Results 31 to 40 of about 1,352,832 (329)
Protocol dependence of sequencing-based gene expression measurements. [PDF]
PLoS ONE, 2011 RNA Seq provides unparalleled levels of information about the transcriptome including precise expression levels over a wide dynamic range. It is essential to understand how technical variation impacts the quality and interpretability of results, how ...
Tal Raz +5 more
doaj +1 more source
SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes
Bioinform., 2012 MOTIVATION In the analysis of homologous sequences, computation of multiple sequence alignments (MSAs) has become a bottleneck. This is especially troublesome for marker genes like the ribosomal RNA (rRNA) where already millions of sequences are publicly
E. Pruesse, J. Peplies, F. Glöckner
semanticscholar +1 more source
Control of ribosome traffic by position-dependent choice of synonymous codons [PDF]
Phys. Biol. 10 (2013) 056011, 2013 Messenger RNA encodes a sequence of amino acids by using codons. For most amino acids there are multiple synonymous codons that can encode the amino acid. The translation speed can vary from one codon to another, thus there is room for changing the ribosome speed while keeping the amino acid sequence and hence the resulting protein.
arxiv +1 more source
Memórias do Instituto Oswaldo Cruz, 2000 Snails of the genus Biomphalaria from Venezuela were subjected to morphological assessment as well as polymerase chain reaction and restriction fragment length polymorphism (PCR-RFLP) analysis.
R. Caldeira +4 more
semanticscholar +1 more source
Dielectrophoretic manipulation of ribosomal RNA [PDF]
Biomicrofluidics, 2011 The manipulation of ribosomal RNA (rRNA) extracted from E. coli cells by dielectrophoresis (DEP) has been demonstrated over the range of 3 kHz–50 MHz using interdigitated microelectrodes. Quantitative measurement using total internal reflection fluorescence microscopy of the time dependent collection indicated a positive DEP response characterized by a
Giraud, Gerard +13 more
openaire +4 more sources
Distribution of dwell times of a ribosome: effects of infidelity, kinetic proofreading and ribosome crowding [PDF]
Physical Biology, 8 (2011) 026005, 2010 Ribosome is a molecular machine that polymerizes a protein where the sequence of the amino acid residues, the monomers of the protein, is dictated by the sequence of codons (triplets of nucleotides) on a messenger RNA (mRNA) that serves as the template. The ribosome is a molecular motor that utilizes the template mRNA strand also as the track. Thus, in
arxiv +1 more source
Nucleic Acids Research, 1983 Using the in vitro mixed transcription system (Kajitani, M. and Ishihama, A. (1983) Nucleic Acids Res. 11, 671-686), we determined the two parameters of the promoter strength, i.e., the rate of open complex formation between RNA polymerase and promoter ...
M. Kajitani, A. Ishihama
semanticscholar +1 more source
Stochastic theory of protein synthesis and polysome: ribosome profile on a single mRNA transcript [PDF]
Journal of Theoretical Biology, vol.289, 36-46 (2011), 2011 The process of polymerizing a protein by a ribosome, using a messenger RNA (mRNA) as the corresponding template, is called {\it translation}. Ribosome may be regarded as a molecular motor for which the mRNA template serves also as the track. Often several ribosomes may translate the same (mRNA) simultaneously.
arxiv +1 more source
Dynamics of ribosomes in mRNA translation under steady and non-steady state conditions [PDF]
Phys. Rev. E 101, 062404 (2020), 2020 Recent advances in DNA sequencing and fluorescence imaging have made it possible to monitor the dynamics of ribosomes actively engaged in messenger RNA (mRNA) translation. Here, we model these experiments within the inhomogeneous totally asymmetric simple exclusion process (TASEP) using realistic kinetic parameters.
arxiv +1 more source
Cross-site comparison of ribosomal depletion kits for Illumina RNAseq library construction
BMC Genomics, 2018 Background Ribosomal RNA (rRNA) comprises at least 90% of total RNA extracted from mammalian tissue or cell line samples. Informative transcriptional profiling using massively parallel sequencing technologies requires either enrichment of mature poly ...
Zachary T. Herbert +20 more
doaj +1 more source