Dantas Machado AC - Search Results

1

Diet and feeding pattern modulate diurnal dynamics of the ileal microbiome and transcriptome.

Dantas Machado AC, Brown SD, Lingaraju A, Sivaganesh V, Martino C, Chaix A, Zhao P, Pinto AFM, Chang MW, Richter RA, Saghatelian A, Saltiel AR, Knight R, Panda S, Zarrinpar A. Dantas Machado AC, et al. Cell Rep. 2022 Jul 5;40(1):111008. doi: 10.1016/j.celrep.2022.111008. Cell Rep. 2022. PMID: 35793637 Free PMC article.

2

Intestinal transgene delivery with native E. coli chassis allows persistent physiological changes.

Russell BJ, Brown SD, Siguenza N, Mai I, Saran AR, Lingaraju A, Maissy ES, Dantas Machado AC, Pinto AFM, Sanchez C, Rossitto LA, Miyamoto Y, Richter RA, Ho SB, Eckmann L, Hasty J, Gonzalez DJ, Saghatelian A, Knight R, Zarrinpar A. Russell BJ, et al. Among authors: dantas machado ac. Cell. 2022 Aug 18;185(17):3263-3277.e15. doi: 10.1016/j.cell.2022.06.050. Epub 2022 Aug 4. Cell. 2022. PMID: 35931082 Free PMC article.

3

Intermittent Hypoxia and Hypercapnia Alter Diurnal Rhythms of Luminal Gut Microbiome and Metabolome.

Allaband C, Lingaraju A, Martino C, Russell B, Tripathi A, Poulsen O, Dantas Machado AC, Zhou D, Xue J, Elijah E, Malhotra A, Dorrestein PC, Knight R, Haddad GG, Zarrinpar A. Allaband C, et al. Among authors: dantas machado ac. mSystems. 2021 Jun 29;6(3):e0011621. doi: 10.1128/mSystems.00116-21. Online ahead of print. mSystems. 2021. PMID: 34184915 Free PMC article.

4

DNAshape: a method for the high-throughput prediction of DNA structural features on a genomic scale.

Zhou T, Yang L, Lu Y, Dror I, Dantas Machado AC, Ghane T, Di Felice R, Rohs R. Zhou T, et al. Among authors: dantas machado ac. Nucleic Acids Res. 2013 Jul;41(Web Server issue):W56-62. doi: 10.1093/nar/gkt437. Epub 2013 May 22. Nucleic Acids Res. 2013. PMID: 23703209 Free PMC article.

5

Crystal Structures of Ternary Complexes of MEF2 and NKX2-5 Bound to DNA Reveal a Disease Related Protein-Protein Interaction Interface.

Lei X, Zhao J, Sagendorf JM, Rajashekar N, Xu J, Dantas Machado AC, Sen C, Rohs R, Feng P, Chen L. Lei X, et al. Among authors: dantas machado ac. J Mol Biol. 2020 Sep 4;432(19):5499-5508. doi: 10.1016/j.jmb.2020.07.004. Epub 2020 Jul 15. J Mol Biol. 2020. PMID: 32681840 Free PMC article.

6

Structure of p53 binding to the BAX response element reveals DNA unwinding and compression to accommodate base-pair insertion.

Chen Y, Zhang X, Dantas Machado AC, Ding Y, Chen Z, Qin PZ, Rohs R, Chen L. Chen Y, et al. Among authors: dantas machado ac. Nucleic Acids Res. 2013 Sep;41(17):8368-76. doi: 10.1093/nar/gkt584. Epub 2013 Jul 8. Nucleic Acids Res. 2013. PMID: 23836939 Free PMC article.

7

Landscape of DNA binding signatures of myocyte enhancer factor-2B reveals a unique interplay of base and shape readout.

Dantas Machado AC, Cooper BH, Lei X, Di Felice R, Chen L, Rohs R. Dantas Machado AC, et al. Nucleic Acids Res. 2020 Sep 4;48(15):8529-8544. doi: 10.1093/nar/gkaa642. Nucleic Acids Res. 2020. PMID: 32738045 Free PMC article.

8

Structure of the Forkhead Domain of FOXA2 Bound to a Complete DNA Consensus Site.

Li J, Dantas Machado AC, Guo M, Sagendorf JM, Zhou Z, Jiang L, Chen X, Wu D, Qu L, Chen Z, Chen L, Rohs R, Chen Y. Li J, et al. Among authors: dantas machado ac. Biochemistry. 2017 Jul 25;56(29):3745-3753. doi: 10.1021/acs.biochem.7b00211. Epub 2017 Jul 11. Biochemistry. 2017. PMID: 28644006 Free PMC article.

9

Conformations of p53 response elements in solution deduced using site-directed spin labeling and Monte Carlo sampling.

Zhang X, Dantas Machado AC, Ding Y, Chen Y, Lu Y, Duan Y, Tham KW, Chen L, Rohs R, Qin PZ. Zhang X, et al. Among authors: dantas machado ac. Nucleic Acids Res. 2014 Feb;42(4):2789-97. doi: 10.1093/nar/gkt1219. Epub 2013 Nov 30. Nucleic Acids Res. 2014. PMID: 24293651 Free PMC article.

10

The RNA Polymerase α Subunit Recognizes the DNA Shape of the Upstream Promoter Element.

Lara-Gonzalez S, Dantas Machado AC, Rao S, Napoli AA, Birktoft J, Di Felice R, Rohs R, Lawson CL. Lara-Gonzalez S, et al. Among authors: dantas machado ac. Biochemistry. 2020 Dec 8;59(48):4523-4532. doi: 10.1021/acs.biochem.0c00571. Epub 2020 Nov 18. Biochemistry. 2020. PMID: 33205945 Free PMC article.

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