1,748 research outputs found
Reductions for Frequency-Based Data Mining Problems
Studying the computational complexity of problems is one of the - if not the
- fundamental questions in computer science. Yet, surprisingly little is known
about the computational complexity of many central problems in data mining. In
this paper we study frequency-based problems and propose a new type of
reduction that allows us to compare the complexities of the maximal frequent
pattern mining problems in different domains (e.g. graphs or sequences). Our
results extend those of Kimelfeld and Kolaitis [ACM TODS, 2014] to a broader
range of data mining problems. Our results show that, by allowing constraints
in the pattern space, the complexities of many maximal frequent pattern mining
problems collapse. These problems include maximal frequent subgraphs in
labelled graphs, maximal frequent itemsets, and maximal frequent subsequences
with no repetitions. In addition to theoretical interest, our results might
yield more efficient algorithms for the studied problems.Comment: This is an extended version of a paper of the same title to appear in
the Proceedings of the 17th IEEE International Conference on Data Mining
(ICDM'17
Mining Representative Unsubstituted Graph Patterns Using Prior Similarity Matrix
One of the most powerful techniques to study protein structures is to look
for recurrent fragments (also called substructures or spatial motifs), then use
them as patterns to characterize the proteins under study. An emergent trend
consists in parsing proteins three-dimensional (3D) structures into graphs of
amino acids. Hence, the search of recurrent spatial motifs is formulated as a
process of frequent subgraph discovery where each subgraph represents a spatial
motif. In this scope, several efficient approaches for frequent subgraph
discovery have been proposed in the literature. However, the set of discovered
frequent subgraphs is too large to be efficiently analyzed and explored in any
further process. In this paper, we propose a novel pattern selection approach
that shrinks the large number of discovered frequent subgraphs by selecting the
representative ones. Existing pattern selection approaches do not exploit the
domain knowledge. Yet, in our approach we incorporate the evolutionary
information of amino acids defined in the substitution matrices in order to
select the representative subgraphs. We show the effectiveness of our approach
on a number of real datasets. The results issued from our experiments show that
our approach is able to considerably decrease the number of motifs while
enhancing their interestingness
Inductive queries for a drug designing robot scientist
It is increasingly clear that machine learning algorithms need to be integrated in an iterative scientific discovery loop, in which data is queried repeatedly by means of inductive queries and where the computer provides guidance to the experiments that are being performed. In this chapter, we summarise several key challenges in achieving this integration of machine learning and data mining algorithms in methods for the discovery of Quantitative Structure Activity Relationships (QSARs). We introduce the concept of a robot scientist, in which all steps of the discovery process are automated; we discuss the representation of molecular data such that knowledge discovery tools can analyse it, and we discuss the adaptation of machine learning and data mining algorithms to guide QSAR experiments
Core Decomposition in Multilayer Networks: Theory, Algorithms, and Applications
Multilayer networks are a powerful paradigm to model complex systems, where
multiple relations occur between the same entities. Despite the keen interest
in a variety of tasks, algorithms, and analyses in this type of network, the
problem of extracting dense subgraphs has remained largely unexplored so far.
In this work we study the problem of core decomposition of a multilayer
network. The multilayer context is much challenging as no total order exists
among multilayer cores; rather, they form a lattice whose size is exponential
in the number of layers. In this setting we devise three algorithms which
differ in the way they visit the core lattice and in their pruning techniques.
We then move a step forward and study the problem of extracting the
inner-most (also known as maximal) cores, i.e., the cores that are not
dominated by any other core in terms of their core index in all the layers.
Inner-most cores are typically orders of magnitude less than all the cores.
Motivated by this, we devise an algorithm that effectively exploits the
maximality property and extracts inner-most cores directly, without first
computing a complete decomposition.
Finally, we showcase the multilayer core-decomposition tool in a variety of
scenarios and problems. We start by considering the problem of densest-subgraph
extraction in multilayer networks. We introduce a definition of multilayer
densest subgraph that trades-off between high density and number of layers in
which the high density holds, and exploit multilayer core decomposition to
approximate this problem with quality guarantees. As further applications, we
show how to utilize multilayer core decomposition to speed-up the extraction of
frequent cross-graph quasi-cliques and to generalize the community-search
problem to the multilayer setting
Enumerating Maximal Bicliques from a Large Graph using MapReduce
We consider the enumeration of maximal bipartite cliques (bicliques) from a
large graph, a task central to many practical data mining problems in social
network analysis and bioinformatics. We present novel parallel algorithms for
the MapReduce platform, and an experimental evaluation using Hadoop MapReduce.
Our algorithm is based on clustering the input graph into smaller sized
subgraphs, followed by processing different subgraphs in parallel. Our
algorithm uses two ideas that enable it to scale to large graphs: (1) the
redundancy in work between different subgraph explorations is minimized through
a careful pruning of the search space, and (2) the load on different reducers
is balanced through the use of an appropriate total order among the vertices.
Our evaluation shows that the algorithm scales to large graphs with millions of
edges and tens of mil- lions of maximal bicliques. To our knowledge, this is
the first work on maximal biclique enumeration for graphs of this scale.Comment: A preliminary version of the paper was accepted at the Proceedings of
the 3rd IEEE International Congress on Big Data 201
Mining Maximal Cliques from an Uncertain Graph
We consider mining dense substructures (maximal cliques) from an uncertain
graph, which is a probability distribution on a set of deterministic graphs.
For parameter 0 < {\alpha} < 1, we present a precise definition of an
{\alpha}-maximal clique in an uncertain graph. We present matching upper and
lower bounds on the number of {\alpha}-maximal cliques possible within an
uncertain graph. We present an algorithm to enumerate {\alpha}-maximal cliques
in an uncertain graph whose worst-case runtime is near-optimal, and an
experimental evaluation showing the practical utility of the algorithm.Comment: ICDE 201
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