Author

Sarah E. Johnstone

Broad InstituteORCID 0000-0002-5218-1689Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

Click to filter author papers

Signature Assays, Organisms & Methods

Click to filter · or open tag

Approach:experimental assay· 4 Organism:human· 3 Assay:ChIP-seq· 2 Research Focus:gene regulatory network inference· 2 Assay:Hi-C· 2 Research Focus:differential expression· 1 Research Focus:spatial domain detection· 1 Approach:statistical model· 1

Frequent Co-Authors

Martin J. AryeeiD· 3 shared Anders S. HanseniD· 2 shared Christian G. Cerda-SmithiD· 2 shared Christine Elissa EyleriD· 2 shared Corriene E. Sept· 2 shared Haley M. HutchinsoniD· 2 shared Viraat Y. GoeliD· 2 shared Adrian L. SanborniD· 1 shared

Activity by Year

2017-2023 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 29 mutual co-author links

Click any collaborator node to inspect or filter shared papers

Focal author (center)Selected co-authorORCID co-authorUnlinked name

Curved chords = mutual co-authorship

3 shared papersGenomics

Martin J. AryeeORCID

Mutual co-authors in cluster

Author profile →

4 papers

Recent·Most cited

High-resolution CTCF footprinting reveals impact of chromatin state on cohesin extrusion dynamics

Corriene E. Sept, Y. Esther Tak, Christian G. Cerda-Smith, Haley M. Hutchinson, Viraat Y. Goel, Marco Blanchette, Mital S. Bhakta, Anders S. Hansen, J. Keith Joung, Sarah E. Johnstone, Christine Elissa Eyler, Martin J. Aryee

The paper uses high-resolution CTCF MNase HiChIP data to analyze chromatin loop structures and introduces FactorFinder, finding that fully extruded CTCF-CTCF loops are rare and that chromatin state affects cohesin extrusion dynamics.

bioRxiv · Oct 20, 2023 · PreprintGenomics

Integrative PTEN Enhancer Discovery Reveals a New Model of Enhancer Organization

Christian G. Cerda-Smith, Haley M. Hutchinson, Annie Liu, Viraat Y. Goel, Corriene E. Sept, Holly Kim, Salvador Casaní-Galdón, Katherine G. Burkman, Christopher F. Bassil, Anders S. Hansen, Martin J. Aryee, Sarah E. Johnstone, Christine Elissa Eyler, Kris C. Wood

The paper identifies 10 PTEN enhancers and proposes a new model of enhancer organization that includes spatial separation of functional and structural elements.

bioRxiv · Sep 20, 2023 · PreprintGenomics

Polycomb-lamina antagonism partitions heterochromatin at the nuclear periphery

Allison P. Siegenfeld, Shelby A Roseman, Heejin Roh, Nicholas Z. Lue, Corin Wagen, Eric Zhou, Sarah E. Johnstone, Martin J. Aryee, Brian B. Liau

The paper develops LIMe-Hi-C to study how Polycomb repressive complex 2 and lamina association regulate heterochromatin sub-compartments.

Nature Communications · Jul 20, 2022Peer-reviewedGenomics

Cohesin Loss Eliminates All Loop Domains, Leading To Links Among Superenhancers And Downregulation Of Nearby Genes

Suhas S.P. Rao, Su-Chen Eileen Huang, Brian Glenn St Hilaire, J Engreitz, Elizabeth M. Perez, Kyong-Rim Kieffer-Kwon, Adrian L. Sanborn, Sarah E. Johnstone, Gavin D. Bascom, Ivan D. Bochkov, Xingfan Huang, Muhammad S. Shamim, Jaeweon Shin, Douglass Turner, Ziyi Ye, , Erez Lieberman Aiden

This study shows that cohesin loss eliminates loop domains, causing superenhancer links and gene downregulation, which are reversible upon cohesin restoration.

Cell · Oct 1, 2017Peer-reviewedGenomics