UNLABELLED Several methods for establishing cross-links between Protein Data Bank (PDB) structures or Structural Classification of Proteins (SCOP) domains and Swiss-Prot + TrEMBL sequences (or vice versa) rely on database annotations. Alternatively, sequence alignment procedures can be used. In this study, we describe Seq2Struct, a web resource for the identification of sequence-structure links...

IBCSR Research Review (IRR) is published by the Institute for the Biocultural Study of Religion, a non-profit research institute dedicated to the scientific study of the biocultural aspects of religion. IRR briefly annotates and furnishes online information about scientific research articles related to brain, behavior, culture, and religion published in English in leading journals. It also list...

As diverse scientific data collections migrate online, researchers want the ability to share their assertions regarding the entities that span these disparate databases. We focus on a case study provided by the astronomical community’s Virtual Observatory effort to investigate the use of annotation to record and share the celestial object mappings asserted by different research groups. The prot...

In this paper, educational and technical challenges for applying learning pathways in Massive(ly) Open Online Courses in higher education are outlined. We argue that quality issues and didactical concerns may be overcome by (1) reverting to small Open Educational Resources that are (2) adaptively joined into concise courses by considering (3) predefined learning pathways with proper semantic an...

In this demo paper we provide a brief overview of the main features of LODE, the Live OWL Documentation Environment. LODE is an online service that generates a human-readable description of any OWL ontology, taking into account both the ontological axioms and the annotations, and ordering these with the appearance and functionality of a W3C Recommendations web page, namely as an HTML page with ...

Because of considerable interest from Congress, the National Institutes of Health (NIH), and the public about animal welfare and alternatives to animal testing, the National Library of Medicine (NLM) searches its online databases and prepares quarterly annotated bibliographies on alternative or in vitro methods for toxicity testing and biomedical research. The objective is to present current li...

The "Kitab al-abniya an haqa iq al-adwiya" (Book of the Foundations of Pharmacognosy) also Known as "Rozat ol-ons wa manfa 'ar on-nafs" is the most ancient medical book in Persian (Farsi), which was written by Abu Mansur Movaffaq ibn Ali Heravi during the period of Mansur ibn Noh Samani between the years 350 to 366 lunar hegira. The book deals with 584 mineral, herbal and animal-based drugs. Th...

Hospitals produce millions of patient records consisting of clinical annotations containing extensive usage of abbreviations. The data in these clinical annotations are an excellent source for bioinformatics research but the use of abbreviations can create ambiguity. The main objective of our research is to develop a software application that takes a medical acronym as input and accesses medica...

The HuRef Genome Browser is a web application for the navigation and analysis of the previously published genome of a human individual, termed HuRef. The browser provides a comparative view between the NCBI human reference sequence and the HuRef assembly, and it enables the navigation of the HuRef genome in the context of HuRef, NCBI and Ensembl annotations. Single nucleotide polymorphisms, ind...

Existing methods for computing the semantic similarity between Gene Ontology (GO) terms are often based on external datasets and, therefore are not intrinsic to GO. Furthermore, they not only fail to handle identical annotations but also show a strong bias toward well-annotated proteins when being used for measuring similarity of proteins. Inspired by the concept of cellular differentiation and...