Mixture models on graphs
Description
One of the most fundamental challenges in the analysis of 'omics data sets
is clustering the relevant quantities (gene transcripts, protein levels, etc.) into
distinct groups. One of the simplest instances occurs when comparing data obtained
from two different conditions, where the basic task is to assess whether
a quantity is upregulated, downregulated or unregulated. This task has traditionally
been addressed using t-statistics or, from a probabilistic point of view,
mixture models, with one mixture representing one of the three states of regulation.
This approach tacitly assumes the various measurements to be independently
drawn from the same mixture distribution. However, it is well known that biological
quantities (genes, enzymes, etc.) are not independent, but they are
linked in an often very complex network of interactions at various levels. It is
therefore reasonable to use available network structure (and weighting) information
in order to obtain a more accurate inference of the expression state. This
can also be found useful in finding suitable subnetworks that exhibit coherent
behaviours, giving rise to testable biological predictions.
In this contribution, we introduce a probabilistic model that implements
mixture models on a graph. The graph structure is encoded in a set of conditional
prior distributions over the latent class memberships. This formulation
leads naturally to a Gibbs sampling approach. We present preliminary results
on synthetic and real data where gene expression is modelled as a mixture of a
Gaussian and two exponential distributions.
| Slides | |
| 0:00 | Mixture Models on Graphs |
| 0:28 | Basic question |
| 3:04 | Traditional approach |
| 4:08 | Network based approach |
| 5:16 | Prior model |
| 7:30 | Class conditional model |
| 9:17 | Parameters and hyper-parameters |
| 10:25 | Conditional posteriors |
| 11:27 | Gibbs sampling |
| 12:17 | Conditional posteriors |
| 12:28 | Gibbs sampling |
| 12:35 | Monitoring convergence |
| 14:03 | Synthetic results - part 1 |
| 15:12 | Synthetic results - part 2 |
| 18:25 | Real data (prelim) |
| 19:57 | Future directions |
Lecture rating
| People found this lecture: | ||
| Worth seeing | ||
| because it is: | ||
| Valuable and informative | ||
| Well presented | ||
| Easily understandable | ||
| Acceptably recorded | ||
| You need to login to cast your vote. | ||
Report a problem or upload files
If you have found a problem with this lecture or would like to send us extra material, articles, exercises, etc., please use our ticket system to describe your request and upload the data.Enter your e-mail into the 'Cc' field, and we will keep you updated with your request's status.
Related content
SEE ALSO:
Link this page
Would you like to put a link to this lecture on your homepage?Go ahead! Copy the HTML snippet !





