20 research outputs found
Quark-gluon vertex in general kinematics
The original publication can be found at www.springerlink.com Submitted to Cornell University’s online archive www.arXiv.org in 2007 by Jon-Ivar Skullerud. Post-print sourced from www.arxiv.org.We compute the quark–gluon vertex in quenched lattice QCD in the Landau gauge, using an off-shell mean-field O(a)-improved fermion action. The Dirac-vector part of the vertex is computed for arbitrary kinematics. We find a substantial infrared enhancement of the interaction strength regardless of the kinematics.Ayse Kizilersu, Derek B. Leinweber, Jon-Ivar Skullerud and Anthony G. William
Counts of different isoforms of miRNA cfa-mir-486-5p in the blood sample.
<p>Counts of different isoforms of miRNA cfa-mir-486-5p in the blood sample.</p
Identification of known and novel miRNA loci.
<p>Identification of known and novel miRNA loci.</p
Results of the computational prediction of miRNA loci, using miRCat and miRDeep2.
<p>Results of the computational prediction of miRNA loci, using miRCat and miRDeep2.</p
MiRNA expression plots and predicted secondary structures.
<p>Different colours in the plot correspond to different tissues as described in C). Green and purple-labelled bases in the hairpin figure indicate the most abundant read mapping to the 5' and 3' ends; conserved miRNA cfa-miR-371 (A) appears to be absent in heart and shows variable expression levels in the other tissues. B) Plots for a novel miRNA located in chromosome 15, supported by small RNA reads from the brain sample.</p
Counts of proTRAC piRNA predictions across tissues.
<p>Counts of proTRAC piRNA predictions across tissues.</p
Workflow for the generation of miRNA expression profiles and secondary structures.
<p>Small RNA reads are first mapped (A) to the hairpin sequences, looking for two peak alignment patterns as shown in B (see <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0153453#pone.0153453.s004" target="_blank">S4</a> and <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0153453#pone.0153453.s005" target="_blank">S5</a> Figs). Expression levels across each hairpin (B) and secondary structures (C) are then derived (<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0153453#pone.0153453.s006" target="_blank">S6</a> and <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0153453#pone.0153453.s007" target="_blank">S7</a> Figs).</p
Annotation of the complete set of miRNAs, based on genomic location.
<p>Annotation of the complete set of miRNAs, based on genomic location.</p
Human promoter CTAG1A and modified constructs.
<p>(<b>a</b>) The 535 base pair long promoter region of human gene CTAG1A is rich in CpGs and exhibits α-scores higher than the genomic distribution with pronounced peaks. Shown are the composite α<sub>k</sub>-scores (top), the individual α<sub>k</sub>-scores for different sizes of <i>k</i> in the middle graph (colour coded, blue = negative, red/orange = positive), and CpGs in yellow (bottom). The three strongest regions are marked by red bars. (<b>b</b>) In-vitro activity of the original CTAG1A promoter (hCTAG1A Promoter), the three strongest α-score regions deleted (hCTAG1A delta), the three strongest α-score regions replaced with sequences from the genomic concatomer (hCTAG1A replace), and the three strongest α-score regions replaced with sequences from the promoter-like concatomer (hCTAG1A UP). Also shown are results without any promoter (Negative CO) and the SV40 core promoter (SV40 Promoter AVG).</p
Calculation of the binding constants <i>k</i><sub>on</sub>, <i>k</i><sub>off</sub>, and <i>K<sub>D</sub></i> for the TFIIB binding assays.
<p>Calculation of the binding constants <i>k</i><sub>on</sub>, <i>k</i><sub>off</sub>, and <i>K<sub>D</sub></i> for the TFIIB binding assays.</p