Statistically consistent estimation of rooted and unrooted level-1 phylogenetic networks from SNP data
Tandy Warnow, Yasamin Tabatabaee, and Steve N. Evans
Proceedings of RECOMB Comparative Genomics (RECOMB-CG 2024)
paper
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Optimal tree metric matching enables phylogenomic branch length reconciliation
Shayesteh Arasti, Puoya Tabaghi, Yasamin Tabatabaee, and Siavash Mirarab
International Conference on Research in Computational Molecular Biology (RECOMB 2024)
preprint
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code
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data
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QR-STAR: A polynomial-time statistically consistent method for rooting species trees under the coalescent
Yasamin Tabatabaee, Sébastien Roch, Tandy Warnow
Journal of Computational Biology, Volume 30, Number 11 (Special issue for extended RECOMB 2023 papers)
paper
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code
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data
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Phylogenomic branch length estimation using quartets
Yasamin Tabatabaee, Chao Zhang, Tandy Warnow, Siavash Mirarab
Bioinformatics, Volume 39, Issue Supplement_1, June 2023, Pages i185–i193 (Special issue for ISMB/ECCB 2023)
paper
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code
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data
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Statistically consistent rooting of species trees under the multispecies coalescent model
Yasamin Tabatabaee, Sébastien Roch, Tandy Warnow
International Conference on Research in Computational Molecular Biology, pp. 41-57 (RECOMB 2023)
paper
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code
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data
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Well-connected communities in real-world and synthetic networks
Minhyuk Park*, Yasamin Tabatabaee*, Vikram Ramavarapu*, Baqiao Liu, Vidya Kamath Pailodi, Rajiv Ramachandran, Dmitriy Korobskiy, Fabio Ayres, George Chacko, Tandy Warnow
International Conference on Complex Networks and their Applications (COMPLEX NETWORKS 2023)
paper
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CM code
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LFR generation code
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data
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DISCO+QR: rooting species trees in the presence of GDL and ILS
James Willson, Yasamin Tabatabaee, Baqiao Liu, Tandy Warnow
Bioinformatics Advances, Volume 3, Issue 1, 2023, vbad015, (Special issue for ISCB-LA 2022)
paper
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data
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Quintet Rooting: rooting species trees under the multi-species coalescent model
Yasamin Tabatabaee, Kowshika Sarker, Tandy Warnow
Bioinformatics, Volume 38, Issue Supplement_1, July 2022, Pages i109–i117 (Special issue for ISMB 2022)
paper
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code
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data
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Managing reliability skew in DNA storage
Dehui Lin, Yasamin Tabatabaee, Yash Pote, Djordje Jevdjic
Proceedings of the 49th Annual International Symposium on Computer Architecture, pp. 482-494 (ISCA 2022)
paper
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slides
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Talks
- February 16, 2024: UIUC CSLSC 2024 - Phylogenomic branch length estimation using quartets.
- July 27, 2023: ISMB/ECCB 2023 - Phylogenomic branch length estimation using quartets. [slides] [video]
- April 17, 2023: RECOMB 2023 - Statstically consistent rooting of species trees under the multi-species coalescent model. [slides] [video]
- September 9, 2022: UIUC BCB Seminar - Rooting species trees under the multis-species coalescent model.
- July 14, 2022: ISMB 2022 - Quintet Rooting: rooting species trees under the multis-species coalescent model. [slides] [video]
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