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Thread: Welcome to the Uncovering Genome Mysteries project

  1. #1
    Xtreme Cruncher
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    Welcome to the Uncovering Genome Mysteries project

    Welcome to the Uncovering Genome Mysteries project

    Dear World Community Grid volunteers,

    We are thrilled to tell you about our new project, Uncovering Genome Mysteries.

    Antibiotics such as Penicillin, bacteria that clean up oil spills, and asprin are just a few of the many valuable products we discovered in organisms, small and large, in the soil, water and forests. This area of study is still in its infancy: most of the organisms in Earth's biosphere have yet to be identified, let alone understood at the genetic level.


    Uncovering Genome Mysteries plans to change that by examining close to 200 million genes from a wide variety of life forms, such as microorganisms found on seaweeds from Australian coastlines and in the Amazon river. The predicted proteins they encode will be compared against each other to assess their similarity. When two proteins are similar, and the function of one protein is already known, this similarity allows scientists to make educated predictions about the function of the other. Uncovering Genome Mysteries will create and publish a database of protein sequence comparison information for all scientists to reference.


    The scale of the task is enormous. It is only feasible thanks to the massive computational power of World Community Grid. While sequences from all forms of life will be processed, microorganisms will receive a special focus.

    The goals of the project are to:

    ? Discover new protein functions and augmenting knowledge about biochemical processes in general
    ? Identify how organisms interact with each other and the environment
    ? Document the current baseline microbial diversity
    ? Understand and model complex microbial systems

    You can find more in-depth information and explanations about the project here .

    We hope you will find our project interesting, and support its goals. With your help, we will discover many mysteries of the microbial world and how that knowledge can help solve human and world problems.

    Torsten Thomas and Wim Degrave

  2. #2
    Xtreme Cruncher
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    UGM Project information

    Culled from responses by uplinger to questions in various threads:

    Quorumx2
    The x2 quorum is here to stay, there are not any plans to remove it or how to properly validate the results if it was removed. Since these are all unique comparisons being made, sometimes over 3.6 billion comparisons in a work unit it would be hard to verify that a single run of one was proper.

    WU Runtime
    The expected runtime for each work unit is to average around 3 hours. This is for the entire grid average. We did some shuffling of the genes in the files to help randomize what genome sequences are next to each other. In theory this will help level out the runtimes and the output sizes.

    7day deadline
    The 7 day deadline is here to stay as well, we may adjust that in the future, but since the results can be decent size, we need to have a 7 day deadline to help the storage on the backend from getting filled up. Again if situations change then we may modify this, it is just a setting where x2 quorum is a major code change. We are targetting a 3 hour average on the grid right now, which is pretty small and the workunits will checkpoint at every chance they can (BOINC settings).

    Please opt me in to new projects as they become available Auto opt-in is not enabled
    I have not run the script that opts members in to new projects. This is a script that has not been run since our last project launch and I need to confirm that everythign for it is in order. Since our last project launch we changed how the database field for project preferences is stored, thus I am testing it extensively.

    Note Participate in All Projects will get you work for the new project.

    Project priority/WU supply
    ......we are running the project at Lowest priority allowed that has monitoring associated with it on the backend. Basically every 5 seconds the feeder tries to fill up the buffer, but if someone with a request for 50 work units comes along, they may suck it dry for that 5 seconds. We have plenty of work for the project lined up, but we need to see the impact of the new project with storage aspects on the backend, thus the lowest priority (weight) in the the feeder.
    Last edited by PoppaGeek; 10-15-2014 at 07:50 AM.

  3. #3
    Xtreme X.I.P.
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    Thanks for the info PG...


  4. #4
    Xtreme Cruncher
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    Thank you!


    24 hour prime stable? Please, I'm 24/7/365 WCG stable!

    So you can do Furmark, Can you Grid???

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