {https://dblp.org/rec/conf/wabi/DeBlasioBZ09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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