deep-review
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greenelab
A collaboratively written review paper on deep learning, genomics, and precision medicine
I'm not entirely sure that the framing of this is quite right yet, but during a seminar this week @laserson suggested that we might consider including a section of the...
https://openreview.net/forum?id=S1gBgnR9Y7 > Predicting the outcome of pharmacological assays based on high-resolution microscopy images of treated cells is a crucial task in drug discovery which tremendously increases discovery rates. However, end-to-end...
https://doi.org/10.1101/433763 > Recent advances in deep learning, particularly unsupervised approaches, have shown promise for furthering our biological knowledge through their application to gene expression datasets, though applications to epigenomic data...
https://doi.org/10.5220/0006636401400145 > In the era of precision medicine and cancer genomics, data are being generated so quickly that it is difficult to fully appreciate the extent of what is discoverable....
https://openreview.net/forum?id=BklKFo09YX > Designing a molecule with desired properties is one of the biggest challenges in drug development, as it requires optimization of chemical compound structures with respect to many complex...
https://doi.org/10.1101/130591 > Processing of transcripts at the 3'-end involves cleavage at a polyadenylation site followed by the addition of a poly(A)-tail. By selecting which polyadenylation site is cleaved, alternative polyadenylation...
https://doi.org/10.1101/395954 > We introduce an unsupervised deep learning method that learns features for representing single cells in fluorescence microscopy images. Our method exploits the powerful capacity of convolutional neural networks...
>The functions of proteins and RNAs are defined by the collective interactions of many residues, and yet most statistical mod- els of biological sequences consider sites nearly independently. Recent approaches...
https://doi.org/10.1101/390153 > A fundamental problem in biomedical research is the low number of observations available, mostly due to a lack of available biosamples, prohibitive costs, or ethical reasons. Augmenting few...
> Neuroscience is experiencing a revolution in which simultaneous recording of thousands of neurons is revealing population dynamics that are not apparent from single-neuron responses. This structure is typically extracted...