Knaack SA - Search Results

1

The single-cell transcriptome program of nodule development cellular lineages in Medicago truncatula.

Pereira WJ, Boyd J, Conde D, Triozzi PM, Balmant KM, Dervinis C, Schmidt HW, Boaventura-Novaes C, Chakraborty S, Knaack SA, Gao Y, Feltus FA, Roy S, Ané JM, Frugoli J, Kirst M. Pereira WJ, et al. Among authors: knaack sa. Cell Rep. 2024 Feb 27;43(2):113747. doi: 10.1016/j.celrep.2024.113747. Epub 2024 Feb 7. Cell Rep. 2024. PMID: 38329875 Free article.

2

Temporal change in chromatin accessibility predicts regulators of nodulation in Medicago truncatula.

Knaack SA, Conde D, Chakraborty S, Balmant KM, Irving TB, Maia LGS, Triozzi PM, Dervinis C, Pereira WJ, Maeda J, Schmidt HW, Ané JM, Kirst M, Roy S. Knaack SA, et al. BMC Biol. 2022 Nov 9;20(1):252. doi: 10.1186/s12915-022-01450-9. BMC Biol. 2022. PMID: 36352404 Free PMC article.

3

Functional and comparative genomics reveals conserved noncoding sequences in the nitrogen-fixing clade.

Pereira WJ, Knaack S, Chakraborty S, Conde D, Folk RA, Triozzi PM, Balmant KM, Dervinis C, Schmidt HW, Ané JM, Roy S, Kirst M. Pereira WJ, et al. New Phytol. 2022 Apr;234(2):634-649. doi: 10.1111/nph.18006. Epub 2022 Feb 21. New Phytol. 2022. PMID: 35092309 Free PMC article.

4

An LCO-responsive homolog of NODULE INCEPTION positively regulates lateral root formation in Populus sp.

Irving TB, Chakraborty S, Maia LGS, Knaack S, Conde D, Schmidt HW, Triozzi PM, Simmons CH, Roy S, Kirst M, Ané JM. Irving TB, et al. Plant Physiol. 2022 Oct 27;190(3):1699-1714. doi: 10.1093/plphys/kiac356. Plant Physiol. 2022. PMID: 35929094 Free PMC article.

5

Single-nuclei transcriptome analysis of the shoot apex vascular system differentiation in Populus.

Conde D, Triozzi PM, Pereira WJ, Schmidt HW, Balmant KM, Knaack SA, Redondo-López A, Roy S, Dervinis C, Kirst M. Conde D, et al. Among authors: knaack sa. Development. 2022 Nov 1;149(21):dev200632. doi: 10.1242/dev.200632. Epub 2022 Oct 17. Development. 2022. PMID: 36178121 Free PMC article.

6

Enabling Studies of Genome-Scale Regulatory Network Evolution in Large Phylogenies with MRTLE.

Zhang S, Knaack S, Roy S. Zhang S, et al. Methods Mol Biol. 2022;2477:439-455. doi: 10.1007/978-1-0716-2257-5_24. Methods Mol Biol. 2022. PMID: 35524131 Free PMC article.

7

Reconstruction and Analysis of the Evolution of Modular Transcriptional Regulatory Programs Using Arboretum.

Knaack SA, Thompson DA, Roy S. Knaack SA, et al. Methods Mol Biol. 2016;1361:375-89. doi: 10.1007/978-1-4939-3079-1_21. Methods Mol Biol. 2016. PMID: 26483033 Free PMC article.

8

A pan-cancer modular regulatory network analysis to identify common and cancer-specific network components.

Knaack SA, Siahpirani AF, Roy S. Knaack SA, et al. Cancer Inform. 2014 Oct 28;13(Suppl 5):69-84. doi: 10.4137/CIN.S14058. eCollection 2014. Cancer Inform. 2014. PMID: 25374456 Free PMC article.

9

In silico prediction of high-resolution Hi-C interaction matrices.

Zhang S, Chasman D, Knaack S, Roy S. Zhang S, et al. Nat Commun. 2019 Dec 6;10(1):5449. doi: 10.1038/s41467-019-13423-8. Nat Commun. 2019. PMID: 31811132 Free PMC article.

10

Inference and Evolutionary Analysis of Genome-Scale Regulatory Networks in Large Phylogenies.

Koch C, Konieczka J, Delorey T, Lyons A, Socha A, Davis K, Knaack SA, Thompson D, O'Shea EK, Regev A, Roy S. Koch C, et al. Among authors: knaack sa. Cell Syst. 2017 May 24;4(5):543-558.e8. doi: 10.1016/j.cels.2017.04.010. Cell Syst. 2017. PMID: 28544882 Free PMC article.

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