Author

Lili M. Blumenberg

New York UniversityORCID 0000-0002-4886-8752Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 3 Genomics· 1

Signature Assays, Organisms & Methods

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Approach:statistical model· 3 Research Focus:benchmarking· 2 Assay:proteomics· 2 Assay:bulk RNA-seq· 1 Assay:ChIP-seq· 1 Research Focus:differential expression· 1 Approach:experimental assay· 1 Organism:human· 1

Frequent Co-Authors

Kelly V. RugglesiD· 2 shared Andrew J. MurphyiD· 1 shared Ankur DhanikiD· 1 shared Benjamin Aaron GarciaiD· 1 shared Chul‐Hwan LeeiD· 1 shared Danny ReinbergiD· 1 shared Darshit ShahiD· 1 shared David FenyöiD· 1 shared

Activity by Year

2018-2021 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 12 mutual co-author links

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2 shared papersBioinformatics

Kelly V. RugglesORCID

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4 papers

Recent·Most cited

BlackSheep: A Bioconductor and Bioconda package for differential extreme value analysis

Lili M. Blumenberg, Emily A. Kawaler, MacIntosh Cornwell, Shaleigh A. Smith, Kelly V. Ruggles, David Fenyö

BlackSheep identifies molecules aberrantly enriched in small sample cohorts using non-parametric differential extreme value analysis.

Journal of Proteome Research · Jun 24, 2021Peer-reviewedBioinformatics

Rigorous estimation of post-translational proteasomal splicing in the immunopeptidome

Kamil J. Cygan, Ehdieh Khaledian, Lili M. Blumenberg, Robert R. Salzler, Darshit Shah, William C. Olson, Lynn E. Macdonald, Andrew J. Murphy, Ankur Dhanik

This study estimates the extent of post-translational proteasomal splicing in the immunopeptidome and finds it is lower than previously reported.

bioRxiv · May 26, 2021 · PreprintBioinformatics

Hypercluster: a flexible tool for parallelized unsupervised clustering optimization

Lili M. Blumenberg, Kelly V. Ruggles

Hypercluster automates and accelerates unsupervised clustering by testing multiple models and hyperparameters in parallel, providing reproducible results.

BMC Bioinformatics · Sep 29, 2020Peer-reviewedBioinformatics

Capturing the onset of PRC2-mediated repressive domain formation

Ozgur Oksuz, Varun K. Narendra, Chul‐Hwan Lee, Nicolas Descostes, Gary LeRoy, Ramya Raviram, Lili M. Blumenberg, Kelly R. Karch, Pedro P. Rocha, Benjamin Aaron Garcia, Jane A. Skok, Danny Reinberg

The paper demonstrates a two-step mechanism of PRC2-mediated repressive domain formation through nucleation sites and long-range spreading of H3K27me2/3.

Molecular Cell · Jun 1, 2018Peer-reviewedGenomics