Proof Stage Checklist

From GersteinInfo

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* Corresponding author
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* MG affiliation and Corresponding author
** CHANGE corresponding email to mark ((at)) gersteinlab.org from pi ((at)) gersteinlab.org
** CHANGE corresponding email to mark ((at)) gersteinlab.org from pi ((at)) gersteinlab.org
** Make sure Mark's Orcid ID is used, viz: http://orcid.org/0000-0002-9746-3719
** Make sure Mark's Orcid ID is used, viz: http://orcid.org/0000-0002-9746-3719
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** Check that MG's [[Affiliation]] is accurate
* Funding
* Funding
** remember to add funding acknowledgments with precise grant number, so paper goes into PMC (see below)
** remember to add funding acknowledgments with precise grant number, so paper goes into PMC (see below)
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** discuss with the Mark the grant for the page/reprint charges (not necessarily the same as the PMC)
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*** This needs to be updated on the papers page entry (see below) and can be done as soon as there is a bioxriv. 
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** Discuss with MG the grant for the page/reprint charges (not necessarily the same as the PMC)
* Papers Page (papers.gersteinlab.org)
* Papers Page (papers.gersteinlab.org)
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** Get a lab ID for the paper from Mark (eg lab "ID=cmptxn"). Occasionally, we can use the pubmed ID here, but normally this is the ID that has been used internally the project pre-publication.
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** Get a lab ID for the paper from Mark (eg lab "ID=cmptxn"). Occasionally, we can use the pubmed ID here, but normally this is the ID that has been used internally during the project pre-publication.
** Do a papers page rebuild, requires lab ID & website from above + (hopefully) the PubMed ID - ie http://info.gersteinlab.org/Papers_Page_Code
** Do a papers page rebuild, requires lab ID & website from above + (hopefully) the PubMed ID - ie http://info.gersteinlab.org/Papers_Page_Code
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*** Send the following information to whoever is in charge of rebuilding the papers page:
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**** PubMed ID or doi of the preprint
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**** A link to the paper
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**** A link to the tools or resources (see "Tools & Resources" section below)
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**** Appropriate tags and topics, e.g. http://papers.gersteinlab.org/subject/coretools or http://papers.gersteinlab.org/subject/resources (a full list can be obtained from http://papers.gersteinlab.org/subject/). You may propose new tags if they don't appear.
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**** Any additional information such as co-first authorship
*** Make sure paper is appropriately tagged on the papers -- eg tag with http://papers.gersteinlab.org/subject/coretools or http://papers.gersteinlab.org/subject/resources
*** Make sure paper is appropriately tagged on the papers -- eg tag with http://papers.gersteinlab.org/subject/coretools or http://papers.gersteinlab.org/subject/resources
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*** Note the rebuild can be done before the paper comes out with a PMID, using just a biorxiv
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** Co-first and co-corresponding authors can be indicated with the footnote field
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** Use the link field to directly link the journal site (particularly if there is no pubmed)
* Tools & Resources
* Tools & Resources
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** Make sure you use long-term email addresses for software contacts and a link to the lab FAQ
** Make sure you use long-term email addresses for software contacts and a link to the lab FAQ
** Make sure you have proper, long-term links for all files (files.gersteinlab.org, no dropbox or personal homepage links)
** Make sure you have proper, long-term links for all files (files.gersteinlab.org, no dropbox or personal homepage links)
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** You can use the "website" field on the papers page to link your github site.
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* PMC & reprints
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* PMC & preprints
** make sure journal publishes in PubMed Central (send email to editor to confirm this)
** make sure journal publishes in PubMed Central (send email to editor to confirm this)
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** Do a preprint as a public lab doc or a biorxiv submission if your paper won't go into PMC -- use *pi@gersteinlab.org*
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** Do a biorxiv submission (or another equiv. preprint server)
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** use pi at gersteinlab.org for bioxriv submission
*** Link this from the papers page
*** Link this from the papers page
*** Update bioRxiv preprint when the paper is published (wait 2-3 weeks before contacting bioRxiv - bioRxiv should automatically link it ).  
*** Update bioRxiv preprint when the paper is published (wait 2-3 weeks before contacting bioRxiv - bioRxiv should automatically link it ).  
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* Slides & Images
* Slides & Images
** Make sure Mark has "slide packs" for the paper
** Make sure Mark has "slide packs" for the paper
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*** Try to use a current slide pack template  
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*** Try to use a current slide pack template - a recent lecture at http://lectures.gersteinlab.org
** Do a homepage image, pad with white space to fill out to exact specifications, viz http://info.gersteinlab.org/Homepage_image_gallery .
** Do a homepage image, pad with white space to fill out to exact specifications, viz http://info.gersteinlab.org/Homepage_image_gallery .
* Tweet
* Tweet
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**Tweet a ~200 char tweet on the paper and mention Mark (@MarkGerstein), including bits of the title; you can include an image too. Mark will retweet.
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**Tweet a ~200 char tweet on the paper and mention MG (@MarkGerstein), including bits of the title; you can include an image too. He will retweet.
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**You can use the lab twitter (@GersteinLab)
**Some recent examples:
**Some recent examples:
  https://twitter.com/markgerstein/status/789117961843900417  
  https://twitter.com/markgerstein/status/789117961843900417  

Latest revision as of 18:36, 9 February 2021

  • MG affiliation and Corresponding author
  • Funding
    • remember to add funding acknowledgments with precise grant number, so paper goes into PMC (see below)
      • This needs to be updated on the papers page entry (see below) and can be done as soon as there is a bioxriv.
    • Discuss with MG the grant for the page/reprint charges (not necessarily the same as the PMC)
  • Tools & Resources
    • Software from the paper should be listed on the lab tools page (http://info.gersteinlab.org/Resources) & in the lab github (https://github.gersteinlab.org)
    • Make sure there exists a minimal and maximally durable distribution of code and key data as a simple tarball
    • Make sure you have a final URL for website/github materials from above and enter it into the papers page
    • Make sure you use long-term email addresses for software contacts and a link to the lab FAQ
    • Make sure you have proper, long-term links for all files (files.gersteinlab.org, no dropbox or personal homepage links)
    • You can use the "website" field on the papers page to link your github site.
  • PMC & preprints
    • make sure journal publishes in PubMed Central (send email to editor to confirm this)
    • Do a biorxiv submission (or another equiv. preprint server)
    • use pi at gersteinlab.org for bioxriv submission
      • Link this from the papers page
      • Update bioRxiv preprint when the paper is published (wait 2-3 weeks before contacting bioRxiv - bioRxiv should automatically link it ).
  • Tweet
    • Tweet a ~200 char tweet on the paper and mention MG (@MarkGerstein), including bits of the title; you can include an image too. He will retweet.
    • You can use the lab twitter (@GersteinLab)
    • Some recent examples:
https://twitter.com/markgerstein/status/789117961843900417 
https://twitter.com/markgerstein/status/851125314264715267
https://twitter.com/markgerstein/status/813772503063609344
  • Wikipedia
    • Try to link your paper to a relevant article on Wikipedia and edit that entry as appropriate
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