Lattice-based simulation of the effects of nutrient concentration and magnetic field exposure on yeast colony growth and morphology [PDF]
arXiv, 2021 Yeasts exist in communities that expand over space and time to form complex structures and patterns. We developed a computational lattice-based framework to perform spatial-temporal simulations of budding yeast colonies exposed to different nutrient and magnetic field conditions. The budding patterns of haploid and diploid yeast cells were incorporated
arxiv
A new framework for identifying combinatorial regulation of transcription factors: a case study of the yeast cell cycle [PDF]
Journal of Biomedical Informatics Volume 40, Issue 6, December
2007, Pages 707-725. Intelligent Data Analysis in Biomedicine, 2010 By integrating heterogeneous functional genomic datasets, we have developed a new framework for detecting combinatorial control of gene expression, which includes estimating transcription factor activities using a singular value decomposition method and reducing high-dimensional input gene space by considering genomic properties of gene clusters.
arxiv +1 more source
SSB-1 of the yeast Saccharomyces cerevisiae is a nucleolar-specific, silver-binding protein that is associated with the snR10 and snR11 small nuclear RNAs [PDF]
, 1990 SSB-1, the yeast single-strand RNA-binding protein, is demonstrated to be a yeast nucleolar-specific, silver-binding protein. In double-label immunofluorescence microscopy experiments antibodies to two other nucleolar proteins, RNA Pol I 190-kD and ...
Abelson, John +3 more
core +2 more sources
Nonspecific Protein-DNA Binding Is Widespread in the Yeast Genome [PDF]
Biophysical Journal 102(8), 1881-1888 (2012), 2012 Recent genome-wide measurements of binding preferences of ~200 transcription regulators in the vicinity of transcription start sites in yeast, have provided a unique insight into the cis- regulatory code of a eukaryotic genome (Venters et al., Mol. Cell 41, 480 (2011)).
arxiv +1 more source
A dynamic fluid landscape mediates the spread of bacteria [PDF]
arXiv, 2023 Microbial interactions regulate their spread and survival in competitive environments. It is not clear if the physical parameters of the environment regulate the outcome of these interactions. In this work, we show that the opportunistic pathogen Pseudomonas aeruginosa occupies a larger area on the substratum in the presence of yeast such as ...
arxiv
Identification of the mitochondrial receptor complex in Saccharomyces cerevisiae [PDF]
, 1992 Mitochondrial protein import involves the recognition of preproteins by receptors and their subsequent translocation across the outer membrane. In Neurospora crassa, the two import receptors, MOM19 and MOM72, were found in a complex with the general ...
Baker +25 more
core +1 more source
Impact of particle size reduction on high gravity enzymatic hydrolysis of steam-exploded wheat straw
SN Applied Sciences, 2021 Article Highlights Fiber size reduction benefits enzymatic high gravity hydrolysis of steam-exploded wheat straw. Small fiber size of ≤ 2.5 mm enables saccharification at 35% w/w solid loadings.
Luis Hoppert, Daniel Einfalt
doaj +1 more source
Molecules and Cells, 2001 The large number of signaling pathways and regulatory proteins that affect transcription highlights a need for funneling of information since transcription of all protein encoding genes is executed by the same set of general transcription factors and RNA polymerase II.
Björklund, Stefan +2 more
openaire +3 more sources
The Fission Yeast Cell Integrity Pathway: A Functional Hub for Cell Survival upon Stress and Beyond
Journal of Fungi, 2021 The survival of eukaryotic organisms during environmental changes is largely dependent on the adaptive responses elicited by signal transduction cascades, including those regulated by the Mitogen-Activated Protein Kinase (MAPK) pathways.
José Cansado +4 more
doaj +1 more source
Random Boolean Network Models and the Yeast Transcriptional Network [PDF]
Proc. Natl. Acad. Sci. USA 100 (2003) 14796-14799, 2004 The recently measured yeast transcriptional network is analyzed in terms of simplified Boolean network models, with the aim of determining feasible rule structures, given the requirement of stable solutions of the generated Boolean networks. We find that for ensembles of generated models, those with canalyzing Boolean rules are remarkably stable ...
arxiv +1 more source