Graphics processing units in bioinformatics, computational biology and systems biology

MS Nobile, P Cazzaniga, A Tangherloni… - Briefings in …, 2017 - academic.oup.com
Abstract Several studies in Bioinformatics, Computational Biology and Systems Biology rely
on the definition of physico-chemical or mathematical models of biological systems at …

Assessing protein disorder and induced folding

V Receveur‐Bréchot, JM Bourhis… - Proteins: Structure …, 2006 - Wiley Online Library
Intrinsically disordered proteins (IDPs) defy the structure–function paradigm as they fulfill
essential biological functions while lacking well‐defined secondary and tertiary structures …

A highly conserved program of neuronal microexons is misregulated in autistic brains

M Irimia, RJ Weatheritt, JD Ellis, NN Parikshak… - Cell, 2014 - cell.com
Alternative splicing (AS) generates vast transcriptomic and proteomic complexity. However,
which of the myriad of detected AS events provide important biological functions is not well …

An efficient algorithm for large-scale detection of protein families

AJ Enright, S Van Dongen… - Nucleic acids research, 2002 - academic.oup.com
Detection of protein families in large databases is one of the principal research objectives in
structural and functional genomics. Protein family classification can significantly contribute to …

Protein disorder prediction: implications for structural proteomics

R Linding, LJ Jensen, F Diella, P Bork, TJ Gibson… - Structure, 2003 - cell.com
A great challenge in the proteomics and structural genomics era is to predict protein
structure and function, including identification of those proteins that are partially or wholly …

A comparative study of the relationship between protein structure and β-aggregation in globular and intrinsically disordered proteins

R Linding, J Schymkowitz, F Rousseau, F Diella… - Journal of molecular …, 2004 - Elsevier
A growing number of proteins are being identified that are biologically active though
intrinsically disordered, in sharp contrast with the classic notion that proteins require a well …

The Complete Genome Sequence of Cupriavidus metallidurans Strain CH34, a Master Survivalist in Harsh and Anthropogenic Environments

PJ Janssen, R Van Houdt, H Moors, P Monsieurs… - PLoS …, 2010 - journals.plos.org
Many bacteria in the environment have adapted to the presence of toxic heavy metals. Over
the last 30 years, this heavy metal tolerance was the subject of extensive research. The …

Comparative genomics of transcriptional control in the human malaria parasite Plasmodium falciparum

RMR Coulson, N Hall, CA Ouzounis - Genome research, 2004 - genome.cshlp.org
The life cycle of the parasite Plasmodium falciparum, responsible for the most deadly form of
human malaria, requires specialized protein expression for survival in the mammalian host …

Pathogenic or not? And if so, then how? Studying the effects of missense mutations using bioinformatics methods

J Thusberg, M Vihinen - Human mutation, 2009 - Wiley Online Library
Many gene defects are relatively easy to identify experimentally, but obtaining information
about the effects of sequence variations and elucidation of the detailed molecular …

Genome‐wide identification of genes likely to be involved in human genetic disease

N López‐Bigas, CA Ouzounis - Nucleic acids research, 2004 - academic.oup.com
Sequence analysis of the group of proteins known to be associated with hereditary diseases
allows the detection of key distinctive features shared within this group. The disease proteins …