Author

Jenifer Johnson

Lawrence Berkeley National Laboratory

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

Biology Disciplines

Click to filter author papers

Genomics· 3 Evolutionary Biology· 1

Signature Assays, Organisms & Methods

Click to filter · or open tag

Approach:experimental assay· 2 Research Focus:gene regulatory network inference· 2 Organism:plant (other)· 2 Approach:statistical model· 2 Assay:whole-genome sequencing· 2 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1 Assay:ChIP-seq· 1

Frequent Co-Authors

Kerrie BarryiD· 3 shared Anna LipzeniD· 2 shared Bernard HenrissatiD· 2 shared Chris G. DaumiD· 2 shared László G. NagyiD· 2 shared Abraham Morales‐CruziD· 1 shared Adam L. HealeyiD· 1 shared Alan KuoiD· 1 shared

Activity by Year

2018-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 25 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

Kerrie BarryORCID

Mutual co-authors in cluster

Author profile →

4 papers

Recent·Most cited

Positional grammar of transcription factor binding partitions developmental and stress-response regulation in plants

Abraham Morales‐Cruz, Sharon I. Greenblum, Peng Wang, Yu Zhang, Lin Yang, Chris G. Daum, Jenifer Johnson, Leo A. Baumgart, Ronan C. O’Malley

The paper investigates how transcription factor binding site position and chromatin context influence gene regulation in plants, revealing distinct regulatory roles for different genomic locations.

Nature Communications · Aug 4, 2026Peer-reviewedGenomics

Evolutionary innovations through gain and loss of genes in the ectomycorrhizal Boletales

Gang Wu, Shingo Miyauchi, Emmanuelle Morin, Alan Kuo, Élodie Drula, Torda Varga, Annegret Kohler, Bang Feng, Yang Cao, Anna Lipzen, Chris G. Daum, Hope N. Hundley, Jasmyn L. Pangilinan, Jenifer Johnson, Kerrie Barry, , Francis M Martin

This study identifies genomic traits of ectomycorrhizal transitions in Boletales by comparing gene repertoires and reconstructing gene duplication/loss histories.

New Phytologist · Nov 12, 2021Peer-reviewedGenomics

The Setaria viridis genome and diversity panel enables discovery of a novel domestication gene

Sujan Mamidi, Adam L. Healey, Pu Huang, Jane Grimwood, Jerry W. Jenkins, Kerrie Barry, Avinash Sreedasyam, Shengqiang Shu, John T. Lovell, Max J. Feldman, Jinxia Wu, Yunqing Yu, Cindy Chen, Jenifer Johnson, Hitoshi Sakakibara, , Elizabeth Anne Kellogg

The paper uses genome resources from Setaria viridis to identify loci associated with climate response, seed shattering, and leaf angle, and validates a novel domestication gene.

bioRxiv · May 10, 2020 · PreprintGenomics

Transcriptomic atlas of mushroom development highlights an independent origin of complex multicellularity

Krisztina Krizsán, Éva Almási, Zsolt Merényi, Neha Sahu, Máté Virágh, Tamás Kószó, Stephen Mondo, Brigitta Kiss, Balázs Bálint, Ursula Kües, Kerrie Barry, Judit Cseklye, Botond Hegedűs, Bernard Henrissat, Jenifer Johnson, , László G. Nagy

This study constructs a transcriptomic atlas of mushroom development using six species and genome comparisons to identify conserved genes involved in complex multicellularity.

bioRxiv · Jun 18, 2018 · PreprintEvolutionary Biology