Results 61 to 70 of about 8,924,942 (310)

On the Structure of RNA Branching Polytopes [PDF]

SIAM Journal on Applied Algebra and Geometry, 2018
The prevalent method for RNA secondary structure prediction for a single sequence is free energy minimization based on the nearest neighbor thermodynamic model (NNTM). One of the least well-developed parts of the model is the energy function assigned to the multibranch loops.
Fidel Barrera-Cruz, Christine E. Heitsch, Svetlana Poznanovic   +2 more
openaire   +4 more sources

An improved method for surface immobilisation of RNA: application to small Non-Coding RNA - mRNA pairing [PDF]

, 2013
Characterisation of RNA and its intermolecular interactions is increasing in importance as the inventory of known RNA functions continues to expand. RNA-RNA interactions are central to post-transcriptional gene regulation mechanisms in bacteria, and the ...
Darren M. Gowers (485354), Jack O Phillips, Anastasia J Callaghan, Vincent, H., Andrew R. Pickford (485355), Adam J Roberts, Louise E. Butt (485353), Stone, Carlanne, Charlotte E. Mardle (485352), Henderson, Charlotte, Adam J. Roberts (485350), Pickford, Andy, Carlanne M Stone, Roberts, Adam J., Butt, Louise, Charlotte A Henderson, Louise E Butt, Anastasia J. Callaghan (485356), Helen A Vincent, Charlotte E Mardle, Callaghan, Anastasia, Carlanne M. Stone (485351), Phillips, Jack, Jack O. Phillips (485348), Charlotte A. Henderson (485349), Gowers, Darren, Mardle, C., Andrew R Pickford, Helen A. Vincent (485347), Darren M Gowers, Henderson Charlotte A., Mardle Charlotte E., Callaghan Anastasia J., Pickford Andrew R., Phillips Jack O., Butt Louise E., Gowers Darren M., Vincent Helen A., Roberts Adam J., Stone Carlanne M.   +39 more
core   +2 more sources

A comparative analysis of mRNA enrichment strategies and guidance for improving their efficiency

Scientific Reports
The pervasive presence of ribosomal RNA (rRNA) in total RNA poses a considerable challenge to the accurate analysis of cellular transcriptomes. In this study, we comprehensively analyze strategies for Saccharomyces cerevisiae mRNA enrichment, aiming to ...
Angelika Andrzejewska-Romanowska, Ewa Tykwińska, Paweł Śledziński, Katarzyna Pachulska-Wieczorek   +3 more
doaj   +1 more source

A normal genetic variation modulates synaptic MMP‐9 protein levels and the severity of schizophrenia symptoms

EMBO Molecular Medicine, 2017
Matrix metalloproteinase 9 (MMP‐9) has recently emerged as a molecule that contributes to pathological synaptic plasticity in schizophrenia, but explanation of the underlying mechanisms has been missing.
Katarzyna Lepeta, Katarzyna J Purzycka, Katarzyna Pachulska‐Wieczorek, Marina Mitjans, Martin Begemann, Behnam Vafadari, Krystian Bijata, Ryszard W Adamiak, Hannelore Ehrenreich, Magdalena Dziembowska, Leszek Kaczmarek   +10 more
doaj   +1 more source

Diversity and complexity in neural organoids

FEBS Letters, EarlyView.
Neural organoid research aims to expand genetic diversity on one side and increase tissue complexity on the other. Chimeroids integrate multiple donor genomes within single organoids. Self‐organising multi‐identity organoids, exogenous cell seeding, or enforced assembly of region‐specific organoids contribute to tissue complexity.
Ilaria Chiaradia, Madeline A. Lancaster
wiley   +1 more source

Topological Classification of RNA Structures [PDF]

Journal of Molecular Biology, 2008
We present a novel topological classification of RNA secondary structures with pseudoknots. It is based on the topological genus of the circular diagram associated to the RNA base-pair structure. The genus is a positive integer number, whose value quantifies the topological complexity of the folded RNA structure.
Bon, Michael, Vernizzi, Graziano, Orland, Henri, Zee, A.   +3 more
openaire   +3 more sources

RNA structure determination: From 2D to 3D

Fundamental Research, 2023
RNA molecules serve a wide range of functions that are closely linked to their structures. The basic structural units of RNA consist of single- and double-stranded regions.
Jie Deng, Xianyang Fang, Lin Huang, Shanshan Li, Lilei Xu, Keqiong Ye, Jinsong Zhang, Kaiming Zhang, Qiangfeng Cliff Zhang   +8 more
doaj   +1 more source

Organizing the interface—Plasma membrane architecture and receptor dynamics in virus‐cell interactions

FEBS Letters, EarlyView.
Plasma membranes contain dynamic nanoscale domains that organize lipids and receptors. Because viruses operate at similar scales, this architecture shapes early infection steps, including attachment, receptor engagement, and entry. Using influenza A virus and HIV‐1 as examples, we highlight how receptor nanoclusters, multivalent glycan interactions ...
Jan Schlegel, Christian Sieben
wiley   +1 more source

Structural Elements in RNA

, 1991
This chapter describes the RNA structural characteristics that have emerged so far. Folded RNA molecules are stabilized by a variety of interactions, the most prevalent of which are stacking and hydrogen bonding between bases. Many interactions among backbone atoms also occur in the structure of tRNA, although they are often ignored when considering ...
Chastain, Michael, Tinoco, Ignacio
openaire   +2 more sources

The dual role of Spn-E in supporting heterotypic ping-pong piRNA amplification in silkworms

EMBO Reports
The PIWI-interacting RNA (piRNA) pathway plays a crucial role in silencing transposons in the germline. piRNA-guided target cleavage by PIWI proteins triggers the biogenesis of new piRNAs from the cleaved RNA fragments.
Natsuko Izumi, Keisuke Shoji, Lumi Negishi, Yukihide Tomari   +3 more
doaj   +1 more source