Bethe states of the trigonometric SU(3) spin chain with generic open boundaries

By combining the algebraic Bethe ansatz and the off-diagonal Bethe ansatz, we investigate the trigonometric SU(3) model with generic open boundaries. The eigenvalues of the transfer matrix are given in terms of an inhomogeneous T-Q relation, and the corresponding eigenstates are expressed in terms of nested Bethe-type eigenstates which have well-defined homogeneous limit. This exact solution provides a basis for further analyzing the thermodynamic properties and correlation functions of the anisotropic models associated with higher rank algebras.Comment: 17 pages, 3 tables. arXiv admin note: text overlap with arXiv:1705.0947

A convenient basis for the Izergin-Korepin model

We propose a convenient orthogonal basis of the Hilbert space for the Izergin-Korepin model (or the quantum spin chain associated with the $A^{(2)}_{2}$ algebra). It is shown that the monodromy-matrix elements acting on the basis take relatively simple forms (c.f. acting on the original basis ), which is quite similar as that in the so-called F-basis for the quantum spin chains associated with $A$-type (super)algebras. As an application, we present the recursive expressions of Bethe states in the basis for the Izergin-Korepin model.Comment: 24 pages, no figure

Exact physical quantities of a competing spin chain in the thermodynamic limit

We study the exact physical quantities of a competing spin chain which contains many interesting and meaningful couplings including the nearest neighbor, next nearest neighbor, chiral three spins, Dzyloshinsky-Moriya interactions and unparallel boundary magnetic fields in the thermodynamic limit. We obtain the density of zero roots, surface energies and elementary excitations in different regimes of model parameters. Due to the competition of various interactions, the surface energy and excited spectrum show many different pictures from those of the Heisenberg spin chain.Comment: 19 pages, 7 figure

Homo-binding character of LMO2 isoforms and their both synergic and antagonistic functions in regulating hematopoietic-related target genes

<p>Abstract</p> <p>Background</p> <p>The human <it>lmo2 </it>gene plays important roles in hematopoiesis and is associated with acute T lymphocyte leukemia. The gene encodes two protein isoforms, a longer form LMO2-L and a shorter form LMO2-S. Both isoforms function as bridge molecules to assemble their partners together to regulate their target genes. A typical LMO2 binding site consists of two elements, a GATA site and an E-box, with an interval of 9~12 bp.</p> <p>Methods</p> <p>In this study, the combination of MBP pulldown assay and mammalian two hybrid assay were used to confirm the homo-binding character of LMO2-L/-S isoforms. Luciferase reporter assay and Real-time PCR assay were used to detect expression levels and relative promoter activities of LMO2-L/-S isoforms. Co-transfection and Luciferase reporter assay were used to reveal the detailed regulatory pattern of LMO2-L/-S isoforms on their targets.</p> <p>Results</p> <p>Herein we report the homo-interaction character of LMO2-L and LMO2-S and their major difference in manner of regulating their target genes. Our results showed that LMO2-L and LMO2-S could only bind to themselves but not each other. It was also demonstrated that LMO2-L could either positively or negatively regulate the transcription of its different target genes, depending on the arrangement and strand location of the two elements GATA site and E-box, LMO2-S, however, performed constitutively transcriptional inhibiting function on all target genes.</p> <p>Conclusion</p> <p>These results suggest that LMO2 isoforms have independent functions while there is no interaction between each other and they could play synergetic or antagonistic roles precisely in regulating their different genes involved in normal and aberrant hematopoiesis.</p

isomiR2Function: An integrated workflow for identifying MicroRNA variants in plants

© 2017 Yang, Sablok, Qiao, Nie and Wen. In plants, post transcriptional regulation by non-coding RNAs (ncRNAs), in particular miRNAs (19-24 nt) has been involved in modulating the transcriptional landscape in developmental, biotic and abiotic interactions. In past few years, considerable focus has been leveraged on delineating and deciphering the role of miRNAs and their canonical isomiRs in plants. However, proper classification and accurate prediction of plant isomiRs taking into account the relative features by which we define isomiRs, such as templated or non-templated is still lacking. In the present research, we present isomiR2Function, a standalone easily deployable tool that allows for the robust and high-throughput discovery of templated and non-templated isomiRs. Additionally, isomiR2Function allows for identification of differentially expressed isomiRs and in parallel target prediction based on both transcripts or PARE-Seq either using Targetfinder or Cleaveland. isomiR2Function allows for the functional enrichment of the detected targets using TopGO package. Benchmarking of isomiR2Function revealed highly accurate prediction and classification of isomiRs as compared to the previously developed isomiR prediction tools. Additionally, the downstream implementation of additional features allows isomiR2Function to be classified as a single standalone tool for isomiR profiling from discovery to functional roles. All in all, isomiR2Function allows the streamline processing of the miRNA-seq for the identification and characterization of isomiRs with minimal efforts. isomiR2Function can be accessed through: https://gi thub.com/347033139/isomiR2Function