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I was wondering why you commented out the drmsd component of the loss function while training?
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Issue with the GetInteractions api call for pathways.
When testing, Peter noticed that especially on Reactome pathways only the metabolites were being returned and not the Reactome complex IDs. As …
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A way to enable stereoscopic mode for jupyter notebooks? For example: two parallel (side by side) views for left and right eye; cyan/red; interleaved; etc.
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We are working on a generative model to identify new hits that bind the MurD allosteric pocket. This project is a collaboration between the [SBNB](https://sbnb.irbbarcelona.org/) and [Ersilia](https:/…
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I saw david baker's work on building a large ring from scratch in cell, which made me very interested. I looked at the code provided in their attachment materials. It is obvious that it is not compati…
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Current impl of `annotate_reactome.py` requires access reactome.org website.
Reactome IDs -> Pathways titles annotator could use cached databases downloaded from rectome.org: `/mnt/stripe/bio/genomes…
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#### Current behavior:
30 genes are discovered to be uncorrelated with their corresponding reactions in `Carnitine shuttle`.
| Gene| UniProtID | Reaction | GPR | Correlation| Manually chec…
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@vanaukenk commented on Mar 2, 2016
It would be useful to have some intermediary search pages that allow users to search the Textpresso corpus using pre-canned queries that correspond to specific b…
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Searching for any edge with BDNF to another gene or protein returns zero results from the ARAX UI. This is a well-studied gene and just looking at SPOKE shows a number of connected proteins.
The …
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Here we will accept molecule design suggestions from the public (provided a score below -5.2 kcal/mol) to see if any improved Vina binding scores can be found at the C-terminus-B pocket.
A three-p…