C
Cassandra Bazile
Researcher at Massachusetts Institute of Technology
Publications - 11
Citations - 1436
Cassandra Bazile is an academic researcher from Massachusetts Institute of Technology. The author has contributed to research in topics: RNA-binding protein & RNA. The author has an hindex of 8, co-authored 9 publications receiving 877 citations. Previous affiliations of Cassandra Bazile include University of Miami.
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Journal ArticleDOI
A large-scale binding and functional map of human RNA-binding proteins
Eric L. Van Nostrand,Peter Freese,Gabriel A. Pratt,Xiaofeng Wang,Xintao Wei,Rui Xiao,Rui Xiao,Steven M. Blue,Jia-Yu Chen,Neal A.L. Cody,Daniel Dominguez,Sara Olson,Balaji Sundararaman,Lijun Zhan,Cassandra Bazile,Louis Philip Benoit Bouvrette,Julie Bergalet,Michael O. Duff,Keri E. Garcia,Chelsea Gelboin-Burkhart,Myles Hochman,Nicole J. Lambert,Hairi Li,Michael P. McGurk,Thai B. Nguyen,Tsultrim Palden,Ines Rabano,Shashank Sathe,Rebecca Stanton,Amanda Su,Ruth Wang,Brian A. Yee,Bing Zhou,Ashley L. Louie,Stefan Aigner,Xiang-Dong Fu,Eric Lécuyer,Eric Lécuyer,Christopher B. Burge,Brenton R. Graveley,Gene W. Yeo +40 more
TL;DR: The spectrum of RBP binding throughout the transcriptome and the connections between these interactions and various aspects of RNA biology, including RNA stability, splicing regulation and RNA localization are described.
Journal ArticleDOI
Sequence, Structure, and Context Preferences of Human RNA Binding Proteins
Daniel Dominguez,Peter Freese,Maria S. Alexis,Amanda Su,Myles Hochman,Tsultrim Palden,Cassandra Bazile,Nicole J. Lambert,Eric L. Van Nostrand,Gabriel A. Pratt,Gene W. Yeo,Brenton R. Graveley,Christopher B. Burge +12 more
TL;DR: In this article, the affinity landscapes of 78 human RBPs using an unbiased assay that determines the sequence, structure, and context preferences of these proteins in vitro by deep sequencing of bound RNAs.
Sequence, Structure, and Context Preferences of Human RNA Binding Proteins
Peter Freese,Maria S. Alexis,Eric L. Van Nostrand,Gabriel A. Pratt,Gene W. Yeo,Brenton R. Graveley,Daniel Dominguez,Amanda J Su,Myles Hochman,Tsultrim Palden,Cassandra Bazile,Nicole J. Lambert,Christopher B. Burge +12 more
TL;DR: The affinity landscapes of 78 human RBPs are presented using an unbiased assay that determines the sequence, structure, and context preferences of these proteins in vitro by deep sequencing of bound RNAs, enabling construction of "RNA maps" of RBP activity without requiring crosslinking-based assays.
Posted ContentDOI
A Large-Scale Binding and Functional Map of Human RNA Binding Proteins
Eric L. Van Nostrand,Peter Freese,Gabriel A. Pratt,Xiaofeng Wang,Xintao Wei,Steven M. Blue,Daniel Dominguez,Neal A.L. Cody,Sara H. Olson,Balaji Sundararaman,Rui Xiao,Lijun Zhan,Cassandra Bazile,Louis Philip Benoit Bouvrette,Jia-Yu Chen,Michael O. Duff,Keri E. Garcia,Chelsea Gelboin-Burkhart,Abigail Hochman,Nicole J. Lambert,Hairi Li,Thai B. Nguyen,Tsultrim Palden,Ines Rabano,Shashank Sathe,Rebecca Stanton,Ashley L. Louie,Stefan Aigner,Julie Bergalet,Bing Zhou,Amanda Su,Ruth Wang,Brian A. Yee,Xiang-Dong Fu,Eric Lécuyer,Christopher B. Burge,Brenton R. Graveley,Gene W. Yeo +37 more
TL;DR: The mapping and characterization of RNA elements recognized by a large collection of human RBPs in K562 and HepG2 cells are described, expanding the catalog of functional elements encoded in the human genome by addition of a large set of elements that function at the RNA level through interaction with RBPs.
Journal ArticleDOI
RNA Sequence Context Effects Measured In Vitro Predict In Vivo Protein Binding and Regulation
J. Matthew Taliaferro,Nicole J. Lambert,Peter H. Sudmant,Daniel Dominguez,Jason Jay Merkin,Maria S. Alexis,Cassandra Bazile,Christopher B. Burge +7 more
TL;DR: Large-scale combinatorial mutagenesis of unfavorable sequence contexts revealed a consistent pattern whereby mutations that increased motif accessibility improved protein binding and regulatory activity and suggested that mutations that alter sequence context commonly affect RBP binding and regulation.