May
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May 30 2017
Agenda
ZFIN participation
- ZFIN community interested in micropublications. Karen, Tim, and Daniela had a call with him last Thursday (minutes here https://docs.google.com/document/d/1ujSN6p_-k-lh7WTRMgWq8A_hGqbk0dAv5kN9hDAIdGk/edit).
After the meeting Doug started working on a phenotype submission form draft:
‘I'm currently working with Leyla Ruzcka on a draft submission form for phenotype data. My current best estimate on a time line for that is that we would start talking with developers here about it some time around the end of July, and if it went well, would be thinking about implementing the form in the August/September time frame. Let me know if that time line causes problems on your end...we can always push it out further if desired...probably couldn't move it up sooner though.’
Copyright issues
- Doug asking:
‘Have you guys thought about copyright issues at all WRT micropublication? For example the disclaimer I see on some of your submission forms could say something like "I understand that this submission will go through a peer review process and upon passing peer review will be added to the ZFIN database in an open acceess format. Copyright remains with the data submitter. Where DOES copyright remain, and are micropublications open access?’
- Contacted Jane Mendel to see if WormBook had to get formal licensing from Creative Commons
Publisher issue
- Shall we start contacting EZID and ask about using ‘micropublication: biology’ as publisher?
Website stats
- Number of visitors still increased- 169 unique/week, 634 page views
Knudra submission
- Any news from the reviewer? Shall we send out to another one?
Mitani
- Paul contacted him-waiting for reply
Outreach
- Micropublication: biology button on the WB homepage -> should be up? on which release? WS259?
- Todd -> Twitter account? need changes in DNS records?
IWM booklet
- Karen and Daniela will meet Nemametrix designer tomorrow
Forms
- Started to work on a phenotype submission form
Corrections post publications
- how shall we deal with them? If it’s a simple typo shall we just manually edit it?
- if it’s a major change: tim’s suggestion:
“there should be some note on the article indicating that it it a corrected version, with the data of the new version, below the published online date.”
- example of journal's policies:
Elsevier https://www.elsevier.com/editors/perk/corrections-to-the-record https://www.elsevier.com/editors/perk/policy-and-best-practice-errata-And-corrigenda
Nature http://www.nature.com/authors/policies/corrections.html
Minutes
ZFIN participation
- the sooner they can start the better
Copyright issues
- will wait to hear from Jane and talk again with Doug about it
- Ok to keep Doug's disclaimer suggestions and also keep our current disclaimer
Publisher issue
- We will contact EZID about having Micropublication:biology as publisher (Daniela will do)
- Joan Starr replied the approach is fine, can put Micropublication: biology
Website stats
- Number of visitors still increased- 169 unique/week, 634 page views
- We want to tell users that we are at the 'pre-beta' (alpha) stage, meaning at the very beginning
Knudra submission
- Tim will review
- Tim: is Knudra asking money for reagents? are we acting as advertisers?
- Karen will find out if they deposit data at the CGC or of they will distribute it for cost
- Is an allele-sequence enough to be a micropublication?
- Is an antibody enough to be a micropublication?
- We need to discuss this further when Paul/Todd are around
- An antibody should be micropublished with an expression pattern
- A mutant should have a phenotype attached (or a phenotype NOT observed attached)
- Tim: we should have a phenotype AND allele together. What is the utility of having just the reagent? there should be useful information behind it.
Mitani
- Paul contacted him-waiting for reply
Outreach
- Micropublication: biology button on the WB homepage -> should be up? on which release? WS259?
- Todd -> Twitter account? need changes in DNS records?
Forms
- Started to work on a phenotype submission form. Juancarlos could also help set up a database if we design pages with html editors. We could have micropublication tables and the database will read into those (good for the future, and for large scale submissions).
Corrections post publications
- corrections-> if it’s just a typo we could change it ourselves -> not scalable if we get large volumes
- change in substance -> Have an Errata corrige -> Separate DOI? Yes, Errata get different DOIs and different PMIDs
- Publish retraction -> separate DOI
Author contributions
- we will have Credit taxonomy implemented
May 2 2017
Agenda
Elsevier
- Gave us the OK to publish 'unpublished data' - do not specifically mention data not shown, which was in the original request
- they'd like to link back to our Database and propose 2 options:
- 1. Banner linking as already established with Wormbase. Nonetheless, this is general (only Wormbase banner appearing on ScienceDirect) and if not already linked to Wormbase, the article will have to be re-supplied on our end, which means a very manual and time costly process.
- 2. Evolving article feature. This feature will allow to host on our platform a specific PDF containing the additional information and links to it, that will be visualized as an additional pdf that readers can download when downloading the original article. See an example here: http://www.sciencedirect.com/science/article/pii/S1755436514000607 . It is still a manual process at the moment, but it does not involve re-supplying of the article.
- Shall we opt for the banner linking one?
Knudra/booklet
- We met with Chris and Trisha (Knudra) and they will prepare a micropub submission, they will also reach out to their customers and see if they can supply one, too.
- they (and Matt Beaudet from Nemametrix) gave suggestions for the booklet, Matt strongly supports having PDFs versions of the articles in the booklet, even if hard to read. Chris from Knudra said they could provide magnifying glasses as swag
- Booklet link: https://docs.google.com/presentation/d/1MpxxYIxZ6eBXxWDmm8UuoHS244DBA9EAJb0AexFM1oM/edit#slide=id.p6
Blog post
- We posted a call for expression data on the blog on Friday
- Since the post page views of micropublication biology have increased (from ~70-80 unique visitors per week to 115)
micropub e-mail
- Todd please correct misspelling in the mailing list
Other updates?
- Jorgensen?
- Han will submit 2 micros by the end of next week
Minutes
Elsevier
- we will request to go with the banner linking option
Knudra/booklet
- Better to have the pdf in one page other than spread over 2 pages
micropub e-mail
- Todd fixed it
Other updates?
- Todd contacted Jorgensen, no response yet
- Tim: plan for making the micropub easily found on the wormbase web homepage
- Add a button on Wormbase called Micropublication: biology linking to website -between submit data and Parasite
- Arnold's foundation VP want to chat with Paul about micropubs
- Daniela will remove links to WBPapers that are not live in WormBase yet
- will meet next week, if no major updates will schedule in 2 weeks
