Transcriptional Regulation and Implications for Controlling Hox Gene Expression

Z Afzal, R Krumlauf - Journal of Developmental Biology, 2022 - mdpi.com
Hox genes play key roles in axial patterning and regulating the regional identity of cells and
tissues in a wide variety of animals from invertebrates to vertebrates. Nested domains of Hox …

[HTML][HTML] Hox genes in development and beyond

KA Hubert, DM Wellik - Development, 2023 - journals.biologists.com
Hox genes encode evolutionarily conserved transcription factors that are essential for the
proper development of bilaterian organisms. Hox genes are unique because they are …

Establishing and maintaining Hox profiles during spinal cord development

A Miller, JS Dasen - Seminars in Cell & Developmental Biology, 2024 - Elsevier
The chromosomally-arrayed Hox gene family plays central roles in embryonic patterning
and the specification of cell identities throughout the animal kingdom. In vertebrates, the …

SIMBA: single-cell embedding along with features

H Chen, J Ryu, ME Vinyard, A Lerer, L Pinello - Nature Methods, 2024 - nature.com
Most current single-cell analysis pipelines are limited to cell embeddings and rely heavily on
clustering, while lacking the ability to explicitly model interactions between different feature …

Synthetic regulatory reconstitution reveals principles of mammalian Hox cluster regulation

S Pinglay, M Bulajić, DP Rahe, E Huang, R Brosh… - Science, 2022 - science.org
Precise Hox gene expression is crucial for embryonic patterning. Intra-Hox transcription
factor binding and distal enhancer elements have emerged as the major regulatory modules …

Cell-type-specific Hox regulatory strategies orchestrate tissue identity

R Loker, JE Sanner, RS Mann - Current Biology, 2021 - cell.com
Hox proteins are homeodomain transcription factors that diversify serially homologous
segments along the animal body axis, as revealed by the classic bithorax phenotype of …

DNA sequence and chromatin differentiate sequence-specific transcription factor binding in the human malaria parasite Plasmodium falciparum

VA Bonnell, Y Zhang, AS Brown, J Horton… - Nucleic acids …, 2024 - academic.oup.com
Abstract Development of the malaria parasite, Plasmodium falciparum, is regulated by a
limited number of sequence-specific transcription factors (TFs). However, the mechanisms …

CDX2 dose-dependently influences the gene regulatory network underlying human extraembryonic mesoderm development

EA Bulger, TC McDevitt, BG Bruneau - Biology open, 2024 - journals.biologists.com
Loss of Cdx2 in vivo leads to stunted development of the allantois, an extraembryonic
mesoderm-derived structure critical for nutrient delivery and waste removal in the early …

Androgen and glucocorticoid receptor direct distinct transcriptional programs by receptor-specific and shared DNA binding sites

M Kulik, M Bothe, G Kibar, A Fuchs… - Nucleic acids …, 2021 - academic.oup.com
The glucocorticoid (GR) and androgen (AR) receptors execute unique functions in vivo, yet
have nearly identical DNA binding specificities. To identify mechanisms that facilitate …

PRC1 sustains the integrity of neural fate in the absence of PRC2 function

A Sawai, S Pfennig, M Bulajić, A Miller… - Elife, 2022 - elifesciences.org
Polycomb repressive complexes (PRCs) 1 and 2 maintain stable cellular memories of early
fate decisions by establishing heritable patterns of gene repression. PRCs repress …