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

Machine Learning and Integrative Analysis of Biomedical Big Data.

Recent developments in high-throughput technologies have accelerated the accumulation of massive amounts of omics data from multiple sources: genome, epigenome, transcriptome, proteome, metabolome, etc. Traditionally, data from each source (e.g., genome) is analyzed in isolation using statistical and machine learning (ML) methods. Integrative analysis of multi-omics and clinical data is key to new biomedical discoveries and advancements in precision medicine. However, data integration poses new computational challenges as well as exacerbates the ones associated with single-omics studies. Specialized computational approaches are required to effectively and efficiently perform integrative analysis of biomedical data acquired from diverse modalities. In this review, we discuss state-of-the-art ML-based approaches for tackling five specific computational challenges associated with integrative analysis: curse of dimensionality, data heterogeneity, missing data, class imbalance and scalability issues