9,960 research outputs found
Recommended from our members
Heterogeneous network embedding enabling accurate disease association predictions.
BackgroundIt is significant to identificate complex biological mechanisms of various diseases in biomedical research. Recently, the growing generation of tremendous amount of data in genomics, epigenomics, metagenomics, proteomics, metabolomics, nutriomics, etc., has resulted in the rise of systematic biological means of exploring complex diseases. However, the disparity between the production of the multiple data and our capability of analyzing data has been broaden gradually. Furthermore, we observe that networks can represent many of the above-mentioned data, and founded on the vector representations learned by network embedding methods, entities which are in close proximity but at present do not actually possess direct links are very likely to be related, therefore they are promising candidate subjects for biological investigation.ResultsWe incorporate six public biological databases to construct a heterogeneous biological network containing three categories of entities (i.e., genes, diseases, miRNAs) and multiple types of edges (i.e., the known relationships). To tackle the inherent heterogeneity, we develop a heterogeneous network embedding model for mapping the network into a low dimensional vector space in which the relationships between entities are preserved well. And in order to assess the effectiveness of our method, we conduct gene-disease as well as miRNA-disease associations predictions, results of which show the superiority of our novel method over several state-of-the-arts. Furthermore, many associations predicted by our method are verified in the latest real-world dataset.ConclusionsWe propose a novel heterogeneous network embedding method which can adequately take advantage of the abundant contextual information and structures of heterogeneous network. Moreover, we illustrate the performance of the proposed method on directing studies in biology, which can assist in identifying new hypotheses in biological investigation
Attributed Network Embedding for Learning in a Dynamic Environment
Network embedding leverages the node proximity manifested to learn a
low-dimensional node vector representation for each node in the network. The
learned embeddings could advance various learning tasks such as node
classification, network clustering, and link prediction. Most, if not all, of
the existing works, are overwhelmingly performed in the context of plain and
static networks. Nonetheless, in reality, network structure often evolves over
time with addition/deletion of links and nodes. Also, a vast majority of
real-world networks are associated with a rich set of node attributes, and
their attribute values are also naturally changing, with the emerging of new
content patterns and the fading of old content patterns. These changing
characteristics motivate us to seek an effective embedding representation to
capture network and attribute evolving patterns, which is of fundamental
importance for learning in a dynamic environment. To our best knowledge, we are
the first to tackle this problem with the following two challenges: (1) the
inherently correlated network and node attributes could be noisy and
incomplete, it necessitates a robust consensus representation to capture their
individual properties and correlations; (2) the embedding learning needs to be
performed in an online fashion to adapt to the changes accordingly. In this
paper, we tackle this problem by proposing a novel dynamic attributed network
embedding framework - DANE. In particular, DANE first provides an offline
method for a consensus embedding and then leverages matrix perturbation theory
to maintain the freshness of the end embedding results in an online manner. We
perform extensive experiments on both synthetic and real attributed networks to
corroborate the effectiveness and efficiency of the proposed framework.Comment: 10 page
Multi-Label Zero-Shot Learning with Structured Knowledge Graphs
In this paper, we propose a novel deep learning architecture for multi-label
zero-shot learning (ML-ZSL), which is able to predict multiple unseen class
labels for each input instance. Inspired by the way humans utilize semantic
knowledge between objects of interests, we propose a framework that
incorporates knowledge graphs for describing the relationships between multiple
labels. Our model learns an information propagation mechanism from the semantic
label space, which can be applied to model the interdependencies between seen
and unseen class labels. With such investigation of structured knowledge graphs
for visual reasoning, we show that our model can be applied for solving
multi-label classification and ML-ZSL tasks. Compared to state-of-the-art
approaches, comparable or improved performances can be achieved by our method.Comment: CVPR 201
- …