Software

OpenEnsembles

Software

Ensemble clustering refers to the process of perturbing the data, the relationships between the data, or the metrics by which relationships are judged and clustering many times under these perturbations (please see our review for a fuller explanat...

Read More View Project

ProteomeScout

Software

ProteomeScout is a database of post-translational modifications and their quantitative experiments. It has a powerful feature for visualizing proteins and their annotations, such as PTMs and mutations. Some key features of ProteomeScout include: A...

Read More View Project

ProteomeScoutAPI

Software

The ProteomeScoutAPI [publication] is a Python automatic programming interface for the ProteomeScout database downloads that allows for the easy interaction with post-translational modification information including proteins and their annotations....

Read More

Specificity Determining Positions

Software

Identifying which residues in a protein are important to determining its specificity (for example, why the LacI repressor protein is regulated by lactose, whereas its homolog FruR is regulated by fructose) is an important problem in biology. If we...

Read More

MCAM

Software

MCAM is the ensemble clustering method for unsupervised learning published here. Clustering is a method that seeks to group multidimensional data such that similar objects are in a group and in different group than dissimilar objects. However, sin...

Read More

PTMScout

Software

PTMScout [publication] was replaced by ProteomeScout. All features were maintained in ProteomeScout and extended.

Read More