<div dir="auto">Thanks Gilberto, <div dir="auto"><br></div><div dir="auto">It seems the authors have a common theme with us, if you have a connection, perhaps you can make an introduction? </div><div dir="auto"><br></div><div dir="auto">Meanwhile, perhaps its a good time to inquire if Marcella got any feedback from the new target journal. </div><div dir="auto"><br></div><div dir="auto">Hopefully she has good news that will move us forward. </div><div dir="auto"><br></div><div dir="auto"><br></div><div dir="auto"> Jacob</div><br><br><div class="gmail_quote" dir="auto"><div dir="ltr" class="gmail_attr">On Wed, Sep 15, 2021, 12:23 Gilberto Gonzalez-Parra <<a href="mailto:gilberto.gonzalezparra@nmt.edu" rel="noreferrer noreferrer" target="_blank">gilberto.gonzalezparra@nmt.edu</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">Hello all,<div><br></div><div>I received this article that is related to the manuscript that we are dealing with,</div><div><br></div><div><a href="https://www.nature.com/articles/d41586-021-02486-7" rel="noreferrer noreferrer noreferrer" target="_blank">https://www.nature.com/articles/d41586-021-02486-7</a></div><div><br></div><div>Best,<br clear="all"><div><div dir="ltr" data-smartmail="gmail_signature"><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr">***************************************************************************</div><div dir="ltr">Gilberto C. Gonzalez-Parra, <span style="color:rgb(0,0,0);font-family:"Helvetica Neue",Helvetica,Arial,"Lucida Grande",sans-serif,serif,EmojiFont;font-size:13px">Ph.D in Applied Mathematics.</span></div><div dir="ltr"><font color="#000000" face="Helvetica Neue, Helvetica, Arial, Lucida Grande, sans-serif, serif, EmojiFont"><span style="font-size:13px">Faculty of the </span></font>Mathematics Department<div><div>New Mexico Tech, NM, USA.</div></div><div>****************************************************************************</div></div></div></div></div></div></div></div></div></div><br></div></div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Tue, Aug 17, 2021 at 6:58 AM Jacob Barhak <<a href="mailto:jacob.barhak@gmail.com" rel="noreferrer noreferrer noreferrer" target="_blank">jacob.barhak@gmail.com</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex"><div dir="auto">Well Tomas, <div dir="auto"><br></div><div dir="auto">There are plenty of venues with different editors with different opinions. Also, there are plenty of opinions among the group. </div><div dir="auto"><br></div><div dir="auto"><div dir="auto" style="font-family:sans-serif">Tomas, there is no real major problem in the manuscript core. The core information we accumulated as a group is well organized in one table. Only this alone is worth publication, and any delay by any party is counter effective and delays can actually be held against us as a group. </div><div dir="auto" style="font-family:sans-serif"><br></div><div dir="auto" style="font-family:sans-serif">If there is a real need for revision, this can be accommodated and we agreed there will be revisions, yet we need to move forward. </div></div><div dir="auto"><br></div><div dir="auto">At this point not moving forward is worse than trying and resubmit. </div><div dir="auto"><br></div><div dir="auto">As for the original submission. The editor pointed out things like self citation that caused the rejection. No version we have fixes it, so there was no way of satisfying that editor with this type of multi author paper anyway. Also, the editor did not do proper work of seeking opinions of reviewers as they should. So in this case we must switch. Unfortunately there is no other reasonable action. </div><div dir="auto"><br></div><div dir="auto">Might as well know what other editors and reviewers really think to focus revisions. </div><div dir="auto"><br></div><div dir="auto">And getting feedback should be a reasonably fast process. So I ask that instead of discussing about which version has more chance, we move forward and actually take actions towards publication. </div><div dir="auto"><br></div><div dir="auto">Hopefully Marcella can help us move forward quickly. </div><div dir="auto"><br></div><div dir="auto"> Jacob</div><div dir="auto"><br></div><div dir="auto"><br></div></div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Tue, Aug 17, 2021, 07:20 Tomas Helikar <<a href="mailto:thelikar2@unl.edu" rel="noreferrer noreferrer noreferrer" target="_blank">thelikar2@unl.edu</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
<div>
<p>Hi Jacob,</p>
<p>I think the point the group is making is that there was feedback
on the manuscript from the previous journal, which required
substantially revising the manuscript; that's what the group has
been trying to do (though the effort has slowed down a bit).</p>
<p>The previous journal editor raised some valid concerns about the
manuscript state, and many members of the group agreed that a
revision is indeed needed before moving to the next venue.
Submitting the same version of the manuscript to another journal
will, I'm afraid, result in the same outcome of rejection. If the
rejection in the suggested journal is hard (i.e., no invitation to
resubmit a revised version), then we lose a venue for possible
publication of the manuscript.</p>
<p>Best,</p>
<p>T.<br>
</p>
<div>
<div style="line-height:16px;margin:6px 0px;padding:8px;border-top:1px dotted rgb(174,177,166);border-bottom:1px dotted rgb(174,177,166);font-size:11px;color:grey">
<font size="2.5px;" color="#0049FF">Tomas
Helikar, Ph.D.</font> <br>
Susan J Rosowski Associate Professor <br>
Department of Biochemistry | University of Nebraska-Lincoln <br>
m: <a href="callto:402-547-8904" style="color:rgb(0,136,204)" rel="noreferrer noreferrer noreferrer noreferrer" target="_blank">402-547-8904</a> | o: <a href="callto:402-472-3530" style="color:rgb(0,136,204)" rel="noreferrer noreferrer noreferrer noreferrer" target="_blank">402-472-3530</a><br>
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<div>On 8/17/21 2:13 PM, Jacob Barhak wrote:<br>
</div>
<blockquote type="cite">
<div>
<font face="sans-serif" color="#FF6347">Non-NU Email</font>
<hr>
</div>
<div dir="auto">Well James,
<div dir="auto"><br>
</div>
<div dir="auto">Its a bit more complicated that what you
describe its not just editing work. </div>
<div dir="auto"><br>
</div>
<div dir="auto">Any version we submit must be approved for
submission by all those listed. </div>
<div dir="auto"><br>
</div>
<div dir="auto">We have not reached this point for any other
version other than the one we submitted before. So there is
much more work than just references and polishing. </div>
<div dir="auto"><br>
</div>
<div dir="auto">The only version we can legally submit is this
one: </div>
<div dir="auto"><a href="https://urldefense.com/v3/__https://docs.google.com/document/d/1IMEgmdNkx-EsnOjGuegpenSIMmKIkK00Lc8Gred3QxM/edit?usp=sharing__;!!PvXuogZ4sRB2p-tU!XQgHtF8amUyDkO2BuwhFFjU3o8r5NAnbMvGk-yuQH46H9g16qJU5-M0UBMdg_AMv$" rel="noreferrer noreferrer noreferrer noreferrer" target="_blank">https://docs.google.com/document/d/1IMEgmdNkx-EsnOjGuegpenSIMmKIkK00Lc8Gred3QxM/edit?usp=sharing</a><br>
</div>
<div dir="auto"><br>
</div>
<div dir="auto"><br>
</div>
<div dir="auto">We actually have 5 other versions and may
eventually get more versions after review and we can mention
this. Yet to move the process forward we need to get feedback
from the publishing venue.</div>
<div dir="auto"><br>
</div>
<div dir="auto">Marcella pointed out a new venue and so far
there was only support, so I hope she can continue the
process and ask for feedback on the version we agreed upon to
submit before. </div>
<div dir="auto"><br>
</div>
<div dir="auto">The sooner the better. <br>
</div>
<div dir="auto"><br>
</div>
<div dir="auto"><br>
</div>
<div dir="auto"> Jacob</div>
<div dir="auto"><br>
</div>
<br>
<br>
<div class="gmail_quote" dir="auto">
<div dir="ltr" class="gmail_attr">On Tue, Aug 17, 2021, 02:22
James Osborne <<a href="mailto:jmosborne@unimelb.edu.au" rel="noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">jmosborne@unimelb.edu.au</a>>
wrote:<br>
</div>
<blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
<div dir="ltr">
<div>Just to clarify the versions were talking about... <br>
</div>
<div><br>
</div>
<div>Here is the original submitted version that was
rejected by the editor without review.</div>
<div><a href="https://urldefense.com/v3/__https://docs.google.com/document/d/1IMEgmdNkx-EsnOjGuegpenSIMmKIkK00Lc8Gred3QxM/edit__;!!PvXuogZ4sRB2p-tU!XQgHtF8amUyDkO2BuwhFFjU3o8r5NAnbMvGk-yuQH46H9g16qJU5-M0UBPvBUk-K$" rel="noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">https://docs.google.com/document/d/1IMEgmdNkx-EsnOjGuegpenSIMmKIkK00Lc8Gred3QxM/edit</a><br>
</div>
<div><br>
</div>
<div>Here's the version we've been working on <br>
</div>
<div><a href="https://urldefense.com/v3/__https://docs.google.com/document/d/1VvyP3YZQdQYjj8DFKOpQ4pn_0pdDGgiT/edit?amp*3Bpli=1__;JQ!!PvXuogZ4sRB2p-tU!XQgHtF8amUyDkO2BuwhFFjU3o8r5NAnbMvGk-yuQH46H9g16qJU5-M0UBMkV18u-$" rel="noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">https://docs.google.com/document/d/1VvyP3YZQdQYjj8DFKOpQ4pn_0pdDGgiT/edit?amp%3Bpli=1</a><br>
</div>
<div><br>
</div>
<div>Even in this state, I think it stands a better chance
than the previously submitted one as if you remove all
the comments and highlighting it's a cleaner story. This
was a big issue with the original version and I don't
think it's appropriate to resubmit anywhere without
looking at this. </div>
<div>The issue is that it will take a concerted effort to
polish this updated version. Even sorting the references
is non trivial. </div>
<div>I think the only way of this happening is for a
"First Author" to step forward and take the lead. They
push work on the changes and chase people as needed but
in return they get first/senior/corresponding authorship
as appropriate. </div>
<div><br>
</div>
<div>James </div>
<div><br>
</div>
<div><br>
</div>
<div><br>
</div>
</div>
<br>
<div class="gmail_quote">
<div dir="ltr" class="gmail_attr">On Tue, Aug 17, 2021 at
2:33 PM Jacob Barhak <<a href="mailto:jacob.barhak@gmail.com" rel="noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">jacob.barhak@gmail.com</a>>
wrote:<br>
</div>
<blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
<div>
<div dir="auto">Thanks James,
<div dir="auto"><br>
</div>
<div dir="auto">This will for sure not be the final
version of the paper. We will have revisions and
already had discussions. </div>
<div dir="auto"><br>
</div>
<div dir="auto">The attempt here is to get the ball
rolling and to we need to start somewhere, so the
proper entry point is the last agreement. </div>
<div dir="auto"><br>
</div>
<div dir="auto">If the editor will be positive, I
believe we can reach a nice revised version that
everyone will be gappy with with augmented list of
authors. </div>
<div dir="auto"><br>
</div>
<div dir="auto">For now I just wanted to verify that
Marcella is willing to do the initial
communications with the editor.</div>
<div dir="auto"><br>
</div>
<div dir="auto">Hopefully its ok with her. </div>
<div dir="auto"><br>
</div>
<div dir="auto"> Jacob</div>
<div dir="auto"><br>
</div>
<div dir="auto"><br>
</div>
<div dir="auto"><br>
</div>
</div>
<br>
<div class="gmail_quote">
<div dir="ltr" class="gmail_attr">On Mon, Aug 16,
2021, 11:04 James A Glazier <<a href="mailto:jaglazier@gmail.com" rel="noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">jaglazier@gmail.com</a>>
wrote:<br>
</div>
<blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
<div>
<p>Dear Jacob:</p>
<p>I see a lot of progress but the text is still
fragmentary. I think you will have a hard time
having it reviewed before you clean it up some
more.
<br>
</p>
<p>Frontiers is a reasonable place for it, and
it does give you the opportunity to do
multiple rounds of review.</p>
<p>JAG<br>
</p>
<div>On 8/16/2021 11:59 AM, Jacob Barhak wrote:<br>
</div>
<blockquote type="cite">
<div dir="ltr">Hi Marcella,
<div><br>
</div>
<div>So far there were no objections and
support in your suggested venue was
provided by 9 out of the 17 original
authors + support by many that joined
later.</div>
<div><br>
</div>
<div>I have seen no objection to the venue
by anyone. - meaning that we can probably
move on to the new venue and start the
process.</div>
<div><br>
</div>
<div>I suggest you move on and contact the
editor and follow the proper process for
the venue and ask for feedback. </div>
<div><br>
</div>
<div>Please indicate that we are seeking
review to guide further revisions that we
have already begun, yet not completed, so
there may be changes in title, authors,
and text, yet the core paper has been
approved by 17 authors and major
arguments will most probably stay. </div>
<div><br>
</div>
<div>The version we can currently
legally submit is this one that we
approved:</div>
<div><a href="https://urldefense.com/v3/__https://docs.google.com/document/d/1IMEgmdNkx-EsnOjGuegpenSIMmKIkK00Lc8Gred3QxM/edit?usp=sharing__;!!PvXuogZ4sRB2p-tU!XQgHtF8amUyDkO2BuwhFFjU3o8r5NAnbMvGk-yuQH46H9g16qJU5-M0UBMdg_AMv$" rel="noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">https://docs.google.com/document/d/1IMEgmdNkx-EsnOjGuegpenSIMmKIkK00Lc8Gred3QxM/edit?usp=sharing</a><br>
</div>
<div><br>
</div>
<div>I locked that version for changes until
the review process is complete. </div>
<div><br>
</div>
<div>For the many who wanted revisions - we
will have them still - yet since we have
not reached agreement on a revised
version, it will have to wait until after
review. is provided and we can incorporate
reviewers comments in the revisions. </div>
<div><br>
</div>
<div>Marcella, please let us know if you
will handle submission and communications
with the publication venue. - Frontiers in
Systems Biology</div>
<div><br>
</div>
<div>Regarding submission, I suggest
starting with doing things that do not
take effort - like communicating with the
editor about this paper and declaring
intention to see the response we get. </div>
<div><br>
</div>
<div>While we wait for responses, we can
continue discussion and give a last chance
for objections to Frontiers in Systems
Biology to arrive from the original 17
contributors. If any objection to the
venue appears before we get a response, we
will have to stop the process. </div>
<div><br>
</div>
<div>Hopefully the large support in the new
venue will persist.</div>
<div><br>
</div>
<div>I suggest we start a new email thread
regarding submission and that we all get
updated on the process to keep things
transparent. </div>
<div><br>
</div>
<div> Jacob</div>
<div><br>
</div>
<div><br>
</div>
<div><br>
</div>
<div><br>
</div>
<div><br>
</div>
<div><br>
</div>
</div>
<br>
<div class="gmail_quote">
<div dir="ltr" class="gmail_attr">On Wed,
Aug 11, 2021 at 1:08 AM Gilberto
Gonzalez-Parra <<a href="mailto:gilberto.gonzalezparra@nmt.edu" rel="noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">gilberto.gonzalezparra@nmt.edu</a>>
wrote:<br>
</div>
<blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
<div dir="ltr">Hi all,
<div><br>
</div>
<div>I think the new version is better,
even though it is not ready. The main
points are there, which include the
importance of reproducibility and
integration in modeling biology
systems.</div>
<div><br>
</div>
<div>Probably, one or two co-authors
need to take the lead to polish the
article and references. I suggest
that these authors take some of the
top positions in the list of authors
(in some places author position is
taken into account). </div>
<div><br>
</div>
<div>Venue seems fine.</div>
<div><br clear="all">
<div>
<div dir="ltr">
<div dir="ltr">
<div>
<div dir="ltr">
<div>
<div dir="ltr">
<div>
<div dir="ltr">***************************************************************************</div>
<div dir="ltr">Gilberto
C. Gonzalez-Parra, <span>Ph.D
in Applied
Mathematics.</span></div>
<div dir="ltr"><font face="Helvetica
Neue, Helvetica,
Arial, Lucida
Grande,
sans-serif, serif,
EmojiFont" color="#000000"><span style="font-size:13px">Faculty of the </span></font>Mathematics
Department
<div>
<div>New Mexico
Tech, NM, USA.</div>
</div>
<div>****************************************************************************</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
<br>
</div>
</div>
<br>
<div class="gmail_quote">
<div dir="ltr" class="gmail_attr">On
Tue, Aug 10, 2021 at 1:24 PM Rahuman
Sheriff <<a href="mailto:sheriff@ebi.ac.uk" rel="noreferrer noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">sheriff@ebi.ac.uk</a>>
wrote:<br>
</div>
<blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
<div>I also agree with the venue and
the suggestion to tidy up the
manuscript with a strict deadline.
<div>Sheriff</div>
<div><br>
<div><br>
<blockquote type="cite">
<div>On 10 Aug 2021, at 10:43,
James Osborne <<a href="mailto:jmosborne@unimelb.edu.au" rel="noreferrer noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">jmosborne@unimelb.edu.au</a>>
wrote:</div>
<br>
<div>
<div dir="ltr" style="font-family:Helvetica;font-size:12px;font-style:normal;font-variant-caps:normal;font-weight:normal;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;text-decoration:none">I'm
fine with Frontiers.
<div><br>
</div>
<div>My 2 cents is that
the revised version
would be more likely to
get published. I think
we should find time to
tidy up what we need. </div>
<div><br>
</div>
<div>James</div>
</div>
<br style="font-family:Helvetica;font-size:12px;font-style:normal;font-variant-caps:normal;font-weight:normal;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;text-decoration:none">
<div class="gmail_quote" style="font-family:Helvetica;font-size:12px;font-style:normal;font-variant-caps:normal;font-weight:normal;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;text-decoration:none">
<div dir="ltr" class="gmail_attr">On
Tue, Aug 10, 2021 at
5:11 PM Tomas Helikar
<<a href="mailto:thelikar2@unl.edu" rel="noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">thelikar2@unl.edu</a>>
wrote:<br>
</div>
<blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
<div>
<p>Hi everyone,</p>
<p>I'm also fine with
this journal. But we
need to finalize the
revised version --
lots of work was
done on it already.</p>
<p>Perhaps we can
recirculate the last
version of the
google doc version
of it and set a
deadline for
finishing it? I
don't believe it
would take more than
a couple of weeks to
finalize.</p>
<p>Best wishes,</p>
<p>T.<br>
</p>
<div>
<div style="line-height:16px;margin:6px 0px;padding:8px;border-top:1px dotted rgb(174,177,166);border-bottom:1px dotted rgb(174,177,166);font-size:11px;color:grey">
<font size="2.5px;" color="#0049FF">Tomas
Helikar, Ph.D.</font><span> </span><br>
Susan J Rosowski
Associate
Professor<span> </span><br>
Department of
Biochemistry |
University of
Nebraska-Lincoln<span> </span><br>
m: <a href="callto:402-547-8904" style="color:rgb(0,136,204)" rel="noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">402-547-8904</a><span> </span>| o: <a href="callto:402-472-3530" style="color:rgb(0,136,204)" rel="noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">402-472-3530</a><br>
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noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">www.helikarlab.org</a><span> </span>|<span> </span><a href="https://urldefense.com/v3/__https://cellcollective.org/__;!!PvXuogZ4sRB2p-tU!XQgHtF8amUyDkO2BuwhFFjU3o8r5NAnbMvGk-yuQH46H9g16qJU5-M0UBH6vpppI$" style="border-bottom:1px dotted rgb(170,170,170);color:rgb(0,136,204);text-decoration:none" rel="noreferrer
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twitter: <a href="https://urldefense.com/v3/__http://twitter.com/helikarlab__;!!PvXuogZ4sRB2p-tU!XQgHtF8amUyDkO2BuwhFFjU3o8r5NAnbMvGk-yuQH46H9g16qJU5-M0UBPteMcOA$" style="border-bottom:1px dotted rgb(170,170,170);color:rgb(0,136,204);text-decoration:none" rel="noreferrer
noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">@helikarlab</a>,<span> </span><a href="https://urldefense.com/v3/__http://twitter.com/biocollective__;!!PvXuogZ4sRB2p-tU!XQgHtF8amUyDkO2BuwhFFjU3o8r5NAnbMvGk-yuQH46H9g16qJU5-M0UBHJTEYCd$" style="border-bottom:1px dotted rgb(170,170,170);color:rgb(0,136,204);text-decoration:none" rel="noreferrer
noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">@biocollective</a></div>
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<div>On 8/9/21 5:06
PM, John Gennari
wrote:<br>
</div>
<blockquote type="cite">
<div><font face="sans-serif" color="#FF6347">Non-NU
Email</font>
<hr>
</div>
<p>I agree with Jon
Karr. The venue is
fine, but we need
at least a quick
review for
readability before
submission.</p>
<p>-John G.<br>
</p>
<div>On 8/9/2021
7:49 AM, Jonathan
Karr wrote:<br>
</div>
<blockquote type="cite">
<div dir="ltr">Hi
everyone,
<div><br>
</div>
<div>I think
Frontiers is
fine. I think
the key thing
is to edit the
paper (for
focus and
readability by
a
broader audience)
before it is
submitted to
any journal.</div>
<div><br>
</div>
<div>Regards</div>
<div>Jonathan</div>
</div>
<br>
<div class="gmail_quote">
<div dir="ltr" class="gmail_attr">On
Mon, Aug 9,
2021 at 10:31
AM Jacob
Barhak <<a href="mailto:jacob.barhak@gmail.com" rel="noreferrer noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">jacob.barhak@gmail.com</a>> wrote:<br>
</div>
<blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
<div dir="auto">Well
Marcella,
<div dir="auto"><br>
</div>
<div dir="auto">If
there is no
objection
raised or an
alternative
resolution
with more
support
appears, then
I see no
reason not to
proceed. So I
think we just
need to give
enough time
for original
contributors
to raise an
objection or
propose an
alternatives
that will gain
more support.
In the past we
used a week
for such
processes, I
guess that if
we wait until
next weekend
and no
objection is
raised to the
venue or an
alternative
with more
support
appears we can
proceed. We
currently have
5 original
contributors
supporting
your suggested
venue and one
contributor
than joined
later in the
revisions.</div>
<div dir="auto"><br>
</div>
<div dir="auto"><br>
</div>
<div dir="auto">Note
that in
submission you
should use the
original
version we
reached
consensus for
submission,
yet note that
that we plan
to revise the
work and add
more
contributors.
You can point
to revisions
we started. </div>
<div dir="auto"><br>
</div>
<div dir="auto">Lets
wait until
next week and
hope no one
objects so we
can proceed
quickly. </div>
<div dir="auto"><br>
</div>
<div dir="auto">
Jacob</div>
<br>
<br>
<div class="gmail_quote" dir="auto">
<div dir="ltr" class="gmail_attr">On Mon, Aug 9, 2021, 08:52 Torres, Marcella <<a href="mailto:mtorres@richmond.edu" rel="noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">mtorres@richmond.edu</a>>
wrote:<br>
</div>
<blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
<div lang="EN-US">
<div>
<p class="MsoNormal">Once
enough
contributors
agree, the
process for
submission is
that I’ll
confirm
interest (I
just got an
email
requesting for
this this
morning), let
them know that
we intend to
submit 1
manuscript and
what the
proposed title
of the
manuscript is.
Once that
initial
information is
submitted,
then I will be
“emailed
information
about next
steps”. Of
course, at any
point we can
also contact
the editorial
office, but
would it be
helpful to get
a sense of the
process first
and then ask
for
clarification
as needed? At
what point
will we have
enough
responses from
contributors
to begin?</p>
<div> <br>
</div>
<p class="MsoNormal">Best,</p>
<p class="MsoNormal">Marcella</p>
<div> <br>
</div>
<div style="border-style:solid none none;border-top-width:1pt;border-top-color:rgb(181,196,223);padding:3pt 0in 0in">
<p class="MsoNormal" style="margin-bottom:12pt"><b><span style="font-size:12pt">From:<span> </span></span></b><span style="font-size:12pt">Vp-reproduce-subgroup <<a href="mailto:vp-reproduce-subgroup-bounces@lists.simtk.org" rel="noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">vp-reproduce-subgroup-bounces@lists.simtk.org</a>>
on behalf of
John Rice <<a href="mailto:john.rice@noboxes.org" rel="noreferrer noreferrer
noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">john.rice@noboxes.org</a>><br>
<b>Date:<span> </span></b>Sunday,
August 8, 2021
at 7:23 PM<br>
<b>To:<span> </span></b>Yaling
Liu <<a href="mailto:yal310@lehigh.edu" rel="noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">yal310@lehigh.edu</a>><br>
<b>Cc:<span> </span></b><a href="mailto:vp-reproduce-subgroup@lists.simtk.org" rel="noreferrer
noreferrer
noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">vp-reproduce-subgroup@lists.simtk.org</a><span> </span><<a href="mailto:vp-reproduce-subgroup@lists.simtk.org" rel="noreferrer
noreferrer
noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">vp-reproduce-subgroup@lists.simtk.org</a>>,<span> </span><a href="mailto:vp-integration-subgroup@lists.simtk.org" rel="noreferrer
noreferrer
noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">vp-integration-subgroup@lists.simtk.org</a><span> </span><<a href="mailto:vp-integration-subgroup@lists.simtk.org" rel="noreferrer
noreferrer
noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">vp-integration-subgroup@lists.simtk.org</a>>,
Jonathan Karr
<<a href="mailto:jonrkarr@gmail.com" rel="noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">jonrkarr@gmail.com</a>>,
John Gennari
<<a href="mailto:gennari@uw.edu" rel="noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">gennari@uw.edu</a>>,
Faeder, James
R <<a href="mailto:faeder@pitt.edu" rel="noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">faeder@pitt.edu</a>>,
Winston Garira
<<a href="mailto:Winston.Garira@univen.ac.za" rel="noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">Winston.Garira@univen.ac.za</a>><br>
<b>Subject:<span> </span></b>Re:
[Vp-reproduce-subgroup] [Vp-integration-subgroup] White paper revision</span></p>
</div>
<div style="border:1pt solid red;padding:2pt">
<p class="MsoNormal" style="background-color:yellow"><b><span style="font-size:10pt;font-family:Arial,sans-serif;color:red">External
Email:</span></b><span style="font-size:10pt;font-family:Arial,sans-serif"> Use caution in
opening links,
attachments,
and buying
gift cards.</span><span style="font-size:10pt;font-family:Arial,sans-serif"></span></p>
</div>
<div> <br>
</div>
<div>
<p class="MsoNormal" style="margin-bottom:12pt">Me too</p>
<div>
<p class="MsoNormal">Typed
with two
thumbs on my
iPhone. (757)
318-0671<span> </span></p>
<div>
<div> <br>
</div>
</div>
<div>
<div>
<p class="MsoNormal">“Upon
this gifted
age, in its
dark hour,</p>
</div>
<div>
<p class="MsoNormal">Rains
from the sky a
meteoric
shower</p>
</div>
<div>
<p class="MsoNormal">Of
facts . . .
they lie
unquestioned,
uncombined.</p>
</div>
<div>
<p class="MsoNormal">Wisdom
enough to
leech us of
our ill</p>
</div>
<div>
<p class="MsoNormal">Is
daily spun;
but there
exists no loom</p>
</div>
<div>
<p class="MsoNormal">To
weave it into
fabric.”</p>
</div>
<div>
<div> <br>
</div>
</div>
<div>
<p class="MsoNormal">–Edna
St. Vincent
Millay,</p>
</div>
<div>
<div> <br>
</div>
</div>
<div>
<div> <br>
</div>
</div>
</div>
</div>
<div>
<p class="MsoNormal" style="margin-bottom:12pt"><br>
On Aug 8,
2021, at
19:09, Yaling
Liu <<a href="mailto:yal310@lehigh.edu" rel="noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">yal310@lehigh.edu</a>>
wrote:</p>
</div>
<div>
<p class="MsoNormal"><span> </span></p>
<div>
<p class="MsoNormal">I
am fine with
the suggested
new venue and
willing to
revise
further. We
don't need to
wait for
everyone to
reply here -
this email
chain is way
too long and
guess a lot of
people were
busy and
ignored them.</p>
<div>
<div> <br>
</div>
</div>
<div>
<p class="MsoNormal">Thanks.</p>
</div>
<div>
<div> <br>
</div>
</div>
<div>
<p class="MsoNormal">Yaling</p>
</div>
</div>
<div> <br>
</div>
<div>
<div>
<p class="MsoNormal">On
Sun, Aug 8,
2021 at 4:57
PM Jacob
Barhak <<a href="mailto:jacob.barhak@gmail.com" rel="noreferrer noreferrer
noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">jacob.barhak@gmail.com</a>> wrote:</p>
</div>
<blockquote style="border-style:none none none solid;border-left-width:1pt;border-left-color:rgb(204,204,204);padding:0in 0in 0in 6pt;margin:5pt 0in 5pt 4.8pt">
<div>
<p class="MsoNormal">Thanks
Hana, <span> </span></p>
<div>
<div> <br>
</div>
</div>
<div>
<p class="MsoNormal">The
revised
version is far
from ready to
being
submitted
anywhere.
There is just
too much to do
there to put
it in shape
for
submission. </p>
</div>
<div>
<div> <br>
</div>
</div>
<div>
<p class="MsoNormal">We
do want to
advance in
making
revisions,
yet the
attempt here
is to
accelerate the
process by
asking a 3rd
publishing
party to
provide proper
review for
what is
actually
needed for
publication,
so you may
want to save
your efforts
until after we
get feedback -
they will be
more effective
then when we
have
feedback. </p>
</div>
<div>
<div> <br>
</div>
</div>
<div>
<p class="MsoNormal">However,
we do need
enough support
and no
objections to
proceed to
engage with
the new venue
suggested. </p>
</div>
<div>
<div> <br>
</div>
</div>
<div>
<p class="MsoNormal">We
have currently
3 of the 17 of
the original
contributors
and 1 who
joined later
that approves
of a new
venue.
Hopefully
others will
follow so we
can proceed
quickly. </p>
</div>
<div>
<div> <br>
</div>
</div>
<div>
<p class="MsoNormal">Thank
you for the
reply. </p>
</div>
<div>
<div> <br>
</div>
</div>
<div>
<p class="MsoNormal">
<span> </span>Jacob</p>
</div>
<div>
<div> <br>
</div>
</div>
</div>
<div> <br>
</div>
<div>
<div>
<p class="MsoNormal">On
Sat, Aug 7,
2021, 23:46
Dobrovolny,
Hana <<a href="mailto:h.dobrovolny@tcu.edu" rel="noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">h.dobrovolny@tcu.edu</a>>
wrote:</p>
</div>
<blockquote style="border-style:none none none solid;border-left-width:1pt;border-left-color:rgb(204,204,204);padding:0in 0in 0in 6pt;margin:5pt 0in 5pt 4.8pt">
<div>
<div id="m_-6144388828576964928m_6102305364647637465m_3043055538445103352gmail-m_4238835181715110326m_-8192401204604316063m_4386770334562984755m_-1284523310599675875gmail-m_3079181941403232524m_-7275440222865029721gmail-m_-2501105178215063338gmail-m_-4770028938192598232gmail-m_-8595028391363473299gmail-m_3218733467120122652gmail-m_-7038258438093066422gmail-m_6686079875447190907m_-6359702125158232037gmail-m_-3222322118285752855m_2418018346964135372divtagdefaultwrapper">
<p><span style="font-size:12pt">I'm
fine with the
suggested
venue. I'll
double check
the sections I
was heading
sometime this
week, but I
think all
suggestions
were
incorporated
last time I
checked.</span></p>
<p><span style="font-size:12pt">Hana</span></p>
<div><span style="font-size:12pt"> </span><br>
</div>
<div id="m_-6144388828576964928m_6102305364647637465m_3043055538445103352gmail-m_4238835181715110326m_-8192401204604316063m_4386770334562984755m_-1284523310599675875gmail-m_3079181941403232524m_-7275440222865029721gmail-m_-2501105178215063338gmail-m_-4770028938192598232gmail-m_-8595028391363473299gmail-m_3218733467120122652gmail-m_-7038258438093066422gmail-m_6686079875447190907m_-6359702125158232037gmail-m_-3222322118285752855m_2418018346964135372Signature">
<div name="divtagdefaultwrapper">
<div>
<div>
<p class="MsoNormal"><span style="font-size:10pt">*******************************************************<br>
Dr. Hana
Dobrovolny<br>
Associate
Professor of
Biophysics<br>
Texas
Christian
University<br>
TCU Box 298840<br>
Fort Worth, TX
76129<br>
<br>
phone: (817)
257-6379 fax:
(817) 257-7742<br>
email:<span> </span></span><a href="mailto:h.dobrovolny@tcu.edu" rel="noreferrer noreferrer noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank"><span style="font-size:10pt">h.dobrovolny@tcu.edu</span></a><span style="font-size:10pt"><br>
*******************************************************</span></p>
</div>
</div>
</div>
</div>
<div style="margin-bottom:12pt"><span style="font-size:12pt"> </span><br>
</div>
<div>
<div class="MsoNormal" style="text-align:center" align="center"><span style="font-size:12pt">
<hr width="100%" size="0" align="center">
</span></div>
<div id="m_-6144388828576964928m_6102305364647637465m_3043055538445103352gmail-m_4238835181715110326m_-8192401204604316063m_4386770334562984755m_-1284523310599675875gmail-m_3079181941403232524m_-7275440222865029721gmail-m_-2501105178215063338gmail-m_-4770028938192598232gmail-m_-8595028391363473299gmail-m_3218733467120122652gmail-m_-7038258438093066422gmail-m_6686079875447190907m_-6359702125158232037gmail-m_-3222322118285752855m_2418018346964135372divRplyFwdMsg">
<p class="MsoNormal"><b><span>From:</span></b><span><span> </span>Vp-reproduce-subgroup
<</span><a href="mailto:vp-reproduce-subgroup-bounces@lists.simtk.org" rel="noreferrer
noreferrer
noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">vp-reproduce-subgroup-bounces@lists.simtk.org</a><span>>
on behalf of
Jacob Barhak
<</span><a href="mailto:jacob.barhak@gmail.com" rel="noreferrer noreferrer
noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">jacob.barhak@gmail.com</a><span>><br>
<b>Sent:</b><span> </span>August
7, 2021 11:18
AM<br>
<b>To:</b><span> </span>Torres,
Marcella<br>
<b>Cc:</b><span> </span></span><a href="mailto:vp-reproduce-subgroup@lists.simtk.org" rel="noreferrer
noreferrer
noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">vp-reproduce-subgroup@lists.simtk.org</a><span>;<span> </span></span><a href="mailto:vp-integration-subgroup@lists.simtk.org" rel="noreferrer
noreferrer
noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank">vp-integration-subgroup@lists.simtk.org</a><span>;
Jonathan Karr;
John Gennari;
Winston
Garira;
Faeder, James
R<br>
<b>Subject:</b><span> </span>Re:
[Vp-reproduce-subgroup] [Vp-integration-subgroup] White paper revision</span><span style="font-size:12pt"></span></p>
<div>
<div><span style="font-size:12pt"> </span><br>
</div>
</div>
</div>
<div>
<p><strong><span style="font-size:12pt;font-family:Calibri,sans-serif;background-color:yellow">[EXTERNAL
EMAIL WARNING]</span></strong><span style="font-size:12pt;background-color:yellow"> DO NOT CLICK LINKS or
open
attachments
unless you
recognize the
sender and
know the
content is
safe.</span><span style="font-size:12pt"></span></p>
<div>
<div>
<p class="MsoNormal"><span style="font-size:12pt;font-family:Arial,sans-serif">And to all white
paper
contributors,</span><span style="font-size:12pt"></span></p>
<div>
<div><span style="font-size:12pt;font-family:Arial,sans-serif"> </span><br>
</div>
</div>
<div>
<p class="MsoNormal"><span style="font-size:12pt;font-family:Arial,sans-serif">You are getting this
message to
raise it to
the top of
your
mailboxes. </span></p>
</div>
<div>
<div><span style="font-size:12pt;font-family:Arial,sans-serif"> </span><br>
</div>
</div>
<div>
<p class="MsoNormal"><span style="font-size:12pt;font-family:Arial,sans-serif">Hopefully enough of
you will look
at this during
the weekend to
comment on the
best way to
move forward
while
considering
the new offer
from
Marcella. </span></p>
</div>
<div>
<div><span style="font-size:12pt;font-family:Arial,sans-serif"> </span><br>
</div>
</div>
<div>
<p class="MsoNormal"><span style="font-size:12pt;font-family:Arial,sans-serif">The faster we move,
the better. </span></p>
</div>
<div>
<div><span style="font-size:12pt;font-family:Arial,sans-serif"> </span><br>
</div>
</div>
<div>
<p class="MsoNormal"><span style="font-size:12pt;font-family:Arial,sans-serif"> <span> </span>Jacob</span></p>
</div>
<div>
<div><span style="font-size:12pt;font-family:Arial,sans-serif"> </span><br>
</div>
</div>
<div>
<div><span style="font-size:12pt;font-family:Arial,sans-serif"> </span><br>
</div>
</div>
</div>
<div><span style="font-size:12pt"> </span><br>
</div>
<div>
<div>
<p class="MsoNormal"><span style="font-size:12pt">On Tue, Aug 3, 2021, 01:03 Jacob Barhak <</span><a href="mailto:jacob.barhak@gmail.com" rel="noreferrer noreferrer
noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank"><span style="font-size:12pt">jacob.barhak@gmail.com</span></a><span style="font-size:12pt">> wrote:</span></p>
</div>
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<p class="MsoNormal"><span style="font-size:12pt">Thanks Marcella, <span> </span></span></p>
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<p class="MsoNormal"><span style="font-size:12pt">Your suggestion may be the solution here. </span></p>
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<p class="MsoNormal"><span style="font-size:12pt">From what I see, this venue is a good fit. Yet
we need to
learn the
opinion of the
other
contributors. </span></p>
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<p class="MsoNormal"><span style="font-size:12pt">If we collect enough support and no contributor
objects, we
can approach
the editor and
ask if the
paper will
receive proper
review to
guide
revisions. </span></p>
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<p class="MsoNormal"><span style="font-size:12pt">I look forward for more responses. </span></p>
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<p class="MsoNormal"><span style="font-size:12pt"> <span> </span>Jacob</span></p>
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<p class="MsoNormal"><span style="font-size:12pt">On Mon, Aug 2, 2021, 11:57 Torres, Marcella <</span><a href="mailto:mtorres@richmond.edu" rel="noreferrer noreferrer noreferrer
noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank"><span style="font-size:12pt">mtorres@richmond.edu</span></a><span style="font-size:12pt">> wrote:</span></p>
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<p class="MsoNormal"><span style="font-size:12pt">Hi all and Jacob,</span></p>
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<p class="MsoNormal"><span style="font-size:12pt">I’m interested in getting it circulated, and want
to propose
Frontiers in
Systems
Biology as a
possible venue
– I just
joined the
editorial
board and
received
notice of a
focused issue
that includes
challenges in
multiscale
modeling:<span> </span></span><a href="https://urldefense.com/v3/__https:/www.frontiersin.org/research-topics/24484/insights-in-systems-biology-multiscale-mechanistic-modeling-2021?utm_source=F-RTM&utm_medium=CFP_E1&utm_campaign=PRD_CFP_T1_RT-TITLE*__;Iw!!K6Z8K8YTIA!VdlFMCuGyTWxTFwAHTufvXzSxbtUQ9ckyDlofvqR1sm1Q-6-HD2vdZtc_2WFepwnGQ8$" rel="noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer noreferrer" target="_blank"></a></p></div></div></blockquote></div></blockquote></div></div></div></div></div></div></blockquote></div></blockquote></div></div></div></div></div></blockquote></div></div></blockquote></div></blockquote></blockquote></div></blockquote></div></div></blockquote></div></div></div></blockquote></div></blockquote></div></blockquote></div></blockquote></div></div></blockquote></div></blockquote></div></div></blockquote></div></blockquote></div></blockquote></div></blockquote></div></div>