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ORCIDBibTeX records: Evan E. Eichler
@article{DBLP:journals/bioinformatics/DishuckRLPE23,
author = {Philip C. Dishuck and
Allison N. Rozanski and
Glennis Logsdon and
David Porubsky and
Evan E. Eichler},
title = {{GAVISUNK:} genome assembly validation via inter-SUNK distances in
Oxford Nanopore reads},
journal = {Bioinform.},
volume = {39},
number = {1},
year = {2023},
url = {https://doi.org/10.1093/bioinformatics/btac714},
doi = {10.1093/BIOINFORMATICS/BTAC714},
timestamp = {Fri, 15 Mar 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/DishuckRLPE23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/VollgerKPE22,
author = {Mitchell R. Vollger and
Peter Kerpedjiev and
Adam M. Phillippy and
Evan E. Eichler},
title = {StainedGlass: interactive visualization of massive tandem repeat structures
with identity heatmaps},
journal = {Bioinform.},
volume = {38},
number = {7},
pages = {2049--2051},
year = {2022},
url = {https://doi.org/10.1093/bioinformatics/btac018},
doi = {10.1093/BIOINFORMATICS/BTAC018},
timestamp = {Thu, 23 Jun 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/VollgerKPE22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/GhareghaniPSMEK18,
author = {Maryam Ghareghani and
David Porubsky and
Ashley D. Sanders and
Sascha Meiers and
Evan E. Eichler and
Jan O. Korbel and
Tobias Marschall},
title = {Strand-seq enables reliable separation of long reads by chromosome
via expectation maximization},
journal = {Bioinform.},
volume = {34},
number = {13},
pages = {i115--i123},
year = {2018},
url = {https://doi.org/10.1093/bioinformatics/bty290},
doi = {10.1093/BIOINFORMATICS/BTY290},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/GhareghaniPSMEK18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/TurnerYKHHSDBNE17,
author = {Tychele Turner and
Qian Yi and
Niklas Krumm and
John Huddleston and
Kendra Hoekzema and
Holly A. Stessman and
Anna{-}Lisa Doebley and
Raphael A. Bernier and
Deborah A. Nickerson and
Evan E. Eichler},
title = {denovo-db: a compendium of human de novo variants},
journal = {Nucleic Acids Res.},
volume = {45},
number = {Database-Issue},
pages = {D804--D811},
year = {2017},
url = {https://doi.org/10.1093/nar/gkw865},
doi = {10.1093/NAR/GKW865},
timestamp = {Sun, 25 Jul 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/TurnerYKHHSDBNE17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/recomb/ChaissonMKE17,
author = {Mark J. P. Chaisson and
Sudipto Mukherjee and
Sreeram Kannan and
Evan E. Eichler},
editor = {S{\"{u}}leyman Cenk Sahinalp},
title = {Resolving Multicopy Duplications de novo Using Polyploid Phasing},
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 = {117--133},
year = {2017},
url = {https://doi.org/10.1007/978-3-319-56970-3\_8},
doi = {10.1007/978-3-319-56970-3\_8},
timestamp = {Thu, 26 Jan 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/recomb/ChaissonMKE17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/DaoNLHKDCES14,
author = {Phuong Dao and
Ibrahim Numanagic and
Yen{-}Yi Lin and
Faraz Hach and
Emre Karako{\c{c}} and
Nilgun Donmez and
Colin C. Collins and
Evan E. Eichler and
S{\"{u}}leyman Cenk Sahinalp},
title = {{ORMAN:} Optimal resolution of ambiguous RNA-Seq multimappings in
the presence of novel isoforms},
journal = {Bioinform.},
volume = {30},
number = {5},
pages = {644--651},
year = {2014},
url = {https://doi.org/10.1093/bioinformatics/btt591},
doi = {10.1093/BIOINFORMATICS/BTT591},
timestamp = {Sun, 25 Jul 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/DaoNLHKDCES14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/HachSHAES14,
author = {Faraz Hach and
Iman Sarrafi and
Farhad Hormozdiari and
Can Alkan and
Evan E. Eichler and
S{\"{u}}leyman Cenk Sahinalp},
title = {mrsFAST-Ultra: a compact, SNP-aware mapper for high performance sequencing
applications},
journal = {Nucleic Acids Res.},
volume = {42},
number = {Webserver-Issue},
pages = {494--500},
year = {2014},
url = {https://doi.org/10.1093/nar/gku370},
doi = {10.1093/NAR/GKU370},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/HachSHAES14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nature/IossifovOSRKLSW14,
author = {Ivan Iossifov and
Brian J. O'Roak and
Stephan J. Sanders and
Michael Ronemus and
Niklas Krumm and
Dan Levy and
Holly A. Stessman and
Kali T. Witherspoon and
Laura Vives and
Karynne E. Patterson and
Joshua D. Smith and
Bryan Paeper and
Deborah A. Nickerson and
Jeanselle Dea and
Shan Dong and
Luis E. Gonzalez and
Jeffrey D. Mandell and
Shrikant M. Mane and
Michael T. Murtha and
Catherine A. Sullivan and
Michael F. Walker and
Zainulabedin Waqar and
Liping Wei and
A. Jeremy Willsey and
Boris Yamrom and
Yoon{-}ha Lee and
Ewa Grabowska and
Ertugrul Dalkic and
Zi{-}Hua Wang and
Steven Marks and
Peter Andrews and
Anthony Leotta and
Jude Kendall and
Inessa Hakker and
Julie Rosenbaum and
Beicong Ma and
Linda Rodgers and
Jennifer Troge and
Giuseppe Narzisi and
Seungtai Yoon and
Michael C. Schatz and
Kenny Ye and
W. Richard McCombie and
Jay Shendure and
Evan E. Eichler and
Matthew W. State and
Michael Wigler},
title = {The contribution of \emph{de novo} coding mutations to autism spectrum
disorder},
journal = {Nat.},
volume = {515},
number = {7526},
pages = {216--221},
year = {2014},
url = {https://doi.org/10.1038/nature13908},
doi = {10.1038/NATURE13908},
timestamp = {Sun, 12 Nov 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nature/IossifovOSRKLSW14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/HormozdiariHSEA12,
author = {Farhad Hormozdiari and
Faraz Hach and
S{\"{u}}leyman Cenk Sahinalp and
Evan E. Eichler and
Can Alkan},
title = {Sensitive and fast mapping of di-base encoded reads},
journal = {Bioinform.},
volume = {28},
number = {1},
pages = {150},
year = {2012},
url = {https://doi.org/10.1093/bioinformatics/btr647},
doi = {10.1093/BIOINFORMATICS/BTR647},
timestamp = {Sun, 25 Jul 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/HormozdiariHSEA12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/HormozdiariHSEA11,
author = {Farhad Hormozdiari and
Faraz Hach and
S{\"{u}}leyman Cenk Sahinalp and
Evan E. Eichler and
Can Alkan},
title = {Sensitive and fast mapping of di-base encoded reads},
journal = {Bioinform.},
volume = {27},
number = {14},
pages = {1915--1921},
year = {2011},
url = {https://doi.org/10.1093/bioinformatics/btr303},
doi = {10.1093/BIOINFORMATICS/BTR303},
timestamp = {Sun, 25 Jul 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/HormozdiariHSEA11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/recomb/HormozdiariHMES11,
author = {Fereydoun Hormozdiari and
Iman Hajirasouliha and
Andrew W. McPherson and
Evan E. Eichler and
S{\"{u}}leyman Cenk Sahinalp},
editor = {Vineet Bafna and
S{\"{u}}leyman Cenk Sahinalp},
title = {Simultaneous Structural Variation Discovery in Multiple Paired-End
Sequenced Genomes},
booktitle = {Research in Computational Molecular Biology - 15th Annual International
Conference, {RECOMB} 2011, Vancouver, BC, Canada, March 28-31, 2011.
Proceedings},
series = {Lecture Notes in Computer Science},
volume = {6577},
pages = {104--105},
publisher = {Springer},
year = {2011},
url = {https://doi.org/10.1007/978-3-642-20036-6\_11},
doi = {10.1007/978-3-642-20036-6\_11},
timestamp = {Thu, 10 Oct 2019 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/recomb/HormozdiariHMES11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ZerrCEN10,
author = {Troy Zerr and
Gregory M. Cooper and
Evan E. Eichler and
Deborah A. Nickerson},
title = {Targeted interrogation of copy number variation using SCIMMkit},
journal = {Bioinform.},
volume = {26},
number = {1},
pages = {120--122},
year = {2010},
url = {https://doi.org/10.1093/bioinformatics/btp606},
doi = {10.1093/BIOINFORMATICS/BTP606},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/ZerrCEN10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/HajirasoulihaHAKBES10,
author = {Iman Hajirasouliha and
Fereydoun Hormozdiari and
Can Alkan and
Jeffrey M. Kidd and
Inan{\c{c}} Birol and
Evan E. Eichler and
S{\"{u}}leyman Cenk Sahinalp},
title = {Detection and characterization of novel sequence insertions using
paired-end next-generation sequencing},
journal = {Bioinform.},
volume = {26},
number = {10},
pages = {1277--1283},
year = {2010},
url = {https://doi.org/10.1093/bioinformatics/btq152},
doi = {10.1093/BIOINFORMATICS/BTQ152},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/HajirasoulihaHAKBES10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/HormozdiariHDHYAES10,
author = {Fereydoun Hormozdiari and
Iman Hajirasouliha and
Phuong Dao and
Faraz Hach and
Deniz Y{\"{o}}r{\"{u}}koglu and
Can Alkan and
Evan E. Eichler and
S{\"{u}}leyman Cenk Sahinalp},
title = {Next-generation VariationHunter: combinatorial algorithms for transposon
insertion discovery},
journal = {Bioinform.},
volume = {26},
number = {12},
pages = {350--357},
year = {2010},
url = {https://doi.org/10.1093/bioinformatics/btq216},
doi = {10.1093/BIOINFORMATICS/BTQ216},
timestamp = {Sun, 25 Jul 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/HormozdiariHDHYAES10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/AlkanBEKS10,
author = {Can Alkan and
Michael Brudno and
Evan E. Eichler and
Maricel G. Kann and
S{\"{u}}leyman Cenk Sahinalp},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Tiffany Murray and
Teri E. Klein},
title = {Session Introduction},
booktitle = {Biocomputing 2010: Proceedings of the Pacific Symposium, Kamuela,
Hawaii, USA, 4-8 January 2010},
pages = {302--304},
publisher = {World Scientific Publishing},
year = {2010},
url = {http://psb.stanford.edu/psb-online/proceedings/psb10/intro-personal.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/AlkanBEKS10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/recomb/HormozdiariAES09,
author = {Fereydoun Hormozdiari and
Can Alkan and
Evan E. Eichler and
S{\"{u}}leyman Cenk Sahinalp},
editor = {Serafim Batzoglou},
title = {Combinatorial Algorithms for Structural Variation Detection in High
Throughput Sequenced Genomes},
booktitle = {Research in Computational Molecular Biology, 13th Annual International
Conference, {RECOMB} 2009, Tucson, AZ, USA, May 18-21, 2009. Proceedings},
series = {Lecture Notes in Computer Science},
volume = {5541},
pages = {218--219},
publisher = {Springer},
year = {2009},
url = {https://doi.org/10.1007/978-3-642-02008-7\_16},
doi = {10.1007/978-3-642-02008-7\_16},
timestamp = {Mon, 13 May 2019 09:30:09 +0200},
biburl = {https://dblp.org/rec/conf/recomb/HormozdiariAES09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/AlkanVARSE07,
author = {Can Alkan and
Mario Ventura and
Nicoletta Archidiacono and
Mariano Rocchi and
S{\"{u}}leyman Cenk Sahinalp and
Evan E. Eichler},
title = {Organization and Evolution of Primate Centromeric {DNA} from Whole-Genome
Shotgun Sequence Data},
journal = {PLoS Comput. Biol.},
volume = {3},
number = {9},
year = {2007},
url = {https://doi.org/10.1371/journal.pcbi.0030181},
doi = {10.1371/JOURNAL.PCBI.0030181},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/AlkanVARSE07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/AlkanTBLEBS05,
author = {Can Alkan and
Eray T{\"{u}}z{\"{u}}n and
Jerome Buard and
Franck Lethiec and
Evan E. Eichler and
Jeffrey A. Bailey and
S{\"{u}}leyman Cenk Sahinalp},
title = {Manipulating multiple sequence alignments via MaM and WebMaM},
journal = {Nucleic Acids Res.},
volume = {33},
number = {Web-Server-Issue},
pages = {295--298},
year = {2005},
url = {https://doi.org/10.1093/nar/gki406},
doi = {10.1093/NAR/GKI406},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/AlkanTBLEBS05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jbcb/SahinalpEGBFE04,
author = {S{\"{u}}leyman Cenk Sahinalp and
Evan E. Eichler and
Paul W. Goldberg and
Petra Berenbrink and
Tom Friedetzky and
Funda Erg{\"{u}}n},
title = {Identifying Uniformly Mutated Segments within Repeats},
journal = {J. Bioinform. Comput. Biol.},
volume = {2},
number = {4},
pages = {657--668},
year = {2004},
url = {https://doi.org/10.1142/S0219720004000788},
doi = {10.1142/S0219720004000788},
timestamp = {Thu, 04 Jun 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jbcb/SahinalpEGBFE04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcb/AlkanEBST04,
author = {Can Alkan and
Evan E. Eichler and
Jeffrey A. Bailey and
S{\"{u}}leyman Cenk Sahinalp and
Eray T{\"{u}}z{\"{u}}n},
title = {The Role of Unequal Crossover in Alpha-Satellite {DNA} Evolution:
{A} Computational Analysis},
journal = {J. Comput. Biol.},
volume = {11},
number = {5},
pages = {933--944},
year = {2004},
url = {https://doi.org/10.1089/cmb.2004.11.933},
doi = {10.1089/CMB.2004.11.933},
timestamp = {Sat, 30 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcb/AlkanEBST04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/cpm/SahinalpEGBFE02,
author = {S{\"{u}}leyman Cenk Sahinalp and
Evan E. Eichler and
Paul W. Goldberg and
Petra Berenbrink and
Tom Friedetzky and
Funda Erg{\"{u}}n},
editor = {Alberto Apostolico and
Masayuki Takeda},
title = {Statistical Identification of Uniformly Mutated Segments within Repeats},
booktitle = {Combinatorial Pattern Matching, 13th Annual Symposium, {CPM} 2002,
Fukuoka, Japan, July 3-5, 2002, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {2373},
pages = {249--261},
publisher = {Springer},
year = {2002},
url = {https://doi.org/10.1007/3-540-45452-7\_21},
doi = {10.1007/3-540-45452-7\_21},
timestamp = {Tue, 14 May 2019 10:00:38 +0200},
biburl = {https://dblp.org/rec/conf/cpm/SahinalpEGBFE02.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/recomb/Eichler02,
author = {Evan E. Eichler},
editor = {Gene Myers and
Sridhar Hannenhalli and
David Sankoff and
Sorin Istrail and
Pavel A. Pevzner and
Michael S. Waterman},
title = {Recent duplication, evolution and assembly of the human genome},
booktitle = {Proceedings of the Sixth Annual International Conference on Computational
Biology, {RECOMB} 2002, Washington, DC, USA, April 18-21, 2002},
pages = {155--155},
publisher = {{ACM}},
year = {2002},
url = {https://doi.org/10.1145/565196.565215},
doi = {10.1145/565196.565215},
timestamp = {Mon, 13 May 2019 09:30:09 +0200},
biburl = {https://dblp.org/rec/conf/recomb/Eichler02.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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