Logomaker: beautiful sequence logos in Python
Sequence logos are visually compelling ways of illustrating the biological properties of DNA,
RNA and protein sequences, yet it is currently difficult to generate and customize such logos …
RNA and protein sequences, yet it is currently difficult to generate and customize such logos …
plotnineSeqSuite: a Python package for visualizing sequence data using ggplot2 style
T Cao, Q Li, Y Huang, A Li - BMC genomics, 2023 - Springer
Background The visual sequence logo has been a hot area in the development of
bioinformatics tools. ggseqlogo written in R language has been the most popular API since it …
bioinformatics tools. ggseqlogo written in R language has been the most popular API since it …
R-chie: a web server and R package for visualizing cis and trans RNA–RNA, RNA–DNA and DNA–DNA interactions
V Tsybulskyi, M Mounir, IM Meyer - Nucleic acids research, 2020 - academic.oup.com
Interactions between biological entities are key to understanding their potential functional
roles. Three fields of research have recently made particular progress: the investigation of …
roles. Three fields of research have recently made particular progress: the investigation of …
RNA visualization: relevance and the current state-of-the-art focusing on pseudoknots
RNA visualization is crucial in order to understand the relationship that exists between RNA
structure and its function, as well as the development of better RNA structure prediction …
structure and its function, as well as the development of better RNA structure prediction …
The Small RNA NcS25 Regulates Biological Amine-Transporting Outer Membrane Porin BCAL3473 in Burkholderia cenocepacia
AM Sass, T Coenye - Msphere, 2023 - Am Soc Microbiol
Regulation of porin expression in bacteria is complex and often involves small-RNA
regulators. Several small-RNA regulators have been described for Burkholderia …
regulators. Several small-RNA regulators have been described for Burkholderia …
RNA structural alignments, part I: Sankoff-based approaches for structural alignments
JH Havgaard, J Gorodkin - RNA Sequence, Structure, and Function …, 2014 - Springer
Simultaneous alignment and secondary structure prediction of RNA sequences is often
referred to as “RNA structural alignment.” A class of the methods for structural alignment is …
referred to as “RNA structural alignment.” A class of the methods for structural alignment is …
BlockLogo: visualization of peptide and sequence motif conservation
BlockLogo is a web-server application for the visualization of protein and nucleotide
fragments, continuous protein sequence motifs, and discontinuous sequence motifs using …
fragments, continuous protein sequence motifs, and discontinuous sequence motifs using …
Drawing and editing the secondary structure (s) of RNA
Secondary structure diagrams are essential, in RNA biology, to communicate functional
hypotheses and summarize structural data, and communicate them visually as drafts or …
hypotheses and summarize structural data, and communicate them visually as drafts or …
Comparative RNA genomics
Over the last two decades it has become clear that RNA is much more than just a boring
intermediate in protein expression. Ancient RNAs still appear in the core information …
intermediate in protein expression. Ancient RNAs still appear in the core information …
Methylation guide RNA evolution in archaea: structure, function and genomic organization of 110 C/D box sRNA families across six Pyrobaculum species
LM Lui, AV Uzilov, DL Bernick, A Corredor… - Nucleic acids …, 2018 - academic.oup.com
Archaeal homologs of eukaryotic C/D box small nucleolar RNAs (C/D box sRNAs) guide
precise 2′-O-methyl modification of ribosomal and transfer RNAs. Although C/D box sRNA …
precise 2′-O-methyl modification of ribosomal and transfer RNAs. Although C/D box sRNA …