Results 91 to 100 of about 563,469 (347)
PANNZER2: a rapid functional annotation web server [PDF]
Nucleic Acids Research, 2018 The unprecedented growth of high-throughput sequencing has led to an ever-widening annotation gap in protein databases. While computational prediction methods are available to make up the shortfall, a majority of public web servers are hindered by practical limitations and poor performance. Here, we introduce PANNZER2 (Protein ANNotation with Z-scoRE),
Medlar Alan, Holm Liisa, Törönen Petri
openaire +3 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 +3 more
wiley +1 more source
Functionally Annotating Regulatory Elements in the Equine Genome Using Histone Mark ChIP-Seq. [PDF]
, 2019 One of the primary aims of the Functional Annotation of ANimal Genomes (FAANG) initiative is to characterize tissue-specific regulation within animal genomes.
Bellone, Rebecca R +9 more
core +2 more sources
On gene ontology and function annotation [PDF]
Bioinformation, 2006 The effort of function annotation does not merely involve associating a gene with some structured vocabulary that describes action. Rather the details of the actions, the components of the actions, the larger context of the actions are important issues that are of direct relevance, because they help understand the biological system to which the gene ...
openaire +2 more sources
ConFunc—functional annotation in the twilight zone [PDF]
Bioinformatics, 2008 Abstract Motivation: The success of genome sequencing has resulted in many protein sequences without functional annotation. We present ConFunc, an automated Gene Ontology (GO)-based protein function prediction approach, which uses conserved residues to generate sequence profiles to infer function.
Wass, MN, Sternberg, MJE
openaire +4 more sources
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 +9 more
wiley +1 more source
Treebank-based acquisition of wide-coverage, probabilistic LFG resources: project overview, results and evaluation [PDF]
, 2004 This paper presents an overview of a project to acquire wide-coverage, probabilistic Lexical-Functional Grammar (LFG) resources from treebanks. Our approach is based on an automatic annotation algorithm that annotates “raw” treebank trees with LFG f ...
Burke, Michael +4 more
core +1 more source
The newfound relationship between extrachromosomal DNAs and excised signal circles
FEBS Letters, EarlyView.Extrachromosomal DNAs (ecDNAs) contribute to the progression of many human cancers. In addition, circular DNA by‐products of V(D)J recombination, excised signal circles (ESCs), have roles in cancer progression but have largely been overlooked. In this Review, we explore the roles of ecDNAs and ESCs in cancer development, and highlight why these ...
Dylan Casey, Zeqian Gao, Joan Boyes
wiley +1 more source
Target identification in Fusobacterium nucleatum by subtractive genomics approach and enrichment analysis of host-pathogen protein-protein interactions [PDF]
, 2016 Homology based HP-PPIs predicted from HPIDB. Table S9. Pathway enrichment analysis of host genes from DAVID functional annotation tool. Table S10. Gene ontology report of host genes. Table S11. Disease enrichment analysis of host genes participated in HP-
Amit Kumar +3 more
core +4 more sources
FEBS Letters, EarlyView.This study reveals how the mitochondrial protein Slm35 is regulated in Saccharomyces cerevisiae. The authors identify stress‐responsive DNA elements and two upstream open reading frames (uORFs) in the 5′ untranslated region of SLM35. One uORF restricts translation, and its mutation increases Slm35 protein levels and mitophagy.
Hernán Romo‐Casanueva +5 more
wiley +1 more source