Brooks M - Search Results

1

SDG8-Mediated Histone Methylation and RNA Processing Function in the Response to Nitrate Signaling.

Li Y, Brooks M, Yeoh-Wang J, McCoy RM, Rock TM, Pasquino A, Moon CI, Patrick RM, Tanurdzic M, Ruffel S, Widhalm JR, McCombie WR, Coruzzi GM. Li Y, et al. Among authors: brooks m. Plant Physiol. 2020 Jan;182(1):215-227. doi: 10.1104/pp.19.00682. Epub 2019 Oct 22. Plant Physiol. 2020. PMID: 31641075 Free PMC article.

2

Temporal transcriptional logic of dynamic regulatory networks underlying nitrogen signaling and use in plants.

Varala K, Marshall-Colón A, Cirrone J, Brooks MD, Pasquino AV, Léran S, Mittal S, Rock TM, Edwards MB, Kim GJ, Ruffel S, McCombie WR, Shasha D, Coruzzi GM. Varala K, et al. Among authors: brooks md. Proc Natl Acad Sci U S A. 2018 Jun 19;115(25):6494-6499. doi: 10.1073/pnas.1721487115. Epub 2018 May 16. Proc Natl Acad Sci U S A. 2018. PMID: 29769331 Free PMC article.

3

Network Walking charts transcriptional dynamics of nitrogen signaling by integrating validated and predicted genome-wide interactions.

Brooks MD, Cirrone J, Pasquino AV, Alvarez JM, Swift J, Mittal S, Juang CL, Varala K, Gutiérrez RA, Krouk G, Shasha D, Coruzzi GM. Brooks MD, et al. Nat Commun. 2019 Apr 5;10(1):1569. doi: 10.1038/s41467-019-09522-1. Nat Commun. 2019. PMID: 30952851 Free PMC article.

4

Transient genome-wide interactions of the master transcription factor NLP7 initiate a rapid nitrogen-response cascade.

Alvarez JM, Schinke AL, Brooks MD, Pasquino A, Leonelli L, Varala K, Safi A, Krouk G, Krapp A, Coruzzi GM. Alvarez JM, et al. Among authors: brooks md. Nat Commun. 2020 Mar 2;11(1):1157. doi: 10.1038/s41467-020-14979-6. Nat Commun. 2020. PMID: 32123177 Free PMC article.

5

Nitrate in 2020: Thirty Years from Transport to Signaling Networks.

Vidal EA, Alvarez JM, Araus V, Riveras E, Brooks MD, Krouk G, Ruffel S, Lejay L, Crawford NM, Coruzzi GM, Gutiérrez RA. Vidal EA, et al. Among authors: brooks md. Plant Cell. 2020 Jul;32(7):2094-2119. doi: 10.1105/tpc.19.00748. Epub 2020 Mar 13. Plant Cell. 2020. PMID: 32169959 Free PMC article. Review.

6

OutPredict: multiple datasets can improve prediction of expression and inference of causality.

Cirrone J, Brooks MD, Bonneau R, Coruzzi GM, Shasha DE. Cirrone J, et al. Among authors: brooks md. Sci Rep. 2020 Apr 22;10(1):6804. doi: 10.1038/s41598-020-63347-3. Sci Rep. 2020. PMID: 32321967 Free PMC article.

7

Author Correction: OutPredict: multiple datasets can improve prediction of expression and inference of causality.

Cirrone J, Brooks MD, Bonneau R, Coruzzi GM, Shasha DE. Cirrone J, et al. Among authors: brooks md. Sci Rep. 2020 Aug 19;10(1):14141. doi: 10.1038/s41598-020-69883-2. Sci Rep. 2020. PMID: 32811842 Free PMC article.

8

ConnecTF: A platform to integrate transcription factor-gene interactions and validate regulatory networks.

Brooks MD, Juang CL, Katari MS, Alvarez JM, Pasquino A, Shih HJ, Huang J, Shanks C, Cirrone J, Coruzzi GM. Brooks MD, et al. Plant Physiol. 2021 Feb 25;185(1):49-66. doi: 10.1093/plphys/kiaa012. Plant Physiol. 2021. PMID: 33631799 Free PMC article.

9

Time-Based Systems Biology Approaches to Capture and Model Dynamic Gene Regulatory Networks.

Alvarez JM, Brooks MD, Swift J, Coruzzi GM. Alvarez JM, et al. Among authors: brooks md. Annu Rev Plant Biol. 2021 Jun 17;72:105-131. doi: 10.1146/annurev-arplant-081320-090914. Epub 2021 Mar 5. Annu Rev Plant Biol. 2021. PMID: 33667112 Free PMC article. Review.

10

The TARGET System: Rapid Identification of Direct Targets of Transcription Factors by Gene Regulation in Plant Cells.

Brooks MD, Reed KM, Krouk G, Coruzzi GM, Bargmann BOR. Brooks MD, et al. Methods Mol Biol. 2023;2594:1-12. doi: 10.1007/978-1-0716-2815-7_1. Methods Mol Biol. 2023. PMID: 36264484

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