UMBC College of Natural and Mathematical Sciences
Browse by
Collections in this community
Recent Submissions
-
Analysis of the SOS response of Vibrio and other bacteria with multiple chromosomes
(BMC, 2012-02-03)Background The SOS response is a well-known regulatory network present in most bacteria and aimed at addressing DNA damage. It has also been linked extensively to stress-induced mutagenesis, virulence and the emergence ... -
BioWord: A sequence manipulation suite for Microsoft Word
(BMC, 2012-06-07)Background The ability to manipulate, edit and process DNA and protein sequences has rapidly become a necessary skill for practicing biologists across a wide swath of disciplines. In spite of this, most everyday sequence ... -
scnRCA: A Novel Method to Detect Consistent Patterns of Translational Selection in Mutationally-Biased Genomes
(PLOS, 2013-10-07)Codon usage bias (CUB) results from the complex interplay between translational selection and mutational biases. Current methods for CUB analysis apply heuristics to integrate both components, limiting the depth and scope ... -
CollecTF: a database of experimentally validated transcription factor-binding sites in Bacteria
(Oxford Academic, 2013-11-14)The influx of high-throughput data and the need for complex models to describe the interaction of prokaryotic transcription factors (TF) with their target sites pose new challenges for TF-binding site databases. CollecTF ... -
Genome-Scale Analyses of Escherichia coli and Salmonella enterica AraC Reveal Noncanonical Targets and an Expanded Core Regulon
(American Society for Microbiology, 2013-11-22)Escherichia coli AraC is a well-described transcription activator of genes involved in arabinose metabolism. Using complementary genomic approaches, chromatin immunoprecipitation (ChIP)-chip, and transcription profiling, ... -
Identification and Characterization of VpsR and VpsT Binding Sites in Vibrio cholerae
(American Society for Microbiology, 2015-01-26)The ability to form biofilms is critical for environmental survival and transmission of Vibrio cholerae, a facultative human pathogen responsible for the disease cholera. Biofilm formation is controlled by several ... -
An SOS Regulon under Control of a Noncanonical LexA-Binding Motif in the Betaproteobacteria
(American Society for Microbiology, 2015-05-18)The SOS response is a transcriptional regulatory network governed by the LexA repressor that activates in response to DNA damage. In the Betaproteobacteria, LexA is known to target a palindromic sequence with the consensus ... -
Every Site Counts: Submitting Transcription Factor-Binding Site Information through the CollecTF Portal
(American Society for Microbiology, 2015-05-26)Experimentally verified transcription factor-binding sites represent an information-rich and highly applicable data type that aptly summarizes the results of time-consuming experiments and inference processes. Currently, ... -
The Verrucomicrobia LexA-Binding Motif: Insights into the Evolutionary Dynamics of the SOS Response
(Frontiers Media, 2016-07-20)The SOS response is the primary bacterial mechanism to address DNA damage, coordinating multiple cellular processes that include DNA repair, cell division, and translesion synthesis. In contrast to other regulatory systems, ... -
From data repositories to submission portals: rethinking the role of domain-specific databases in CollecTF
(Oxford Academic, 2015-04-25)Abstract Domain-specific databases are essential resources for the biomedical community, leveraging expert knowledge to curate published literature and provide access to referenced data and knowledge. The limited scope ... -
A Bayesian inference method for the analysis of transcriptional regulatory networks in metagenomic data
(BMC, 2016-07-08)Background Metagenomics enables the analysis of bacterial population composition and the study of emergent population features, such as shared metabolic pathways. Recently, we have shown that metagenomics datasets can be ... -
Assessment of transfer methods for comparative genomics of regulatory networks in bacteria
(BMC, 2016-08-31)Background Comparative genomics can leverage the vast amount of available genomic sequences to reconstruct and analyze transcriptional regulatory networks in Bacteria, but the efficacy of this approach hinges on the ability ... -
Parametric bootstrapping for biological sequence motifs
(BMC, 2016-10-06)Background Biological sequence motifs drive the specific interactions of proteins and nucleic acids. Accordingly, the effective computational discovery and analysis of such motifs is a central theme in bioinformatics. ... -
Comparative Analysis of Ralstonia solanacearum Methylomes
(Frontiers Media, 2017-04-13)Ralstonia solanacearum is an important soil-borne plant pathogen with broad geographical distribution and the ability to cause wilt disease in many agriculturally important crops. Genome sequencing of multiple R. solanacearum ... -
Functional nonequality of the cardiac and skeletal ryanodine receptors
(1997-02-04)Dihydropyridine receptors (DHPRs), which are voltage-gated Ca2+ channels, and ryanodine receptors (RyRs), which are intracellular Ca2+ release channels, are expressed in diverse cell types, including skeletal and cardiac ... -
Bitter Taste Transduction of Denatonium in the MudpuppyNecturus maculosus
(Society for Neuroscience, 1997-05-15)Bitter substances are a structurally diverse group of compounds that appear to act via several transduction mechanisms. The bitter-tasting denatonium ion has been proposed to act via two different G-protein-regulated ... -
IP3-Independent Release of Ca2+ From Intracellular Stores: A Novel Mechanism for Transduction of Bitter Stimuli
(American Physiological Society (APS), 1999-11-01)A variety of substances with different chemical structures elicits a bitter taste. Several different transduction mechanisms underlie detection of bitter tastants; however, these have been described in detail for only a ... -
Neural Networks Distinguish between Taste Qualities Based on Receptor Cell Population Responses
(Oxford Academic, 2001-06-01)Response features of taste receptor cell action potentials were examined using an artificial neural network to determine whether they contain information about taste quality. Using the loose patch technique to record from ... -
Maintenance of Rat Taste Buds in Primary Culture
(Oxford Academic, 2001-09-01)The differentiated taste bud is a complex end organ consisting of multiple cell types with various morphological, immunocytochemical and electrophysiological characteristics. Individual taste cells have a limited lifespan ... -
Acetylcholine Increases Intracellular Ca2+ in Taste Cells Via Activation of Muscarinic Receptors
(American Physiological Society (APS), 2002-06-01)Previous studies suggest that acetylcholine (ACh) is a transmitter released from taste cells as well as a transmitter in cholinergic efferent neurons innervating taste buds. However, the physiological effects on taste cells ...
RSS 1.0