A comprehensive Drosophila melanogaster transcription factor interactome
Combinatorial interactions among transcription factors (TFs) play essential roles in generating gene expression specificity and diversity in metazoans. Using yeast 2-hybrid (Y2H) assays on nearly all sequence-specific Drosophila TFs, we identified 1,983 protein-protein interactions (PPIs), more than...
| Main Authors: | , , , , , , , , , , , , , |
|---|---|
| Format: | Journal article |
| Published: |
Cell Press
2019
|
| _version_ | 1797101308682960896 |
|---|---|
| author | Shokri, L Inukai, S Hafner, A Weinand, K Hens, K Vedenko, A Gisselbrecht, S Dainese, R Bischof, J Furger, E Feuz, J Basler, K Deplancke, B Bulyk, M |
| author_facet | Shokri, L Inukai, S Hafner, A Weinand, K Hens, K Vedenko, A Gisselbrecht, S Dainese, R Bischof, J Furger, E Feuz, J Basler, K Deplancke, B Bulyk, M |
| author_sort | Shokri, L |
| collection | OXFORD |
| description | Combinatorial interactions among transcription factors (TFs) play essential roles in generating gene expression specificity and diversity in metazoans. Using yeast 2-hybrid (Y2H) assays on nearly all sequence-specific Drosophila TFs, we identified 1,983 protein-protein interactions (PPIs), more than doubling the number of currently known PPIs among Drosophila TFs. For quality assessment, we validated a subset of our interactions using MITOMI and bimolecular fluorescence complementation assays. We combined our interactome with prior PPI data to generate an integrated Drosophila TF-TF binary interaction network. Our analysis of ChIP-seq data, integrating PPI and gene expression information, uncovered different modes by which interacting TFs are recruited to DNA. We further demonstrate the utility of our Drosophila interactome in shedding light on human TF-TF interactions. This study reveals how TFs interact to bind regulatory elements in vivo and serves as a resource of Drosophila TF-TF binary PPIs for understanding tissue-specific gene regulation. |
| first_indexed | 2024-03-07T05:50:01Z |
| format | Journal article |
| id | oxford-uuid:e88996c1-2de3-4124-9451-3483c16a51cf |
| institution | University of Oxford |
| last_indexed | 2024-03-07T05:50:01Z |
| publishDate | 2019 |
| publisher | Cell Press |
| record_format | dspace |
| spelling | oxford-uuid:e88996c1-2de3-4124-9451-3483c16a51cf2022-03-27T10:47:34ZA comprehensive Drosophila melanogaster transcription factor interactomeJournal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:e88996c1-2de3-4124-9451-3483c16a51cfSymplectic Elements at OxfordCell Press2019Shokri, LInukai, SHafner, AWeinand, KHens, KVedenko, AGisselbrecht, SDainese, RBischof, JFurger, EFeuz, JBasler, KDeplancke, BBulyk, MCombinatorial interactions among transcription factors (TFs) play essential roles in generating gene expression specificity and diversity in metazoans. Using yeast 2-hybrid (Y2H) assays on nearly all sequence-specific Drosophila TFs, we identified 1,983 protein-protein interactions (PPIs), more than doubling the number of currently known PPIs among Drosophila TFs. For quality assessment, we validated a subset of our interactions using MITOMI and bimolecular fluorescence complementation assays. We combined our interactome with prior PPI data to generate an integrated Drosophila TF-TF binary interaction network. Our analysis of ChIP-seq data, integrating PPI and gene expression information, uncovered different modes by which interacting TFs are recruited to DNA. We further demonstrate the utility of our Drosophila interactome in shedding light on human TF-TF interactions. This study reveals how TFs interact to bind regulatory elements in vivo and serves as a resource of Drosophila TF-TF binary PPIs for understanding tissue-specific gene regulation. |
| spellingShingle | Shokri, L Inukai, S Hafner, A Weinand, K Hens, K Vedenko, A Gisselbrecht, S Dainese, R Bischof, J Furger, E Feuz, J Basler, K Deplancke, B Bulyk, M A comprehensive Drosophila melanogaster transcription factor interactome |
| title | A comprehensive Drosophila melanogaster transcription factor interactome |
| title_full | A comprehensive Drosophila melanogaster transcription factor interactome |
| title_fullStr | A comprehensive Drosophila melanogaster transcription factor interactome |
| title_full_unstemmed | A comprehensive Drosophila melanogaster transcription factor interactome |
| title_short | A comprehensive Drosophila melanogaster transcription factor interactome |
| title_sort | comprehensive drosophila melanogaster transcription factor interactome |
| work_keys_str_mv | AT shokril acomprehensivedrosophilamelanogastertranscriptionfactorinteractome AT inukais acomprehensivedrosophilamelanogastertranscriptionfactorinteractome AT hafnera acomprehensivedrosophilamelanogastertranscriptionfactorinteractome AT weinandk acomprehensivedrosophilamelanogastertranscriptionfactorinteractome AT hensk acomprehensivedrosophilamelanogastertranscriptionfactorinteractome AT vedenkoa acomprehensivedrosophilamelanogastertranscriptionfactorinteractome AT gisselbrechts acomprehensivedrosophilamelanogastertranscriptionfactorinteractome AT daineser acomprehensivedrosophilamelanogastertranscriptionfactorinteractome AT bischofj acomprehensivedrosophilamelanogastertranscriptionfactorinteractome AT furgere acomprehensivedrosophilamelanogastertranscriptionfactorinteractome AT feuzj acomprehensivedrosophilamelanogastertranscriptionfactorinteractome AT baslerk acomprehensivedrosophilamelanogastertranscriptionfactorinteractome AT deplanckeb acomprehensivedrosophilamelanogastertranscriptionfactorinteractome AT bulykm acomprehensivedrosophilamelanogastertranscriptionfactorinteractome AT shokril comprehensivedrosophilamelanogastertranscriptionfactorinteractome AT inukais comprehensivedrosophilamelanogastertranscriptionfactorinteractome AT hafnera comprehensivedrosophilamelanogastertranscriptionfactorinteractome AT weinandk comprehensivedrosophilamelanogastertranscriptionfactorinteractome AT hensk comprehensivedrosophilamelanogastertranscriptionfactorinteractome AT vedenkoa comprehensivedrosophilamelanogastertranscriptionfactorinteractome AT gisselbrechts comprehensivedrosophilamelanogastertranscriptionfactorinteractome AT daineser comprehensivedrosophilamelanogastertranscriptionfactorinteractome AT bischofj comprehensivedrosophilamelanogastertranscriptionfactorinteractome AT furgere comprehensivedrosophilamelanogastertranscriptionfactorinteractome AT feuzj comprehensivedrosophilamelanogastertranscriptionfactorinteractome AT baslerk comprehensivedrosophilamelanogastertranscriptionfactorinteractome AT deplanckeb comprehensivedrosophilamelanogastertranscriptionfactorinteractome AT bulykm comprehensivedrosophilamelanogastertranscriptionfactorinteractome |