18,349 research outputs found
Supervised learning of short and high-dimensional temporal sequences for life science measurements
The analysis of physiological processes over time are often given by
spectrometric or gene expression profiles over time with only few time points
but a large number of measured variables. The analysis of such temporal
sequences is challenging and only few methods have been proposed. The
information can be encoded time independent, by means of classical expression
differences for a single time point or in expression profiles over time.
Available methods are limited to unsupervised and semi-supervised settings. The
predictive variables can be identified only by means of wrapper or
post-processing techniques. This is complicated due to the small number of
samples for such studies. Here, we present a supervised learning approach,
termed Supervised Topographic Mapping Through Time (SGTM-TT). It learns a
supervised mapping of the temporal sequences onto a low dimensional grid. We
utilize a hidden markov model (HMM) to account for the time domain and
relevance learning to identify the relevant feature dimensions most predictive
over time. The learned mapping can be used to visualize the temporal sequences
and to predict the class of a new sequence. The relevance learning permits the
identification of discriminating masses or gen expressions and prunes
dimensions which are unnecessary for the classification task or encode mainly
noise. In this way we obtain a very efficient learning system for temporal
sequences. The results indicate that using simultaneous supervised learning and
metric adaptation significantly improves the prediction accuracy for
synthetically and real life data in comparison to the standard techniques. The
discriminating features, identified by relevance learning, compare favorably
with the results of alternative methods. Our method permits the visualization
of the data on a low dimensional grid, highlighting the observed temporal
structure
Deep learning cardiac motion analysis for human survival prediction
Motion analysis is used in computer vision to understand the behaviour of
moving objects in sequences of images. Optimising the interpretation of dynamic
biological systems requires accurate and precise motion tracking as well as
efficient representations of high-dimensional motion trajectories so that these
can be used for prediction tasks. Here we use image sequences of the heart,
acquired using cardiac magnetic resonance imaging, to create time-resolved
three-dimensional segmentations using a fully convolutional network trained on
anatomical shape priors. This dense motion model formed the input to a
supervised denoising autoencoder (4Dsurvival), which is a hybrid network
consisting of an autoencoder that learns a task-specific latent code
representation trained on observed outcome data, yielding a latent
representation optimised for survival prediction. To handle right-censored
survival outcomes, our network used a Cox partial likelihood loss function. In
a study of 302 patients the predictive accuracy (quantified by Harrell's
C-index) was significantly higher (p < .0001) for our model C=0.73 (95 CI:
0.68 - 0.78) than the human benchmark of C=0.59 (95 CI: 0.53 - 0.65). This
work demonstrates how a complex computer vision task using high-dimensional
medical image data can efficiently predict human survival
Multi-Sensor Event Detection using Shape Histograms
Vehicular sensor data consists of multiple time-series arising from a number
of sensors. Using such multi-sensor data we would like to detect occurrences of
specific events that vehicles encounter, e.g., corresponding to particular
maneuvers that a vehicle makes or conditions that it encounters. Events are
characterized by similar waveform patterns re-appearing within one or more
sensors. Further such patterns can be of variable duration. In this work, we
propose a method for detecting such events in time-series data using a novel
feature descriptor motivated by similar ideas in image processing. We define
the shape histogram: a constant dimension descriptor that nevertheless captures
patterns of variable duration. We demonstrate the efficacy of using shape
histograms as features to detect events in an SVM-based, multi-sensor,
supervised learning scenario, i.e., multiple time-series are used to detect an
event. We present results on real-life vehicular sensor data and show that our
technique performs better than available pattern detection implementations on
our data, and that it can also be used to combine features from multiple
sensors resulting in better accuracy than using any single sensor. Since
previous work on pattern detection in time-series has been in the single series
context, we also present results using our technique on multiple standard
time-series datasets and show that it is the most versatile in terms of how it
ranks compared to other published results
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