[Vp-reproduce-subgroup] [EXT] Re: [Vp-integration-subgroup] White paper submission - vote for venue

Tue May 11 21:08:42 PDT 2021

I'm happy to help with revisions. I think a zoom call is a good idea.

Hana

*******************************************************
Dr. Hana Dobrovolny
Associate Professor of Biophysics
Texas Christian University
TCU Box 298840
Fort Worth, TX 76129

phone: (817) 257-6379 fax: (817) 257-7742
email: h.dobrovolny at tcu.edu
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________________________________
From: Vp-reproduce-subgroup <vp-reproduce-subgroup-bounces at lists.simtk.org> on behalf of James Osborne <jmosborne at unimelb.edu.au>
Sent: May 11, 2021 10:00 PM
To: Eric Forgoston
Cc: vp-reproduce-subgroup at lists.simtk.org; vp-integration-subgroup at lists.simtk.org; Jonathan Karr; John Gennari; Winston Garira
Subject: Re: [Vp-reproduce-subgroup] [EXT] Re: [Vp-integration-subgroup] White paper submission - vote for venue

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Agreed

I also think there needs to be an effort to make it more readable and consistent throughout and from experience this can only happen by a small group taking it on.

James

On Wed, May 12, 2021 at 12:38 PM Eric Forgoston <eric.forgoston at montclair.edu<mailto:eric.forgoston at montclair.edu>> wrote:
External email: Please exercise caution

________________________________
Dear all,

It is probably worth having a zoom chat to discuss the revision so that we are all working in concert.  In particular, John Gennari sent an email last week on May 3 with some thoughts that are well-worth discussing.

Is there interest in doing this?

Cheers,

Eric
---------------------
Dr. Eric Forgoston
Professor of Applied Mathematics
Chair, Department of Applied Mathematics and Statistics
Montclair State University
Montclair, NJ  07043 USA
+1 973 655-7242
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On Tue, May 11, 2021 at 10:26 AM Jacob Barhak <jacob.barhak at gmail.com<mailto:jacob.barhak at gmail.com>> wrote:
Greetings white paper contributors,

The voting period is over and the vote did not change, so it is now time to act.

The paper will be revised as requested by 10 voters and the target journal will be Bioinformatics - James Glazier and Yaling Liu will share publication costs.

All those who asked to revise are requested to make the revisions and discuss those.

I ask to reach a revised version by May 25 so that we can finish an approval round by June 1st.

So far only Sheriff provided suggestions for revisions prior to submission so I suggest we start discussing those:
https://docs.google.com/document/d/1Ag4ipuybjtthxgV0YjXqYP7AwwNSYcWh/edit<https://urldefense.com/v3/__https://docs.google.com/document/d/1Ag4ipuybjtthxgV0YjXqYP7AwwNSYcWh/edit__;!!O2_lDA!i7xWzLA1fndcQ6doX4ybaW0PNRoxrRHsEUBOU2CUqnSjaQesOiQYDKsayOqWjVyCKjU$>

However, since it is out of format and out of date, I suggest that all those who want to make changes login and request to access the main document and introduce changes there:
https://docs.google.com/document/d/1IMEgmdNkx-EsnOjGuegpenSIMmKIkK00Lc8Gred3QxM/edit?usp=sharing<https://urldefense.com/v3/__https://docs.google.com/document/d/1IMEgmdNkx-EsnOjGuegpenSIMmKIkK00Lc8Gred3QxM/edit?usp=sharing__;!!O2_lDA!i7xWzLA1fndcQ6doX4ybaW0PNRoxrRHsEUBOU2CUqnSjaQesOiQYDKsayOqWNaTv0Sw$>

I do ask that this will not be delayed any further and those who asked for changes give this task priority so it can be completed in time.

I look forward to your contributions.

            Jacob

On Sun, May 9, 2021 at 4:25 PM Jacob Barhak <jacob.barhak at gmail.com<mailto:jacob.barhak at gmail.com>> wrote:
Greetings white paper contributors,

Allow me to remind you that the Voting and vote changes are still possible until 11-May 1am CDT

The current votes I saw are:

10 votes for revision
Jonathan Karr
Eric Forgoston
William Waites
James Glazier  - RS Interface or Bioinformatics
Rahuman Sheriff
Yaling Liu - Bioinformatics
John Rice
Winston Garira
Gilberto Gonzalez-Parra
James Osborne

It seems 2 people supported Bioinformatics - James Glazier and Yaling Liu  so if this vote is accepted, they will split publication costs and the terget venue for revisions will be Bioinformatics.

There is currently 1 minority vote:
Jacob Barhak for direct submission to Nature -  Scientific Reports

If revision is selected, time will be limited, so I suggest those who voted to start working on revisions.

Hopefully this reminder will move us forward.

            Jacob

On Sat, May 1, 2021 at 12:18 PM Jacob Barhak <jacob.barhak at gmail.com<mailto:jacob.barhak at gmail.com>> wrote:
Greetings white paper contributors,

It is time to vote again for the target venue. Here are the options again.

  1.  Cureus - resubmission after addressing editor comments
  2.  Nature - if you vote for this venue please specify flavour such as Nature Scientific Reports
  3.  Science
  4.  Briefings in Bioinformatics
  5.  Trends in Biotechnology - requires distilling the paper
  6.  Journal of The Royal Society Interface
  7.  Annual Review of Public Health
  8.  BMJ
  9.  Annual Review of Biomedical Engineering
  10. F1000research - if you vote for this this venue please specify Gateway / Collection
  11. bulletin of mathematical biology
  12. Bioinformatics.
  13. Do not submit now - instead open for revisions for 2 weeks and then submit. If you choose this option also vote for the target venue after revisions so that we will not have to delay further.

I will ask that contributors pick one journal from that list - I ask that you REPLY ALL so votes will be transparent and time of vote will be registered since first to vote will break ties.

The voting period will be until Tuesday 11-May 1am CDT

Again, if a journal costs for open publication, whoever voted, will split publication costs. If anyone on this list is funded for this, please vote.

I urge contributors to vote - just so that we will have a preference order to follow in case of rejection.

Looking forward to your votes.

            Jacob
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