ar345@columbia.edu.

We present a statistical method for the prediction of protein-protein interactions within an organism. This approach is based on the treatment of proteins as collections of conserved domains, where each domain is responsible for a specific interaction with another domain. By characterizing the frequency with which specific domain-domain interactions occur within known interactions, our model can assign a probability to an arbitrary interaction between any two proteins with defined domains. Domain interaction data is complemented with information on the topology of a network and is incorporated into the model by assigning greater probabilities to networks displaying more biologically realistic topologies. We use Markov chain Monte Carlo techniques for the prediction of posterior probabilities of interaction between a set of proteins; allowing its application to large data sets. In this work we attempt to predict interactions in a set of 40 human proteins, known to form a connected network, and discuss methods for future improvement.

The Focal Adhesion Analysis Server (FAAS) is a web-based implementation of a set of computer vision algorithms designed to quantify the behavior of focal adhesions in cells imaged in 2D cultures. The input consists of one or more images of a labeled focal adhesion protein. The outputs of the system include a range of static and dynamic measurements for the adhesions present in each image as well as how these properties change over time. The user is able to adjust several parameters important for proper focal adhesion identification. This system provides a straightforward tool for the global, unbiased assessment of focal adhesion behavior common in optical microscopy studies. The webserver is available at:. No competing interests were disclosed. Competing interests:Funding was provided to SMG by the University Cancer Research Fund (http://unclineberger.org/ucrf). Grant information:The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.© 2013 Berginski ME and Gomez SM. This is an open access article distributed under the terms of the Copyright:Creative Commons Attribution , which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Licence Berginski ME and Gomez SM. How to cite this article:The Focal Adhesion Analysis Server: a web tool for analyzing focal adhesion 2013, :68 ( ) dynamics [version 1; referees: 2 approved] F1000Research 2 https://doi