Bioinformatic identification of novel regulatory DNA sequence motifs in
BMC Microbiology, 2004 Background Streptomyces coelicolor is a bacterium with a vast repertoire of metabolic functions and complex systems of cellular development. Its genome sequence is rich in genes that encode regulatory proteins to control these processes in response to ...
Kormanec Jan +2 more
doaj +1 more source
Regulatory Signals in Genomic Sequences [PDF]
, 2007 Gene expression is a complex multiple-step process involving multiple levels of regulation, from transcription, nuclear processing, export, posttranscriptional modifications, translation, to degradation. Over evolutionary timescales, many of the interactions determining the fate of a gene have left traces in the genomic DNA.
Sonja J. Prohaska +2 more
openaire +1 more source
By dawn or dusk—how circadian timing rewrites bacterial infection outcomes
FEBS Letters, EarlyView.The circadian clock shapes immune function, yet its influence on infection outcomes is only beginning to be understood. This review highlights how circadian timing alters host responses to the bacterial pathogens Salmonella enterica, Listeria monocytogenes, and Streptococcus pneumoniae revealing that the effectiveness of immune defense depends not only
Devons Mo +2 more
wiley +1 more source
A k-mer grammar analysis to uncover maize regulatory architecture
BMC Plant Biology, 2019 Background Only a small percentage of the genome sequence is involved in regulation of gene expression, but to biochemically identify this portion is expensive and laborious.
María Katherine Mejía-Guerra +1 more
doaj +1 more source
The role of Gdf5 regulatory regions in development of hip morphology. [PDF]
PLoS ONE, 2018 Given GDF5 involvement in hip development, and osteoarthritis (OA) and developmental hip dysplasia (DDH) risk, here we sought to assess the role(s) of GDF5 and its regulatory sequence on the development of hip morphology linked to injury risk.
Ata M Kiapour +3 more
doaj +1 more source
An Exonic Splicing Enhancer within a Bidirectional Coding Sequence Regulates Alternative Splicing of an Antisense mRNA [PDF]
, 2010 The discovery of increasing numbers of genes with overlapping sequences highlights the problem of expression in the context of constraining regulatory elements from more than one gene.
Hastings, Michelle Laura +4 more
core +1 more source
Inherent size constraints on prokaryote gene networks due to "accelerating" growth
, 2004 Networks exhibiting "accelerating" growth have total link numbers growing faster than linearly with network size and can exhibit transitions from stationary to nonstationary statistics and from random to scale-free to regular statistics at particular ...
Gagen, M. J., Mattick, J. S.
core +1 more source
Isolation and characterization of strong gene regulatory sequences from apple, Malus x domestica [PDF]
, 2011 For the strong expression of genes in plant tissue, the availability of specific gene regulatory sequences is desired. We cloned promoter and terminator sequences of an apple (Malus x domestica) ribulose biphosphate carboxylase small subunit gene (MdRbcS)
Krens, F.A. +2 more
core +2 more sources
Phosphatidylinositol 4‐kinase as a target of pathogens—friend or foe?
FEBS Letters, EarlyView.This graphical summary illustrates the roles of phosphatidylinositol 4‐kinases (PI4Ks). PI4Ks regulate key cellular processes and can be hijacked by pathogens, such as viruses, bacteria and parasites, to support their intracellular replication. Their dual role as essential host enzymes and pathogen cofactors makes them promising drug targets.
Ana C. Mendes +3 more
wiley +1 more source
A multi-modal transformer for cell type-agnostic regulatory predictions
Cell GenomicsSummary: Sequence-based deep learning models have emerged as powerful tools for deciphering the cis-regulatory grammar of the human genome but cannot generalize to unobserved cellular contexts.
Nauman Javed +6 more
doaj +1 more source