Author

Griffin Kim

Calico Life Sciences

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Systems Biology· 3 Genomics· 1 Synthetic Biology· 1

Signature Assays, Organisms & Methods

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Organism:yeast· 5 Research Focus:gene regulatory network inference· 3 Approach:statistical model· 3 Assay:bulk RNA-seq· 2 Research Focus:database / resource· 2 Approach:experimental assay· 2 Assay:ATAC-seq· 1 Research Focus:benchmarking· 1

Frequent Co-Authors

R. Scott McIsaaciD· 4 shared Bernd J. WranikiD· 3 shared Anastasia BaryshnikovaiD· 2 shared David BotsteiniD· 2 shared David G. HendricksoniD· 2 shared Emily H. StoopsiD· 2 shared Gina M. TurcoiD· 2 shared Rebecca Y. Wang· 2 shared

Activity by Year

2018-2023 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 27 mutual co-author links

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4 shared papersSystems Biology

R. Scott McIsaacORCID

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Author profile →

5 papers

Recent·Most cited

Global analysis of the yeast knock-out phenome

Gina M. Turco, Christie Chang, Rebecca Y. Wang, Griffin Kim, Emily H. Stoops, Brianna Richardson, Vanessa Sochat, Jennifer Rust, Rose Oughtred, Nathaniel H. Thayer, Fan Kang, Michael S. Livstone, Sven Heinicke, Mark Schroeder, Kara J. Dolinski, , Anastasia Baryshnikova

The paper aggregates and analyzes phenotypic data from yeast knock-out screens to identify gene functions and relationships, revealing new biological insights.

Science Advances · May 26, 2023Peer-reviewedSystems Biology

A genome-scale yeast library with inducible expression of individual genes

Yuko Arita, Griffin Kim, Zhijian Li, Helena Friesen, Gina M. Turco, Rebecca Y. Wang, Dale Climie, Matej Ušaj, Manuel Hotz, Emily H. Stoops, Anastasia Baryshnikova, Charles M. Boone, David Botstein, Brenda Andrews, R. Scott McIsaac

The paper develops YETI, a yeast library with inducible gene expression, and shows low native expression can bias promoter-perturbing screens.

Molecular Systems Biology · Jun 1, 2021Peer-reviewedSynthetic Biology

MAPPING TRANSCRIPTION FACTOR NETWORKS BY COMPARING TF BINDING LOCATIONS TO TF PERTURBATION RESPONSES

Yiming Kang, Nikhil Patel, Christian A. Shively, Pamela Samantha Recio, Xuhua Chen, Bernd J. Wranik, Griffin Kim, R. Scott McIsaac, Robi David Mitra, Michael R. Brent

The paper improves transcription factor network mapping by combining dual threshold optimization, NetProphet 2.0, and new methods for binding and response data.

Genome Research · Mar 1, 2020Peer-reviewedGenomics

Time-resolved genome-scale profiling reveals a causal expression network

Sean R. Hackett, Edward A. Baltz, Marc Coram, Bernd J. Wranik, Griffin Kim, Adam Baker, Minjie Fan, David G. Hendrickson, Marc Berndl, R. Scott McIsaac

The paper introduces a method to infer genome-wide regulatory causality using time-resolved gene expression data from yeast and validates its predictions experimentally.

Molecular Systems Biology · Mar 1, 2020Peer-reviewedSystems Biology

The Miniature-chemostat Aging Device: A new experimental platform facilitates assessment of the transcriptional and chromatin landscapes of replicatively aging yeast

David G. Hendrickson, Ilya Soifer, Bernd J. Wranik, Griffin Kim, Michael C. Robles, Patrick A. Gibney, R. Scott McIsaac

The paper introduces a new platform to study aging yeast by purifying old cells and analyzing their transcriptional and chromatin changes.

eLife · Oct 18, 2018Peer-reviewedSystems Biology