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glyn_dk's profile
Fiona Nielsen
Fiona Nielsen
Fiona Nielsen
@glyn_dk

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Fiona Nielsen

@glyn_dk

Zorbian lifestyle with a twist - including amongst other things: sequencing, genomics and extreme project management. Devoted my life to @DNAdigest

glyndk.blogspot.com
Joined April 2009

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    Fiona Nielsen‏ @glyn_dk Jul 7

    The challenges of reproducibility - by @ymatang at @DNADigest meet-uppic.twitter.com/qtB5K8rVPd

    12:27 PM - 7 Jul 2017
    • 8 Retweets
    • 13 Likes
    • Bronwyn E Barker Rowland Mosbergen Edward Kodama Yuichi 長ぐつをはいたポスドク Olivia Guest S. W. van der Laan Shamith Samarajiwa Galabina Yordanova
    Amy Tang and DNAdigest.org
    11 replies 8 retweets 13 likes
    1. Fiona Nielsen‏ @glyn_dk Jul 7
      Replying to @glyn_dk @ymatang @DNADigest

      "people still believe in the impact factor as a measure of recognition" #incentives #RDM

      0 replies 1 retweet 0 likes
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    2. Fiona Nielsen‏ @glyn_dk Jul 7
      Replying to @glyn_dk @ymatang @DNADigest

      Real life examples: "sample naming in paper does not match sample names submitted to repository!" #data #sharing #challenges

      0 replies 2 retweets 0 likes
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      1. New conversation
      2. Fiona Nielsen‏ @glyn_dk Jul 7
        Replying to @glyn_dk @ymatang @DNADigest

        "Sometimes journals ask if data has been deposited, but they never ever ask if the data is in a good shape!" #dataquality #RDM

        1 reply 9 retweets 8 likes
      3. Amy Tang‏ @ymatang Jul 9
        Replying to @glyn_dk @DNADigest

        Our team's served many submitters dumping data @ArrayExpressEBI AFTER their papers were accepted. Not good news for #ReproducibleResearch.pic.twitter.com/6qMygnzHfI

        1 reply 4 retweets 4 likes
      4. Amy Tang‏ @ymatang Jul 9
        Replying to @ymatang @glyn_dk and

        We also tried refusing to load some v. bad submissions (e.g. bare min sample info, no usable data files), but the papers still get published

        1 reply 2 retweets 2 likes
      5. Varsha Khodiyar‏ @varsha_khodiyar Jul 9
        Replying to @ymatang @glyn_dk and

        I would expect repositories to refuse to upload bad data! In near future papers w/o data will not be trusted; eventually won't be published.

        1 reply 2 retweets 1 like
      6. Varsha Khodiyar‏ @varsha_khodiyar Jul 9
        Replying to @varsha_khodiyar @ymatang and

        We (research community) need repositories, esp data specific repositories, to maintain high standards

        0 replies 4 retweets 3 likes
      7. End of conversation
    3. Fiona Nielsen‏ @glyn_dk Jul 7
      Replying to @glyn_dk @ymatang @DNADigest

      Most submissions are rushed and not reviewed because done *after* paper acceptance :-\ #data #curation

      0 replies 4 retweets 1 like
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    4. Fiona Nielsen‏ @glyn_dk Jul 7
      Replying to @glyn_dk @ymatang @DNADigest

      If you get money from @wellcometrust must publish in open access journals and make data available - @ymatang

      0 replies 1 retweet 1 like
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    5. Fiona Nielsen‏ @glyn_dk Jul 7
      Replying to @glyn_dk @ymatang @DNADigest

      Researchers: look after (meta) data properly - adopt standards, cross-check annotations in the lab #RDM #metadata #archiving @DNADigest

      0 replies 2 retweets 4 likes
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    6. Fiona Nielsen‏ @glyn_dk Jul 7
      Replying to @glyn_dk @ymatang @DNADigest

      Advice from @ymatang: submit data even before paper publication process - don't wait till last minute! @ArrayExpressEBI

      0 replies 2 retweets 1 like
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    7. Fiona Nielsen‏ @glyn_dk Jul 7
      Replying to @glyn_dk @ymatang @DNADigest

      Advice from @ymatang: metadata management should be taught as transferable skills #scientists #RDM

      0 replies 1 retweet 1 like
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      1. New conversation
      2. Fiona Nielsen‏ @glyn_dk Jul 7
        Replying to @glyn_dk @ymatang @DNADigest

        Most researchers want to do the right thing - as long as you guide them and show them how - says @ymatang

        1 reply 5 retweets 5 likes
      3. Amy Tang‏ @ymatang Jul 9
        Replying to @glyn_dk @DNADigest

        That's why w/ #AnnotareEBI #microarray & #sequencing data submission tool for @ArrayExpressEBI, we don't compromise quality over ease of use

        0 replies 3 retweets 4 likes
      4. End of conversation
    8. Fiona Nielsen‏ @glyn_dk Jul 7
      Replying to @glyn_dk @ymatang @DNADigest

      An extra carrot: submit your data nicely using #annotare and it will be pushed to and analysed in Expression Atlas @ArrayExpressEBI

      0 replies 1 retweet 0 likes
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    9. DNAdigest.org‏ @DNADigest Jul 7
      Replying to @glyn_dk @ymatang

      Thanks to our sponsor @repositiveio for supporting our meet-up events this year!

      0 replies 2 retweets 3 likes
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