Ay F - Search Results

1

Statistical confidence estimation for Hi-C data reveals regulatory chromatin contacts.

Ay F, Bailey TL, Noble WS. Ay F, et al. Genome Res. 2014 Jun;24(6):999-1011. doi: 10.1101/gr.160374.113. Epub 2014 Feb 5. Genome Res. 2014. PMID: 24501021 Free PMC article.

2

A double-negative thymocyte-specific enhancer augments Notch1 signaling to direct early T cell progenitor expansion, lineage restriction and β-selection.

Kashiwagi M, Figueroa DS, Ay F, Morgan BA, Georgopoulos K. Kashiwagi M, et al. Among authors: ay f. Nat Immunol. 2022 Nov;23(11):1628-1643. doi: 10.1038/s41590-022-01322-y. Epub 2022 Oct 31. Nat Immunol. 2022. PMID: 36316479 Free PMC article.

3

dcHiC detects differential compartments across multiple Hi-C datasets.

Chakraborty A, Wang JG, Ay F. Chakraborty A, et al. Among authors: ay f. Nat Commun. 2022 Nov 11;13(1):6827. doi: 10.1038/s41467-022-34626-6. Nat Commun. 2022. PMID: 36369226 Free PMC article.

4

Chromatin structure and var2csa - a tango in regulation of var gene expression in the human malaria parasite, Plasmodium falciparum?

Lenz T, Zhang X, Chakraborty A, Ardakany AR, Prudhomme J, Ay F, Deitsch K, Le Roch KG. Lenz T, et al. Among authors: ay f. bioRxiv [Preprint]. 2024 Feb 13:2024.02.13.580059. doi: 10.1101/2024.02.13.580059. bioRxiv. 2024. PMID: 38405848 Free PMC article. Preprint.

5

Predictive regulatory models in Drosophila melanogaster by integrative inference of transcriptional networks.

Marbach D, Roy S, Ay F, Meyer PE, Candeias R, Kahveci T, Bristow CA, Kellis M. Marbach D, et al. Among authors: ay f. Genome Res. 2012 Jul;22(7):1334-49. doi: 10.1101/gr.127191.111. Epub 2012 Mar 28. Genome Res. 2012. PMID: 22456606 Free PMC article.

6

Genomic interaction profiles in breast cancer reveal altered chromatin architecture.

Zeitz MJ, Ay F, Heidmann JD, Lerner PL, Noble WS, Steelman BN, Hoffman AR. Zeitz MJ, et al. Among authors: ay f. PLoS One. 2013 Sep 3;8(9):e73974. doi: 10.1371/journal.pone.0073974. eCollection 2013. PLoS One. 2013. PMID: 24019942 Free PMC article.

7

Implications of COMT long-range interactions on the phenotypic variability of 22q11.2 deletion syndrome.

Zeitz MJ, Lerner PP, Ay F, Van Nostrand E, Heidmann JD, Noble WS, Hoffman AR. Zeitz MJ, et al. Among authors: ay f. Nucleus. 2013 Nov-Dec;4(6):487-93. doi: 10.4161/nucl.27364. Epub 2013 Dec 5. Nucleus. 2013. PMID: 24448439 Free PMC article.

8

Three-dimensional modeling of the P. falciparum genome during the erythrocytic cycle reveals a strong connection between genome architecture and gene expression.

Ay F, Bunnik EM, Varoquaux N, Bol SM, Prudhomme J, Vert JP, Noble WS, Le Roch KG. Ay F, et al. Genome Res. 2014 Jun;24(6):974-88. doi: 10.1101/gr.169417.113. Epub 2014 Mar 26. Genome Res. 2014. PMID: 24671853 Free PMC article.

9

A statistical approach for inferring the 3D structure of the genome.

Varoquaux N, Ay F, Noble WS, Vert JP. Varoquaux N, et al. Among authors: ay f. Bioinformatics. 2014 Jun 15;30(12):i26-33. doi: 10.1093/bioinformatics/btu268. Bioinformatics. 2014. PMID: 24931992 Free PMC article.

10

Multiple dimensions of epigenetic gene regulation in the malaria parasite Plasmodium falciparum: gene regulation via histone modifications, nucleosome positioning and nuclear architecture in P. falciparum.

Ay F, Bunnik EM, Varoquaux N, Vert JP, Noble WS, Le Roch KG. Ay F, et al. Bioessays. 2015 Feb;37(2):182-94. doi: 10.1002/bies.201400145. Epub 2014 Nov 13. Bioessays. 2015. PMID: 25394267 Free PMC article.

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