| Temporal transcriptional logic of dynamic regulatory networks underlying nitrogen signaling and use in plants K Varala, A Marshall-Colón, J Cirrone, MD Brooks, AV Pasquino, S Léran, ... Proceedings of the National Academy of Sciences 115 (25), 6494-6499, 2018 | 195 | 2018 |
| Network Walking charts transcriptional dynamics of nitrogen signaling by integrating validated and predicted genome-wide interactions MD Brooks, J Cirrone, AV Pasquino, JM Alvarez, J Swift, S Mittal, ... Nature communications 10 (1), 1569, 2019 | 149 | 2019 |
| Transient genome-wide interactions of the master transcription factor NLP7 initiate a rapid nitrogen-response cascade JM Alvarez, AL Schinke, MD Brooks, A Pasquino, L Leonelli, K Varala, ... Nature communications 11 (1), 1157, 2020 | 129 | 2020 |
| ConnecTF: A platform to integrate transcription factor–gene interactions and validate regulatory networks MD Brooks, CL Juang, MS Katari, JM Alvarez, A Pasquino, HJ Shih, ... Plant physiology 185 (1), 49-66, 2021 | 44 | 2021 |
| SDG8-mediated histone methylation and RNA processing function in the response to nitrate signaling Y Li, M Brooks, J Yeoh-Wang, RM McCoy, TM Rock, A Pasquino, CI Moon, ... Plant Physiology 182 (1), 215-227, 2020 | 33 | 2020 |
| Spatiotemporal analysis identifies ABF2 and ABF3 as key hubs of endodermal response to nitrate O Contreras-López, EA Vidal, E Riveras, JM Alvarez, TC Moyano, ... Proceedings of the National Academy of Sciences 119 (4), e2107879119, 2022 | 29 | 2022 |
| Network Walking charts transcriptional dynamics of nitrogen signaling by integrating validated and predicted genome-wide interactions. Nat Commun 10: 1569 MD Brooks, J Cirrone, AV Pasquino, JM Alvarez, J Swift, S Mittal, ... | 6 | 2019 |
| ConnecTF: A platform to build gene networks by integrating transcription factor-target gene interactions MD Brooks, CL Juang, MS Katari, JM Alvarez, AV Pasquino, HJ Shih, ... bioRxiv, 2020.07. 07.191627, 2020 | 1 | 2020 |
| The 4th Dimension of Gene Regulatory Networks: TIME G Coruzzi, K Varala, A Marshall-Colon, J Cirrone, M Brooks, AV Pasquino, ... Plant and Animal Genome XXVI Conference (January 13-17, 2018), 2018 | | 2018 |