96 Result(s)
within
English
Bioinformatics
**yi **a
Protocol
-
Protocol
Application of ProteinChip Array Profiling in Serum Biomarker Discovery for Patients Suffering From Severe Acute Respiratory Syndrome
A new strain of coronavirus has caused an outbreak of severe acute respiratory syndrome (SARS) from 2002 to 2003 resulting in 774 deaths worldwide. By protein chip array profiling technology, a number of serum...
-
Protocol
Predicting Synthetic Gene Networks
Synthetic biology aims at designing and building new biological functions in living organisms. The complexity of cellular regulation (regulatory, metabolic, and signaling interactions, and their coordinated ac...
-
Protocol
Computational Design of Artificial RNA Molecules for Gene Regulation
RNA interference (RNAi) is a powerful tool for the regulation of gene expression. Small exogenous noncoding RNAs (ncRNAs) such as siRNA and shRNA are the active silencing agents, intended to target and cleave ...
-
Protocol
Erratum to: Classification and Clustering on Microarray Data for Gene Functional Prediction Using R
-
Protocol
Taking Bioinformatics to Systems Medicine
Systems medicine promotes a range of approaches and strategies to study human health and disease at a systems level with the aim of improving the overall well-being of (healthy) individuals, and preventing, di...
-
Protocol
Systems Medicine for Lung Diseases: Phenotypes and Precision Medicine in Cancer, Infection, and Allergy
Lung diseases cause an enormous socioeconomic burden. Four of them are among the ten most important causes of deaths worldwide: Pneumonia has the highest death toll of all infectious diseases, lung cancer kill...
-
Protocol
Erratum to: Sequence Segmentation with changeptGUI
-
Protocol
Evaluating Computational Gene Ontology Annotations
Two avenues to understanding gene function are complementary and often overlap**: experimental work and computational prediction. While experimental annotation generally produces high-quality annotations, it...
-
Protocol
Get GO! Retrieving GO Data Using AmiGO, QuickGO, API, Files, and Tools
The Gene Ontology Consortium (GOC) produces a wealth of resources widely used throughout the scientific community. In this chapter, we discuss the different ways in which researchers can access the resources o...
-
Protocol
Gene-Category Analysis
Gene-category analysis is one important knowledge integration approach in biomedical sciences that combines knowledge bases such as Gene Ontology with lists of genes or their products, which are often the resu...
-
Protocol
Visualizing GO Annotations
Contemporary techniques in biology produce readouts for large numbers of genes simultaneously, the typical example being differential gene expression measurements. Moreover, those genes are often richly annota...
-
Protocol
Annotation Extensions
The specificity of knowledge that Gene Ontology (GO) annotations currently can represent is still restricted by the legacy format of the GO annotation file, a format intentionally designed for simplicity to ke...
-
Protocol
The Vision and Challenges of the Gene Ontology
The overarching goal of the Gene Ontology (GO) Consortium is to provide researchers in biology and biomedicine with all current functional information concerning genes and the cellular context under which thes...
-
Protocol
Primer on Ontologies
As molecular biology has increasingly become a data-intensive discipline, ontologies have emerged as an essential computational tool to assist in the organisation, description and analysis of data. Ontologies ...
-
Protocol
Complementary Sources of Protein Functional Information: The Far Side of GO
The GO captures many aspects of functional annotations, but there are other alternative complementary sources of protein function information. For example, enzyme functional annotations are described in a rang...
-
Protocol
Primer on the Gene Ontology
The Gene Ontology (GO) project is the largest resource for cataloguing gene function. The combination of solid conceptual underpinnings and a practical set of features have made the GO a widely adopted resourc...
-
Protocol
How Does the Scientific Community Contribute to Gene Ontology?
Collaborations between the scientific community and members of the Gene Ontology (GO) Consortium have led to an increase in the number and specificity of GO terms, as well as increasing the number of GO annota...
-
Protocol
Semantic Similarity in the Gene Ontology
Gene Ontology-based semantic similarity (SS) allows the comparison of GO terms or entities annotated with GO terms, by leveraging on the ontology structure and properties and on annotation corpora. In the last...
-
Protocol
A Gene Ontology Tutorial in Python
This chapter is a tutorial on using Gene Ontology resources in the Python programming language. This entails querying the Gene Ontology graph, retrieving Gene Ontology annotations, performing gene enrichment a...
-
Protocol
The Evidence and Conclusion Ontology (ECO): Supporting GO Annotations
The Evidence and Conclusion Ontology (ECO) is a community resource for describing the various types of evidence that are generated during the course of a scientific study and which are typically used to suppor...
