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deployment License: CC BY-SA 4.0


Welcome to the Brickman Lab wiki!

Here you can find documentation for our analysis workflows. For more information about our research, visit the Brickman Group website.

Transcriptional basis for cell fate choice

The Brickman Group aims to understand the transcriptional basis for early embryonic lineage specification.

We are interested in the dynamic mechanisms by which cells can both reversible prime towards a particular fate or undergo a transition into commitment.


Selected publications

Wong, Y. F., Kumar, Y., Proks, M., Herrera, J. A. R., Rothová,M. M., Monteiro, R. S., Pozzi, S., Jennings, R. E., Hanley, N. A., Bickmore, W. A., and Brickman, J. M. (2023). Expansion of ventral foregut is linked to changes in the enhancer landscape for organ-specific differentiation. Nature Cell Biology, doi: 10.1038/s41556-022-01075-8.

Perera, M., Nissen, S. B., Proks, M., Pozzi, S., Monteiro, R. S., Trusina, A., and Brickman, J. M. (2022). Transcriptional heterogeneity and cell cycle regulation as central determinants of Primitive Endoderm priming. eLife, doi: 10.7554/eLife.78967.

Rothová, M. M., Nielsen, A. V., Proks, M., Wong, Y. F., Riveiro, A. R., Linneberg-Agerholm, M., David, E., Amit, I., Trusina, A., and Brickman, J. M. (2022). Identification of the central intermediate in the extra-embryonic to embryonic endoderm transition through single-cell transcriptomics. Nature Cell Biology, doi: 10.1038/s41556-022-00923-x.

Riveiro, A. R., and Brickman, J. M. (2020). From pluripotency to totipotency: an experimentalist's guide to cellular potency. Development, doi: 10.1242/dev.189845.

Hamilton, W.B., Mosesson, Y., Monteiro, R.S., Emdal, K.B., Knudsen, T.E., Francavilla, C., Barkai, N., Olsen, J.V. and Brickman, J.M. (2019). Dynamic lineage priming is driven via direct enhancer regulation by ERK. Nature, doi: 10.1038/s41586-019-1732-z.

Weinert, B.T., Narita, T., Satpathy, S., Srinivasan, B., Hansen, B.K., Scholz, C., Hamilton, W.B., Zucconi, B.E., Wang, W.W., Liu, W.R., Brickman, J.M., Kesicki, E.A., Lai, A., Bromberg, K.D., Cole, P.A., and Choudhary, C. (2018). Time-Resolved Analysis Reveals Rapid Dynamics and Broad Scope of the CBP/p300 Acetylome. Cell 174, 231-244.e212, doi:10.1016/j.cell.2018.04.033.

Anderson, K.G.V., Hamilton, W.B., Roske, F.V., Azad, A., Knudsen, T.E., Canham, M.A., Forrester, L.M., and Brickman, J.M. (2017). Insulin fine-tunes self-renewal pathways governing naive pluripotency and extra-embryonic endoderm. Nature Cell Biology 19, 1164-1177, doi:10.1038/ncb3617.

Nissen, S.B., Perera, M., Gonzalez, J.M., Morgani, S.M., Jensen, M.H., Sneppen, K., Brickman, J.M., and Trusina, A. (2017). Four simple rules that are sufficient to generate the mammalian blastocyst. PLoS Biol 15, e2000737, doi:10.1371/journal.pbio.2000737. *joint senior author

Migueles, R.P., Shaw, L., Rodrigues, N.P., May, G., Henseleit, K., Anderson, K.G., Goker, H., Jones, C.M., de Bruijn, M.F., Brickman, J.M., and Enver, T. (2017). Transcriptional regulation of Hhex in hematopoiesis and hematopoietic stem cell ontogeny. Developmental Biology 424, 236-245, doi:10.1016/j.ydbio.2016.12.021.

Illingworth, R.S., Hölzenspies, J.J., Roske, F.V., Bickmore, W.A., and Brickman, J.M. (2016). Polycomb enables primitive endoderm lineage priming in embryonic stem cells. Elife 5, doi:10.7554/eLife.14926.

Martin Gonzalez, J., Morgani, S.M., Bone, R.A., Bonderup, K., Abelchian, S., Brakebusch, C., and Brickman, J.M. (2016). Embryonic Stem Cell Culture Conditions Support Distinct States Associated with Different Developmental Stages and Potency. Stem Cell Reports 7, 177-191, doi:10.1016/j.stemcr.2016.07.009.


Rothova et al., (2022). Nature Cell Biology. Single-cell RNA-seq datasets from FOXA2Venus reporter mouse embryos and embryonic stem cell differentiation towards endoderm.