Re: Update: NeuroLINCS PWG manuscript and need DCIC LINCS data portal confirmation

[Andrea Matlock]

See below and please advise, thank you!!!

On Fri, Aug 26, 2022 at 11:06 AM Andrea Matlock <andrea.ma...@gmail.com> wrote:

Hi Dusica,

The NeuroLINCS proteomic manuscript has been accepted and officially resubmitted. I've attached the new submission and would like confirmation on which web address to use for the data and metadata that was hosted at:

http://lincsportal.ccs.miami.edu/datasets/

Currently neither this or the DCIC portal site, lincsportal.ccs.miami.edu/dcic-portal/ are working or accessible. Does this mean the data is expected to be housed at the new iLINCS web address, http://www.ilincs.org/ilincs/datasets/LINCS? Please let me know so I can put the correct web address in the published manuscript.

Wishing you all the best and thank you!

Andrea

On Thu, Aug 25, 2022 at 11:15 PM Michael MacCoss <mac...@uw.edu> wrote:

Hi Andrea, 

Unfortunately I only have control over the Panorama site.

I'm adding Dusica to the thread as I'm sure she can help with the links from the DCIC. 

Cheers, 

Mike 

On Thu, Aug 25, 2022, 10:53 PM Andrea Matlock <andrea.ma...@gmail.com> wrote:

Thanks, I have that one (and I am happy that the link works, unlike the DCIC site) but I thought you might have Dusic's paper. No worries, I will work it out with the DCIC but I had wanted to confirm the website is still correct since it is not currently working.

This is the site I have that is not working:

NIH LINCS data portal

http://lincsportal.ccs.miami.edu/datasets/

This is another site they have made but it doesn't have all the data and metadata:

http://www.ilincs.org/ilincs/datasets/LINCS

The iLINCS site also has a web link to data that goes to another inactive, not working site:

lincsportal.ccs.miami.edu/dcic-portal/

On Thu, Aug 25, 2022 at 6:06 PM Michael MacCoss <mac...@uw.edu> wrote:

Hi Andrea,

Is this it?  https://panoramaweb.org/NeuroLINCS_iPSCs.url

-Mike

On Thu, Aug 25, 2022 at 12:55 PM Andrea Matlock <andrea.ma...@gmail.com> wrote:

Hello Mike,

I am sending off the final manuscript. Do you have the correct data portal link for LINCS? The LINCS data portal web link I have is not working. See below the email I sent to Dusica for specifics. I am not able to get a more immediate response from Dusica.

Thanks,

Andrea

---------- Forwarded message ---------
From: Vidovic, Dusica <DVid...@med.miami.edu>
Date: Thu, Aug 25, 2022 at 12:14 PM
Subject: Re: [EXTERNAL] LINCS data portal question
To: Andrea Matlock <andrea.ma...@gmail.com>

Hi Andrea,

I am currently out of office with a limited internet access. I will get back to you as soon as possible.

Best,

Dusica 

On Aug 25, 2022, at 9:56 PM, Andrea Matlock <andrea.ma...@gmail.com> wrote:



CAUTION: This email originated from outside the organization. DO NOT CLICK ON LINKS or OPEN ATTACHMENTS unless you know and trust the sender.

Hi Dusica!

I am submitting our final draft after final acceptance of the NeuroLINCS proteomics paper but I need to know if I am using the correct LINCS data portal web address the one I have does not seem to work and I am not finding any working link when I do a search or through the LINCS program website. Let me know what I should be putting in the final paper.

Thank you and all the best, always!

Cheers,

Andrea

--

------------------------------------------------
Michael J. MacCoss, Ph.D.
Professor of Genome Sciences
University of Washington
Box 355065, Foege S113
3720 15th Ave NE
Seattle, WA 98195-5065

Office Phone: (206) 616-7451   Office: Foege S232

Lab Phone: (206) 685-6989      Lab: S113D and S109

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pronouns: he/him

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[mario.me...@gmail.com]

Hi Andrea,

The data should still be downloaded from LINCS LDP (https://lincsportal.ccs.miami.edu/dcic-portal/), which is up and running. The data in NeuroLINCS data in iLINCS is not up to date.

Best,

Mario