173 research outputs found
Combining dissimilarities in a hyper reproducing kernel hilbert space for complex human cancer prediction
9 páginas, 3 tablas.-- This is an open access article distributed under the Creative Commons Attribution
License.DNA microarrays provide rich profiles that are used in cancer prediction considering the gene expression levels across a collection of related samples. Support Vector Machines (SVM) have been applied to the classification of cancer samples with encouraging results. However, they rely on Euclidean distances that fail to reflect accurately the proximities among sample profiles. Then, non-Euclidean dissimilarities provide additional information that should be considered to reduce the misclassification errors. In this paper, we incorporate in the -SVM algorithm a linear combination of non-Euclidean dissimilarities. The weights of the combination are learnt in a (Hyper Reproducing Kernel Hilbert Space) HRKHS using a Semidefinite Programming algorithm. This approach allows us to incorporate a smoothing term that penalizes the complexity of the family of distances and avoids overfitting. The experimental results suggest that the method proposed helps to reduce the misclassification errors in several human cancer problems. © 2009 Manuel Mart́n-Merino et al.Financial support from Grant S02EIA-07L01.Peer Reviewe
Benchmarking Network Embedding Models for Link Prediction: Are We Making Progress?
Network embedding methods map a network's nodes to vectors in an embedding
space, in such a way that these representations are useful for estimating some
notion of similarity or proximity between pairs of nodes in the network. The
quality of these node representations is then showcased through results of
downstream prediction tasks. Commonly used benchmark tasks such as link
prediction, however, present complex evaluation pipelines and an abundance of
design choices. This, together with a lack of standardized evaluation setups
can obscure the real progress in the field. In this paper, we aim to shed light
on the state-of-the-art of network embedding methods for link prediction and
show, using a consistent evaluation pipeline, that only thin progress has been
made over the last years. The newly conducted benchmark that we present here,
including 17 embedding methods, also shows that many approaches are
outperformed even by simple heuristics. Finally, we argue that standardized
evaluation tools can repair this situation and boost future progress in this
field
SNE: Signed Network Embedding
Several network embedding models have been developed for unsigned networks.
However, these models based on skip-gram cannot be applied to signed networks
because they can only deal with one type of link. In this paper, we present our
signed network embedding model called SNE. Our SNE adopts the log-bilinear
model, uses node representations of all nodes along a given path, and further
incorporates two signed-type vectors to capture the positive or negative
relationship of each edge along the path. We conduct two experiments, node
classification and link prediction, on both directed and undirected signed
networks and compare with four baselines including a matrix factorization
method and three state-of-the-art unsigned network embedding models. The
experimental results demonstrate the effectiveness of our signed network
embedding.Comment: To appear in PAKDD 201
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