50,872 research outputs found
Network Inference from Co-Occurrences
The recovery of network structure from experimental data is a basic and
fundamental problem. Unfortunately, experimental data often do not directly
reveal structure due to inherent limitations such as imprecision in timing or
other observation mechanisms. We consider the problem of inferring network
structure in the form of a directed graph from co-occurrence observations. Each
observation arises from a transmission made over the network and indicates
which vertices carry the transmission without explicitly conveying their order
in the path. Without order information, there are an exponential number of
feasible graphs which agree with the observed data equally well. Yet, the basic
physical principles underlying most networks strongly suggest that all feasible
graphs are not equally likely. In particular, vertices that co-occur in many
observations are probably closely connected. Previous approaches to this
problem are based on ad hoc heuristics. We model the experimental observations
as independent realizations of a random walk on the underlying graph, subjected
to a random permutation which accounts for the lack of order information.
Treating the permutations as missing data, we derive an exact
expectation-maximization (EM) algorithm for estimating the random walk
parameters. For long transmission paths the exact E-step may be computationally
intractable, so we also describe an efficient Monte Carlo EM (MCEM) algorithm
and derive conditions which ensure convergence of the MCEM algorithm with high
probability. Simulations and experiments with Internet measurements demonstrate
the promise of this approach.Comment: Submitted to IEEE Transactions on Information Theory. An extended
version is available as University of Wisconsin Technical Report ECE-06-
From Relational Data to Graphs: Inferring Significant Links using Generalized Hypergeometric Ensembles
The inference of network topologies from relational data is an important
problem in data analysis. Exemplary applications include the reconstruction of
social ties from data on human interactions, the inference of gene
co-expression networks from DNA microarray data, or the learning of semantic
relationships based on co-occurrences of words in documents. Solving these
problems requires techniques to infer significant links in noisy relational
data. In this short paper, we propose a new statistical modeling framework to
address this challenge. It builds on generalized hypergeometric ensembles, a
class of generative stochastic models that give rise to analytically tractable
probability spaces of directed, multi-edge graphs. We show how this framework
can be used to assess the significance of links in noisy relational data. We
illustrate our method in two data sets capturing spatio-temporal proximity
relations between actors in a social system. The results show that our
analytical framework provides a new approach to infer significant links from
relational data, with interesting perspectives for the mining of data on social
systems.Comment: 10 pages, 8 figures, accepted at SocInfo201
Multi-Object Classification and Unsupervised Scene Understanding Using Deep Learning Features and Latent Tree Probabilistic Models
Deep learning has shown state-of-art classification performance on datasets
such as ImageNet, which contain a single object in each image. However,
multi-object classification is far more challenging. We present a unified
framework which leverages the strengths of multiple machine learning methods,
viz deep learning, probabilistic models and kernel methods to obtain
state-of-art performance on Microsoft COCO, consisting of non-iconic images. We
incorporate contextual information in natural images through a conditional
latent tree probabilistic model (CLTM), where the object co-occurrences are
conditioned on the extracted fc7 features from pre-trained Imagenet CNN as
input. We learn the CLTM tree structure using conditional pairwise
probabilities for object co-occurrences, estimated through kernel methods, and
we learn its node and edge potentials by training a new 3-layer neural network,
which takes fc7 features as input. Object classification is carried out via
inference on the learnt conditional tree model, and we obtain significant gain
in precision-recall and F-measures on MS-COCO, especially for difficult object
categories. Moreover, the latent variables in the CLTM capture scene
information: the images with top activations for a latent node have common
themes such as being a grasslands or a food scene, and on on. In addition, we
show that a simple k-means clustering of the inferred latent nodes alone
significantly improves scene classification performance on the MIT-Indoor
dataset, without the need for any retraining, and without using scene labels
during training. Thus, we present a unified framework for multi-object
classification and unsupervised scene understanding
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Semantic Concept Co-Occurrence Patterns for Image Annotation and Retrieval.
Describing visual image contents by semantic concepts is an effective and straightforward way to facilitate various high level applications. Inferring semantic concepts from low-level pictorial feature analysis is challenging due to the semantic gap problem, while manually labeling concepts is unwise because of a large number of images in both online and offline collections. In this paper, we present a novel approach to automatically generate intermediate image descriptors by exploiting concept co-occurrence patterns in the pre-labeled training set that renders it possible to depict complex scene images semantically. Our work is motivated by the fact that multiple concepts that frequently co-occur across images form patterns which could provide contextual cues for individual concept inference. We discover the co-occurrence patterns as hierarchical communities by graph modularity maximization in a network with nodes and edges representing concepts and co-occurrence relationships separately. A random walk process working on the inferred concept probabilities with the discovered co-occurrence patterns is applied to acquire the refined concept signature representation. Through experiments in automatic image annotation and semantic image retrieval on several challenging datasets, we demonstrate the effectiveness of the proposed concept co-occurrence patterns as well as the concept signature representation in comparison with state-of-the-art approaches
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A Bayesian Translational Framework for Knowledge Propagation, Discovery, and Integration Under Specific Contexts
The immense corpus of biomedical literature existing today poses challenges in information search and integration. Many links between pieces of knowledge occur or are significant only under certain contexts—rather than under the entire corpus. This study proposes using networks of ontology concepts, linked based on their co-occurrences in annotations of abstracts of biomedical literature and descriptions of experiments, to draw conclusions based on context-specific queries and to better integrate existing knowledge. In particular, a Bayesian network framework is constructed to allow for the linking of related terms from two biomedical ontologies under the queried context concept. Edges in such a Bayesian network allow associations between biomedical concepts to be quantified and inference to be made about the existence of some concepts given prior information about others. This approach could potentially be a powerful inferential tool for context-specific queries, applicable to ontologies in other fields as well
SciRecSys: A Recommendation System for Scientific Publication by Discovering Keyword Relationships
In this work, we propose a new approach for discovering various relationships
among keywords over the scientific publications based on a Markov Chain model.
It is an important problem since keywords are the basic elements for
representing abstract objects such as documents, user profiles, topics and many
things else. Our model is very effective since it combines four important
factors in scientific publications: content, publicity, impact and randomness.
Particularly, a recommendation system (called SciRecSys) has been presented to
support users to efficiently find out relevant articles
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