Category Archive: Open Data

Aug
15

Déjà vu – Another family affected by a rare disease trying to find a cure

During my trip to San Francisco this week I had the opportunity and honor to meet with Matt Wilsey, one of the parents of a child (Grace) with a rare disease and the President of the Grace Wilsey Foundation. The diagnosis of Grace’s NGLY1 deficiency was recently highlighted in an excellent article in the New …

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May
19

Could the community contribute to an ACS Session for Jean-Claude Bradley?

Antony Williams and I were discussing last week ways to remember Jean-Claude Bradley. One way might be a session at the ACS in 2015, the 10th anniversary of starting his open notebook. Who would be willing to give a talk on a topic related to open notebook science or any of the aspects that were …

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May
16

The Measure of the Man

It has been a truly awful week. A colleague, Jean-Claude Bradley passed away. I found out on Tuesday while traveling. I was stunned. We had met several times, enjoyed lunches in a pub across from his lab at Drexel a few years ago, chatted at Science Online in 2012 and on and on. I will …

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Mar
25

New ACS initiative to encourage open access?

I just received the following email: Have you heard of ACS Author Rewards? ACS Author Rewards will provide the published corresponding author of each peer-reviewed article published in 2014 with two $750 credits (total rewards value of $1500 per article published). These credits can be applied (or shared with others for redemption) toward any future …

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Mar
18

ACS session summary – Neglected and Rare Disease Drug Discovery Needs Open Data

Here is a summary of the session Co-chaired by Sean Ekins, Antony Williams and Joel S. Freundlich at the ACS on Sunday. The session consisted of 3 presentations and 1 no show. The first talk was given by Sean Ekins (Collaborative Drug Discovery) entitled “Looking back at mycobacterium tuberculosis mouse efficacy testing to move new …

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Jan
09

Predicting Targets for TB Phenotypic Screening Hits and Openess of data and models

So far the only readily accessible, free approach to predicting TB targets is TB Mobile developed for iOS and Android with Alex Clark. While relatively crude the app does allow look up and similarity searching of 745 compounds with known targets so it may help propose possible targets for a new compound. Obviously there are …

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Dec
09

Why Are We Still Doing Industrial Age Drug Discovery For Neglected Diseases in The Information Age?

Modern Times, one of my favorite Charlie Chaplin films was the latest inspiration for a little set of slides that summarizes a developing set of ideas for neglected disease research, specifically the focus is open TB research. Some of our recent work on TB machine learning for lead optimization here and Fusing datasets here builds …

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Aug
06

Being paid to publish in journals- an incentive?

[Right up front I will remind you of any potential conflicts of interest as I am on the editorial board of Pharmaceutical Research (Springer), Drug Discovery Today (Elsevier), Mutation Research Reviews (Elsevier), Journal of Pharmacological and Toxicological Methods (Elsevier) and Chem-Bio Informatics (Chem-Bio Informatics Society).] Barely a day goes by without having to cleanse my …

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May
06

Why does this issue still give me nightmares?

A week or so ago I was seriously contemplating giving up blogging after just a so-so level of interest over 2 years and a couple of spikes that really only corresponded to issues around database quality which is not even the main focus of of my research. My blog is by far not the most …

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Apr
11

American Chemical Society 2013 Meeting – New Orleans

I am just back from the 2013 American Chemical Society in New Orleans at which I co-chaired 2 sessions in CINF. Lots of gumbo and jambalya were consumed. A very busy meeting, so much so that I barely left the rooms in which I was either talking or helping to chair. Lots of interesting discussions …

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