Evan E. Eichler - researchr alias

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Viewing Publication 1 - 22 from 22

2023

GAVISUNK: genome assembly validation via inter-SUNK distances in Oxford Nanopore readsPhilip C. Dishuck, Allison N. Rozanski, Glennis Logsdon, David Porubsky, Evan E. Eichler. bioinformatics, 39(1), January 2023. [doi]

2022

StainedGlass: interactive visualization of massive tandem repeat structures with identity heatmapsMitchell R. Vollger, Peter Kerpedjiev, Adam M. Phillippy, Evan E. Eichler. bioinformatics, 38(7):2049-2051, 2022. [doi]

2018

Strand-seq enables reliable separation of long reads by chromosome via expectation maximizationMaryam Ghareghani, David Porubsky, Ashley D. Sanders, Sascha Meiers, Evan E. Eichler, Jan O. Korbel, Tobias Marschall. bioinformatics, 34(13), 2018. [doi]

2017

2014

ORMAN: Optimal resolution of ambiguous RNA-Seq multimappings in the presence of novel isoformsPhuong Dao, Ibrahim Numanagic, Yen-Yi Lin, Faraz Hach, Emre Karakoç, Nilgun Donmez, Colin Collins, Evan E. Eichler, Süleyman Cenk Sahinalp. bioinformatics, 30(5):644-651, 2014. [doi]

mrsFAST-Ultra: a compact, SNP-aware mapper for high performance sequencing applicationsFaraz Hach, Iman Sarrafi, Farhad Hormozdiari, Can Alkan, Evan E. Eichler, Süleyman Cenk Sahinalp. nar, 42(Webserver-Issue):494-500, 2014. [doi]

de novo coding mutations to autism spectrum disorderIvan Iossifov, Brian J. O'Roak, Stephan J. Sanders, Michael Ronemus, Niklas Krumm, Dan Levy, Holly A. Stessman, Kali T. Witherspoon, Laura Vives, Karynne E. Patterson, Joshua D. Smith, Bryan Paeper, Deborah A. Nickerson, Jeanselle Dea, Shan Dong, Luis E. Gonzalez, Jeffrey D. Mandell, Shrikant M. Mane, Michael T. Murtha, Catherine A. Sullivan, Michael F. Walker, Zainulabedin Waqar, Liping Wei, A. Jeremy Willsey, Boris Yamrom, Yoon-ha Lee, Ewa Grabowska, Ertugrul Dalkic, Zi-Hua Wang, Steven Marks, Peter Andrews, Anthony Leotta, Jude Kendall, Inessa Hakker, Julie Rosenbaum, Beicong Ma, Linda Rodgers, Jennifer Troge, Giuseppe Narzisi, Seungtai Yoon, Michael C. Schatz, Kenny Ye, W. Richard McCombie, Jay Shendure, Evan E. Eichler, Matthew W. State, Michael Wigler. nature, 515(7526):216-221, 2014. [doi]

2012

Sensitive and fast mapping of di-base encoded readsFarhad Hormozdiari, Faraz Hach, Süleyman Cenk Sahinalp, Evan E. Eichler, Can Alkan. bioinformatics, 28(1):150, 2012. [doi]

2011

Simultaneous Structural Variation Discovery in Multiple Paired-End Sequenced GenomesFereydoun Hormozdiari, Iman Hajirasouliha, Andrew McPherson, Evan E. Eichler, Süleyman Cenk Sahinalp. recomb 2011: 104-105 [doi]

Sensitive and fast mapping of di-base encoded readsFarhad Hormozdiari, Faraz Hach, Süleyman Cenk Sahinalp, Evan E. Eichler, Can Alkan. bioinformatics, 27(14):1915-1921, 2011. [doi]

2010

Session IntroductionCan Alkan, Michael Brudno, Evan E. Eichler, Maricel G. Kann, Süleyman Cenk Sahinalp. psb 2010: 302-304 [doi]

Detection and characterization of novel sequence insertions using paired-end next-generation sequencingIman Hajirasouliha, Fereydoun Hormozdiari, Can Alkan, Jeffrey M. Kidd, Inanç Birol, Evan E. Eichler, Süleyman Cenk Sahinalp. bioinformatics, 26(10):1277-1283, 2010. [doi]

Next-generation VariationHunter: combinatorial algorithms for transposon insertion discoveryFereydoun Hormozdiari, Iman Hajirasouliha, Phuong Dao, Faraz Hach, Deniz Yörükoglu, Can Alkan, Evan E. Eichler, Süleyman Cenk Sahinalp. bioinformatics, 26(12):350-357, 2010. [doi]

Targeted interrogation of copy number variation using SCIMMkitTroy Zerr, Gregory M. Cooper, Evan E. Eichler, Deborah Nickerson. bioinformatics, 26(1):120-122, 2010. [doi]

2009

Combinatorial Algorithms for Structural Variation Detection in High Throughput Sequenced GenomesFereydoun Hormozdiari, Can Alkan, Evan E. Eichler, Süleyman Cenk Sahinalp. recomb 2009: 218-219 [doi]

2007

Organization and Evolution of Primate Centromeric DNA from Whole-Genome Shotgun Sequence DataCan Alkan, Mario Ventura, Nicoletta Archidiacono, Mariano Rocchi, Süleyman Cenk Sahinalp, Evan E. Eichler. ploscb, 3(9), 2007. [doi]

2005

Manipulating multiple sequence alignments via MaM and WebMaMCan Alkan, Eray Tüzün, Jerome Buard, Franck Lethiec, Evan E. Eichler, Jeffrey A. Bailey, Süleyman Cenk Sahinalp. nar, 33(Web-Server-Issue):295-298, 2005. [doi]

2004

The Role of Unequal Crossover in Alpha-Satellite DNA Evolution: A Computational AnalysisCan Alkan, Evan E. Eichler, Jeffrey A. Bailey, Süleyman Cenk Sahinalp, Eray Tüzün. jcb, 11(5):933-944, 2004. [doi]

Identifying Uniformly Mutated Segments within RepeatsSüleyman Cenk Sahinalp, Evan E. Eichler, Paul W. Goldberg, Petra Berenbrink, Tom Friedetzky, Funda Ergün. jbcb, 2(4):657-668, 2004. [doi]

2002

Recent duplication, evolution and assembly of the human genomeEvan E. Eichler. recomb 2002: 155-155 [doi]

Statistical Identification of Uniformly Mutated Segments within RepeatsSüleyman Cenk Sahinalp, Evan E. Eichler, Paul W. Goldberg, Petra Berenbrink, Tom Friedetzky, Funda Ergün. cpm 2002: 249-261 [doi]

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