AIMC Topic: Deep Learning

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Interactive Medical Image Segmentation Using Deep Learning With Image-Specific Fine Tuning.

IEEE transactions on medical imaging
Convolutional neural networks (CNNs) have achieved state-of-the-art performance for automatic medical image segmentation. However, they have not demonstrated sufficiently accurate and robust results for clinical use. In addition, they are limited by ...

Deep neural networks and distant supervision for geographic location mention extraction.

Bioinformatics (Oxford, England)
MOTIVATION: Virus phylogeographers rely on DNA sequences of viruses and the locations of the infected hosts found in public sequence databases like GenBank for modeling virus spread. However, the locations in GenBank records are often only at the cou...

DLBI: deep learning guided Bayesian inference for structure reconstruction of super-resolution fluorescence microscopy.

Bioinformatics (Oxford, England)
MOTIVATION: Super-resolution fluorescence microscopy with a resolution beyond the diffraction limit of light, has become an indispensable tool to directly visualize biological structures in living cells at a nanometer-scale resolution. Despite advanc...

Protein threading using residue co-variation and deep learning.

Bioinformatics (Oxford, England)
MOTIVATION: Template-based modeling, including homology modeling and protein threading, is a popular method for protein 3D structure prediction. However, alignment generation and template selection for protein sequences without close templates remain...

DeepFam: deep learning based alignment-free method for protein family modeling and prediction.

Bioinformatics (Oxford, England)
MOTIVATION: A large number of newly sequenced proteins are generated by the next-generation sequencing technologies and the biochemical function assignment of the proteins is an important task. However, biological experiments are too expensive to cha...

COSSMO: predicting competitive alternative splice site selection using deep learning.

Bioinformatics (Oxford, England)
MOTIVATION: Alternative splice site selection is inherently competitive and the probability of a given splice site to be used also depends on the strength of neighboring sites. Here, we present a new model named the competitive splice site model (COS...

Automated Diagnosis of Plus Disease in Retinopathy of Prematurity Using Deep Convolutional Neural Networks.

JAMA ophthalmology
IMPORTANCE: Retinopathy of prematurity (ROP) is a leading cause of childhood blindness worldwide. The decision to treat is primarily based on the presence of plus disease, defined as dilation and tortuosity of retinal vessels. However, clinical diagn...

WDL-RF: predicting bioactivities of ligand molecules acting with G protein-coupled receptors by combining weighted deep learning and random forest.

Bioinformatics (Oxford, England)
MOTIVATION: Precise assessment of ligand bioactivities (including IC50, EC50, Ki, Kd, etc.) is essential for virtual screening and lead compound identification. However, not all ligands have experimentally determined activities. In particular, many G...

[Medical computer-aided detection method based on deep learning].

Sheng wu yi xue gong cheng xue za zhi = Journal of biomedical engineering = Shengwu yixue gongchengxue zazhi
This paper performs a comprehensive study on the computer-aided detection for the medical diagnosis with deep learning. Based on the region convolution neural network and the prior knowledge of target, this algorithm uses the region proposal network,...