iRegulon: from a gene list to a gene regulatory network using large motif and track collections
R Janky, A Verfaillie, H Imrichová… - PLoS computational …, 2014 - journals.plos.org
Identifying master regulators of biological processes and mapping their downstream gene
networks are key challenges in systems biology. We developed a computational method …
networks are key challenges in systems biology. We developed a computational method …
Mapping gene regulatory networks in Drosophila eye development by large-scale transcriptome perturbations and motif inference
Genome control is operated by transcription factors (TFs) controlling their target genes by
binding to promoters and enhancers. Conceptually, the interactions between TFs, their …
binding to promoters and enhancers. Conceptually, the interactions between TFs, their …
Fast and Furious 800. The Retinal Determination Gene Network in Drosophila
The Drosophila compound eye is formed by about 800 ommatidia or simple eyes, packed in
an almost crystalline lattice. The precise ommatidial arrangement makes the fly eye …
an almost crystalline lattice. The precise ommatidial arrangement makes the fly eye …
Synergistic activation by Glass and Pointed promotes neuronal identity in the Drosophila eye disc
H Wang, KK Bollepogu Raja, K Yeung… - Nature …, 2024 - nature.com
The integration of extrinsic signaling with cell-intrinsic transcription factors can direct
progenitor cells to differentiate into distinct cell fates. In the developing Drosophila eye …
progenitor cells to differentiate into distinct cell fates. In the developing Drosophila eye …
Systems Biology Reveals NR2F6 and TGFB1 as Key Regulators of Feed Efficiency in Beef Cattle
Systems biology approaches are used as strategy to uncover tissue-specific perturbations
and regulatory genes related to complex phenotypes. We applied this approach to study …
and regulatory genes related to complex phenotypes. We applied this approach to study …
The H3. 3K27M oncohistone antagonizes reprogramming in Drosophila
K Ahmad, S Henikoff - PLoS genetics, 2021 - journals.plos.org
Development proceeds by the activation of genes by transcription factors and the
inactivation of others by chromatin-mediated gene silencing. In certain cases development …
inactivation of others by chromatin-mediated gene silencing. In certain cases development …
A switch in transcription and cell fate governs the onset of an epigenetically-deregulated tumor in Drosophila
Tumor initiation is often linked to a loss of cellular identity. Transcriptional programs
determining cellular identity are preserved by epigenetically-acting chromatin factors …
determining cellular identity are preserved by epigenetically-acting chromatin factors …
Glass promotes the differentiation of neuronal and non-neuronal cell types in the Drosophila eye
Transcriptional regulators can specify different cell types from a pool of equivalent
progenitors by activating distinct developmental programs. The Glass transcription factor is …
progenitors by activating distinct developmental programs. The Glass transcription factor is …
The transcription factor Glass links eye field specification with photoreceptor differentiation in Drosophila
FJ Bernardo-Garcia, C Fritsch, SG Sprecher - Development, 2016 - journals.biologists.com
Eye development requires an evolutionarily conserved group of transcription factors, termed
the retinal determination network (RDN). However, little is known about the molecular …
the retinal determination network (RDN). However, little is known about the molecular …
Dynamic genome wide expression profiling of Drosophila head development reveals a novel role of Hunchback in retinal glia cell development and blood-brain …
M Torres-Oliva, J Schneider, G Wiegleb… - PLoS …, 2018 - journals.plos.org
Drosophila melanogaster head development represents a valuable process to study the
developmental control of various organs, such as the antennae, the dorsal ocelli and the …
developmental control of various organs, such as the antennae, the dorsal ocelli and the …