Selected publications:

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.

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


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

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