Videos tagged with Bioinformatics

A brief overview of bioinformatics computational problem landscape followed by a detailed look at one of the areas: multiple perturbation analysis of cells using reverse engineering principles. Speaker: Gary Bader Gary is Assistant Professor at the Terrence Donnelly Centre for Cellular and Biomolecular Research (CCBR) at the University of Toronto. http://baderlab.org/ Google Tech Talks August 2...

Parameter estimation has become a central problem in systems biology, both in the form of calibration of bottom-up models or as a component of reverse engineering algorithms. With a proliferation of algorithms proposed for these purposes it has become important to compare them in objective ways. I will argue that in silico biochemical network models are extremely useful for this purpose. Severa...

Gene regulation may be described by a set of deterministic differential equations describing the time rate evolution of the gene product concentrations, and containing parameters accounting for the regulatory relationships occurring in the gene network. We will present maximum likelihood based estimators of the parameters arising in this formalism and we will prove that they have desirable prop...

Elucidating biological networks appears nowadays as one of the most important challenge in systems biology. Due to the availability of various sources of data, machine learning has to play a major role regarding this issue, given its large spectrum of tools ranging from generative models to concept learning methods. In this work the focus is narrowed on the completion of biological interactions...

We present a new machine learning approach to the inverse parametric sequence alignment problem: given as training examples a set of correct pairwise global alignments, find the parameter values that make these alignments optimal.We consider the distribution of the scores of all incorrect alignments, then we search for those parameters for which the score of the given alignments is as far as po...

Guido D. Nez-Mujica will be presenting on Science, Innovation and entrepreneurship in developing countries, specifically in Venezuela, where he is from. He decided to stay there, instead of going abroad, to do some cheap biotechnology that is useful to people, solves unmet needs and allows us to use our knowledge for more than academic purposes. The conditions there are very different from the ...

A plausible representation of relational information among entities in dynamic systems such as a living cell or a social community is a stochastic network which is topologically rewiring and semantically evolving over time. While there is a rich literature on modeling static or temporally invariant networks, much less has been done toward modeling the dynamic processes underlying rewiring netwo...

In this work a new method for clustering and building a topographic representation of a bacteria taxonomy is presented. The method is based on the analysis of stable parts of the genome, the so-called “housekeeping genes”. The proposed method generates topographic maps of the bacteria taxonomy, where relations among different type strains can be visually inspected and verified. Two ...

Lecture slides: Need of System Approach for Biological Explanation of Anti-learnable Signature Overview Anti-learning in natural data CRT response for esophageal cancer Prediction of CRT response for Oesophageal Cancer Learning and anti-learning mode of supervised classification Label permutation test x 1,000; AC data Prediction for anti-learnable data LTO-cross validation KDD’02 task: id...

We present LungCAD, a computer aided diagnosis (CAD) system that employs a classification algorithm for detecting solid pulmonary nodules from CT thorax studies. We briefly describe some of the machine learning techniques developed to overcome the real world challenges in this medical domain. The most significant hurdle in transitioning from a machine learning research prototype that performs w...