{"doi":"10.1016/j.cels.2023.05.002","title":"The trans-regulatory landscape of gene networks in plants","abstract":null,"journal":"Cell Systems","year":2023,"id":610234,"datarank":0.5806801516361837,"base_score":3.8712010109078907,"endowment":3.8712010109078907,"self_citation_contribution":0.5806801516361837,"citation_network_contribution":0.0,"self_endowment_contribution":0.5806801516361837,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":47,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":null,"is_data_producer":false,"deposit_databanks":null,"is_oa":false,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":null,"fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":1568848,"name":"Andy Zhou","orcid":null,"position":1,"is_corresponding":false},{"id":765784,"name":"Baohua Li","orcid":"0000-0001-7235-0470","position":2,"is_corresponding":false},{"id":1172864,"name":"Kasey Markel","orcid":"0000-0002-8285-3888","position":3,"is_corresponding":false},{"id":937517,"name":"Izaiah J. Ornelas","orcid":null,"position":4,"is_corresponding":false},{"id":416296,"name":"Patrick M. Shih","orcid":"0000-0002-2119-3345","position":5,"is_corresponding":false},{"id":1568847,"name":"Niklas F.C. Hummel","orcid":null,"position":0,"is_corresponding":false}],"reference_count":0,"raw_metadata":{"has_enrichment":true,"resolved":true,"title":"The trans-regulatory landscape of gene networks in plants","abstract":"The transcriptional effector domains of transcription factors play a key role in controlling gene expression; however, their functional nature is poorly understood, hampering our ability to explore this fundamental dimension of gene regulatory networks. To map the trans-regulatory landscape in a complex eukaryote, we systematically characterized the putative transcriptional effector domains of over 400 Arabidopsis thaliana transcription factors for their capacity to modulate transcription. We demonstrate that transcriptional effector activity can be integrated into gene regulatory networks capable of elucidating the functional dynamics underlying gene expression patterns. We further show how our characterized domains can enhance genome engineering efforts and reveal how plant transcriptional activators share regulatory features conserved across distantly related eukaryotes. Our results provide a framework to systematically characterize the regulatory role of transcription factors at a genome-scale in order to understand the transcriptional wiring of biological systems.","is_dataset_classified":null,"base_score":3.8712010109078907,"endowment":3.8712010109078907,"datacite_reuse_total":0,"file_count":0,"downloads":0,"views":0,"has_version_chain":false,"is_dataset":false,"is_oa":false,"pmid":"37348464","pmcid":null,"openalex_id":"https://openalex.org/W4381548311","authors":[],"funders":[{"funder_name":"Biological and Environmental Research","grant_id":"DE-AC02-05CH11231","title":null},{"funder_name":"U.S. Department of Energy","grant_id":"","title":null},{"funder_name":"Lawrence Berkeley National Laboratory","grant_id":"","title":null},{"funder_name":"Office of Science","grant_id":"","title":null}],"total_grants":4,"fwci":4.3662,"citation_percentile":0.95914947,"influential_citations":0,"citation_trend":[{"year":2023,"count":6},{"year":2024,"count":14},{"year":2025,"count":18},{"year":2026,"count":9}],"oa_status":"hybrid","license":"cc-by","oa_locations":[{"url":"http://www.cell.com/article/S2405471223001461/pdf","host_type":"journal"},{"url":"http://www.cell.com/article/S2405471223001461/pdf","host_type":"publisher"},{"url":"https://api.elsevier.com/content/article/PII:S2405471223001461?httpAccept=text/xml","host_type":"publisher"},{"url":"https://api.elsevier.com/content/article/PII:S2405471223001461?httpAccept=text/plain","host_type":"publisher"},{"url":"https://doi.org/10.1016/j.cels.2023.05.002","host_type":"journal"},{"url":"https://pubmed.ncbi.nlm.nih.gov/37348464","host_type":"repository"},{"url":"https://escholarship.org/uc/item/77d020kt","host_type":"repository"},{"url":"https://www.osti.gov/servlets/purl/2234104","host_type":"repository"},{"url":"https://escholarship.org/content/qt77d020kt/qt77d020kt.pdf","host_type":"repository"},{"url":"https://www.osti.gov/biblio/2234104","host_type":"repository"}],"fields_of_study":["CRISPR and Genetic Engineering","Plant Molecular Biology Research","Plant Gene Expression Analysis","Gene Regulatory Networks","Arabidopsis","Transcription Factors","Arabidopsis Proteins"],"mesh_terms":["Transcription Factors","Arabidopsis","Arabidopsis Proteins","Gene Regulatory Networks"],"keywords":["Gene","Gene regulatory network","Biology","Computational biology","Genetics","Evolutionary biology","Gene expression","Transcription factor","Gene Regulatory Networks","Plant Synthetic Biology"],"sdg_mappings":[],"linked_datasets":[],"clinical_trials":[],"software_tools":[],"database_accessions":[],"source":"live","citation_network_status":"fetched"},"created_at":"2026-07-31T20:40:07.277017Z","pmid":null,"pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}