Current Bioinformatics - Volume 5, Issue 2, 2010

In recent years, microarrays have become a key experimental tool, enabling the analysis of genome-wide patterns of gene expression. Numerous complex statistical problems arise during the analysis of microarray data and, therefore, only specialized statisticians are able to extract the expressed genes. This tutorial is aimed to help biologists to conduct some, also if rough, analysis of their microarray data immediately a Read More

Biomarker identification has been a critical component in drug discovery and development. Biomarkers have been utilized in several areas such as disease diagnosis, pharmacokinetics-pharmacodynamics (PK-PD) modeling, evaluation of efficacy and toxicity to guide both pre-clinical compound selection and clinical study of candidate compounds. Recent advances in genomics and bioinformatics have created a new paradigm in t Read More

Among childhood cancer, acute lymphoblastic leukaemia (ALL) has been the most extensively studied propelled by the desire to improve survival rate. DNA microarray technology has expanded rapidly providing an extensive source of data that promise to pave the way for better prognosis and diagnosis of cancer and identify key targets for drug development. DNA microarray data analysis has been carried out using statisti Read More

The determination of a protein's biochemical function from its 3D structure has proved more difficult than anticipated for structural genomics proteins, most of which are of unknown or uncertain function. Functional annotations typically have been assigned using the closest sequence or structure match, a practice that has resulted in large numbers of misannotated proteins. Recently it was reported that computed proton Read More

Over the past few years, research in phosphoproteomic has assisted a tremendous revolution thanks to instrumental technologies advances in mass spectrometry combined with innovative experimental strategies. This has allowed the identification of thousands of high confidence phosphosites. Presently, almost 60000 non-redundant phosphosites have been identified from ∼10000 non-redundant proteins and abo Read More