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Selected publications:

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Sex-lethal is recruited to chromatin to promote neuronal tRNA synthesis in males through RNA Polymerase III regulation.

Storer F, McClure CD, Estacio Gomez A, Wong TL, Minkley LJ, Southall TD.

bioRxiv. 2025 

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Crosstalk between chromatin and Shavenbaby defines transcriptional output along the Drosophila intestinal stem cell lineage.
Mancheno-Ferris A, Immarigeon C, Rivero A, Depierre D, Schickele N, Fosseprez O, Chanard N, Aughey G, Lhoumaud P, Anglade J, Southall T, Plaza S, Payre F, Cuvier O, Polesello C.
iScience. 2023 Dec 3;27(1):108624. doi: 10.1016/j.isci.2023.108624. eCollection 2024 Jan 19. PMID: 38174321

 
Transcriptional memory of dFOXO activation in youth curtails later-life mortality through chromatin remodeling and Xbp1.
Martínez Corrales G, Li M, Svermova T, Goncalves A, Voicu D, Dobson AJ, Southall TD, Alic N.
Nat Aging. 2022 Dec;2(12):1176-1190. doi: 10.1038/s43587-022-00312-x. Epub 2022 Dec 1. PMID: 37118537 

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NuRD-independent Mi-2 activity represses ectopic gene expression during neuronal maturation.
Aughey GN, Forsberg E, Grimes K, Zhang S, Southall TD.
EMBO Rep. 2023 Feb 1:e55362. doi: 10.15252/embr.202255362. PMID: 36722816

 

An auxin-inducible, GAL4-compatible, gene expression system for Drosophila
McClure CD, Hassan A, Aughey GN, Butt K, Estacio-Gómez A, Duggal A, Ying Sia C, Barber AF, Southall TD.
Elife. 2022 Apr 1;11:e67598. doi: 10.7554/eLife.67598.

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Decoding gene regulation in the fly brain

Janssens, J., Aibar, S., Taskiran, I., Spanier, K., González-Blas, C.B., Quan, X.J., Ismail, J., Papasokrati, D., Hulselmans, G., Makhzami, S., De Waegeneer, M., Christiaens, V., De Rop, F., Estacio Gomez, A., Aughey, G.N., Dionne, M., Grimes, K., Southall, T.D., Aerts, S. (2022). Nature. https://doi.org/10.1038/s41586-021-04262-z

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Gene expression profiling of epidermal cell types in C. elegans using Targeted-DamID

Katsanos, D, Ferrando-Marco, M, Razzaq, I, Aughey, GN, Southall, TD, Barkoulas, M. (2021) Development. doi: 10.1242/dev.199452

 

Dynamic adult tracheal plasticity drives stem cell adaptation to changes in intestinal homeostasis in Drosophila
Perochon J, Yu Y, Aughey GN, Medina AB, Southall TD, Cordero JB.
Nat Cell Biol. 2021 May;23(5):485-496. doi: 10.1038/s41556-021-00676-z. Epub 2021 May 10.

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FlyORF-TaDa allows rapid generation of new lines for in vivo cell-type specific profiling of protein-DNA interactions in Drosophila melanogaster 

Aughey GN, Delandre C, McMullen JPD, Southall TD*,  Marshall, OJ*

G3 (Bethesda). 2021 Jan 18;11(1):jkaa005. doi: 10.1093/g3journal/jkaa005.

 

Dynamic neurotransmitter specific transcription factor expression profiles during Drosophila development.

Estacio-Gómez, A., Hassan, A., Walmsley, E.L., Le, L.W. and Southall, T.D.

Biology Open 2020 9: bio052928 doi: 10.1242/bio.052928

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Condensin I subunit Cap-G is essential for proper gene expression during the maturation of post-mitotic neurons.

Hassan A, Araguas Rodriguez P, Heidmann SK, Walmsley EL, Aughey GN, Southall TD.

Elife. 2020 Apr 7;9:e55159. doi: 10.7554/eLife.55159. Online ahead of print. PMID: 32255428 

 

Ets21c Governs Tissue Renewal, Stress Tolerance, and Aging in the Drosophila Intestine.

Mundorf J, Donohoe CD, McClure CD, Southall TD, Uhlirova M.

Cell Rep. 2019 Jun 4;27(10):3019-3033.e5. doi: 10.1016/j.celrep.2019.05.025.PMID: 31167145 

 

fs(1)h controls metabolic and immune function and enhances survival via AKT and FOXO in Drosophila.

Sharrock J, Estacio-Gomez A, Jacobson J, Kierdorf K, Southall TD, Dionne MS.

Dis Model Mech. 2019 Apr 4;12(4):dmm037259. doi: 10.1242/dmm.037259.PMID: 30910908 

 

Neuroblast-specific open chromatin allows the temporal transcription factor, Hunchback, to bind neuroblast-specific loci.

Sen SQ, Chanchani S, Southall TD, Doe CQ.

Elife. 2019 Jan 29;8:e44036. doi: 10.7554/eLife.44036.PMID: 30694180 

 

CATaDa reveals global remodelling of chromatin accessibility during stem cell differentiation in vivo.

Aughey GN, Estacio Gomez A, Thomson J, Yin H, Southall TD.

Elife. 2018 Feb 26;7:e32341. doi: 10.7554/eLife.32341.PMID: 29481322 

 

Comprehensive Characterization of the Complex lola Locus Reveals a Novel Role in the Octopaminergic Pathway via Tyramine Beta-Hydroxylase Regulation.

Dinges N, Morin V, Kreim N, Southall TD, Roignant JY.Cell Rep. 2017 Dec 5;21(10):2911-2925. doi: 10.1016/j.celrep.2017.11.015.PMID: 29212035 

 

Cell-type-specific profiling of protein-DNA interactions without cell isolation using targeted DamID with next-generation sequencing.

Marshall OJ, Southall TD, Cheetham SW, Brand AH.Nat Protoc. 2016 Sep;11(9):1586-98. doi: 10.1038/nprot.2016.084. Epub 2016 Aug 4.PMID: 27490632 

 

Dedifferentiation of neurons precedes tumor formation in Lola mutants.

Southall TD, Davidson CM, Miller C, Carr A, Brand AH.

Dev Cell. 2014 Mar 31;28(6):685-96. doi: 10.1016/j.devcel.2014.01.030. Epub 2014 Mar 13.PMID: 24631403 

 

Cell-type-specific profiling of gene expression and chromatin binding without cell isolation: assaying RNA Pol II occupancy in neural stem cells.

Southall TD, Gold KS, Egger B, Davidson CM, Caygill EE, Marshall OJ, Brand AH.

 

Review Articles:

 

DamID as a versatile tool for understanding gene regulation.

Aughey GN, Cheetham SW, Southall TD.

Development. 2019 Mar 15;146(6):dev173666. doi: 10.1242/dev.173666.PMID: 30877125  Review.

 

Dam it's good! DamID profiling of protein-DNA interactions.

Aughey GN, Southall TD.

Wiley Interdiscip Rev Dev Biol. 2016 Jan-Feb;5(1):25-37. doi: 10.1002/wdev.205. Epub 2015 Sep 18.PMID: 26383089  Review.

 

Getting Down to Specifics: Profiling Gene Expression and Protein-DNA Interactions in a Cell Type-Specific Manner.

McClure CD, Southall TD.

Adv Genet. 2015;91:103-151. doi: 10.1016/bs.adgen.2015.06.003. Epub 2015 Jul 23.PMID: 26410031  Review.

Open access PMC version

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