Clustering protein environments for function prediction: finding PROSITE motifs in 3D
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MicroRNAs (miRNAs) comprise a large set of short noncoding RNAs that bind to messenger RNAs (mRNAs) to reduce their translation into functional proteins. Computational prediction of miRNA targets is the first stage in the discovery and validation of new re ...
The specific labeling of proteins with synthetic probes is a powerful approach to study protein function and protein tags have been widely used for this purpose. A well-established example for a self-labeling protein tag is SNAP-tag. It specifically reacts ...
We introduce a nonradial potential term for coarse-grained (CG) molecular simulations of proteins. This term mimics the backbone dipole−dipole interactions and accounts for the needed directionality to form stable folded secondary structure elements. We sh ...
For better understanding the genetic mechanisms underlying clinical observations, and better defining a group of potential candidates for protein-family-inhibiting therapy, it is interesting to determine the correlations between genomic, clinical data and ...
A misfolded conformer of the cellular prion protein, denoted as scrapie prion protein, is considered responsible for a variety of fatal neurodegenerative diseases. Both, the function of the protein in its native conformation as well as the factors that tri ...
In this letter, an unsupervised kernel-based approach to change detection is introduced. Nonlinear clustering is utilized to partition in two a selected subset of pixels representing both changed and unchanged areas. Once the optimal clustering is obtained ...
After a major flood catastrophe, a precious information is the delineation of the affected areas. Remote sensing imagery, especially synthetic aperture radar, allows to obtain a global and complete view of the situation. However, the detection of the flood ...
Conventional linear subspace learning methods like principal component analysis (PCA), linear discriminant analysis (LDA) derive subspaces from the whole data set. These approaches have limitations in the sense that they are linear while the data distribut ...
Institute of Electrical and Electronics Engineers2011
InterPro, an integrated documentation resource of protein families, domains and functional sites, was created to integrate the major protein signature databases. Currently, it includes PROSITE, Pfam, PRINTS, ProDom, SMART, TIGRFAMs, PIRSF and SUPERFAMILY. ...
For better understanding of genetic mechanisms underlying clinical observations, we often want to determine which genes and clinical traits are interrelated. We introduce a computational method that can find co-clusters or groups of genes and clinical para ...