Results 71 to 80 of about 393,868 (257)

Nanopore direct RNA sequencing maps the complexity of Arabidopsis mRNA processing and m6A modification [PDF]

, 2020
Understanding genome organization and gene regulation requires insight into RNA transcription, processing and modification. We adapted nanopore direct RNA sequencing to examine RNA from a wild-type accession of the model plant Arabidopsis thaliana and a ...
Barton, Geoffrey J., Gould, Peter D., Hall, Anthony J. W., Knop, Katarzyna, Mackinnon, Katarzyna, Parker, Matthew T., Schurch, Nicholas J., Sherwood, Anna V., Simpson, Gordon G.   +8 more
core   +3 more sources

Disordered but rhythmic—the role of intrinsic protein disorder in eukaryotic circadian timing

FEBS Letters, EarlyView.
Unstructured domains known as intrinsically disordered regions (IDRs) are present in nearly every part of the eukaryotic core circadian oscillator. IDRs enable many diverse inter‐ and intramolecular interactions that support clock function. IDR conformations are highly tunable by post‐translational modifications and environmental conditions, which ...
Emery T. Usher, Jacqueline F. Pelham
wiley   +1 more source

De novo transcriptome sequencing and SSR markers development for Cedrela balansae C. DC., a native tree species of northwest Argentina [PDF]

, 2018
The endangered Cedrela balansae C.DC. (Meliaceae) is a high-value timber species with great potential for forest plantations that inhabits the tropical forests in Northwestern Argentina.
Acuña, Cintia Vanesa, Fernández, Paula, Fornes, Luis Fernando, Gonzalez, Sergio, Hopp, Horacio Esteban, Inza, María Virginia, Marcucci Poltri, Susana Noemí, Paniego, Norma Beatriz, Pomponio, María Florencia, Rivarola, Maximo Lisandro, Torales, Susana, Zelener, Noga   +11 more
core   +2 more sources

Protein pyrophosphorylation by inositol pyrophosphates — detection, function, and regulation

FEBS Letters, EarlyView.
Protein pyrophosphorylation is an unusual signaling mechanism that was discovered two decades ago. It can be driven by inositol pyrophosphate messengers and influences various cellular processes. Herein, we summarize the research progress and challenges of this field, covering pathways found to be regulated by this posttranslational modification as ...
Sarah Lampe, Tanmay Kumar Mohanty, Rashna Bhandari, Dorothea Fiedler   +3 more
wiley   +1 more source

Prediction of enzyme function based on 3D templates of evolutionarily important amino acids

BMC Bioinformatics, 2008
Background Structural genomics projects such as the Protein Structure Initiative (PSI) yield many new structures, but often these have no known molecular functions.
Chen Brian Y, Erdin Serkan, Lisewski Andreas, Ward R Matthew, Kristensen David M, Fofanov Viacheslav Y, Kimmel Marek, Kavraki Lydia E, Lichtarge Olivier   +8 more
doaj   +1 more source

Developing and applying heterogeneous phylogenetic models with XRate [PDF]

, 2012
Modeling sequence evolution on phylogenetic trees is a useful technique in computational biology. Especially powerful are models which take account of the heterogeneous nature of sequence evolution according to the "grammar" of the encoded gene features.
A Heger, A Siepel, A Varadarajan, AJ Drummond, B Knudsen, B Knudsen, Christos A. Ouzounis, D Ayres, DB Searls, E Birney, G Lunter, GSC Slater, Ian Holmes, IM Meyer, J Felsenstein, J Goecks, J Watts, JS Pedersen, L Stein, M Garber, M Hasegawa, M Kimura, M Zuker, ME Skinner, N Saitou, O Penn, Oscar Westesson, PS Klosterman, RK Bradley, SR Eddy, TH Jukes, WJ Kent, Z Yang   +32 more
core   +5 more sources

Substrate specificity of Burkholderia pseudomallei multidrug transporters is influenced by the hydrophilic patch in the substrate‐binding pocket

FEBS Letters, EarlyView.
Multidrug transporters BpeB and BpeF from the Gram‐negative pathogen Burkholderia pseudomallei have a hydrophilic patch in their substrate‐binding pocket. Drug susceptibility tests and growth curve analyses using an Escherichia coli recombinant expression system revealed that the hydrophilic patches of BpeB and BpeF are involved in the substrate ...
Ui Okada, Satoshi Murakami
wiley   +1 more source

Hayai-Annotation: A functional gene prediction tool that integrates orthologs and gene ontology for network analysis in plant species

Computational and Structural Biotechnology Journal
Hayai-Annotation, an annotation tool powered by the R-shinydashboard browser interface, implements a workflow that integrates sequence alignment using DIAMOND against UniProtKB Plants and ortholog inference using OrthoLoger. We here propose a pipeline to
Andrea Ghelfi, Sachiko Isobe
doaj   +1 more source

The Gene Ontology in 2010: extensions and refinements [PDF]

, 2010
The Gene Ontology (GO) Consortium (http://www.geneontology.org) (GOC) continues to develop, maintain and use a set of structured, controlled vocabularies for the annotation of genes, gene products and sequences.
Berardini, Tanya Z., Khodiyar, Varsha K., Lovering, Ruth C., Talmud, Philippa   +3 more
core  

Function‐driven design of a surrogate interleukin‐2 receptor ligand

FEBS Letters, EarlyView.
Interleukin (IL)‐2 signaling can be achieved and precisely fine‐tuned through the affinity, distance, and orientation of the heterodimeric receptors with their ligands. We designed a biased IL‐2 surrogate ligand that selectively promotes effector T and natural killer cell activation and differentiation. Interleukin (IL) receptors play a pivotal role in
Ziwei Tang, Zelin Cheng, Teng Li, Fulian Wang, Liangminghui Zhang, Xiuxiu He, Lili Liu, Wei Wang, Aibin Liang, Guang Yang   +9 more
wiley   +1 more source