# How rto download single cell RNAseq data in patchseq **URL:** \ **Category:** How To\ **Tags:** rna-seq\ **Created:** [July 27, 2023, 7:09am UTC](https://community.brain-map.org/t/how-rto-download-single-cell-rnaseq-data-in-patchseq/2527 "2023-07-27T07:09:25Z")\ **Posts on this page:** 9\ **Page:** 1
**Author:** ![heather\_green](https://avatars.discourse-cdn.com/v4/letter/h/a88e4f/32.png) [@heather\_green](https://community.brain-map.org/u/heather_green)\ **Post date:** [July 27, 2023, 7:09am UTC](https://community.brain-map.org/t/how-rto-download-single-cell-rnaseq-data-in-patchseq/2527/1 "2023-07-27T07:09:25Z")
Hi Allen Community, I am trying to learn patch-seq data on your website, and I want to download patch-seq data for analysis. But I find the single-cell RNAseq data you put on NEMO is under control. How can I get access to obtain single-cell RNAseq data of patch-seq? I know maybe I have to do some paperwork, may you let me know how to send my application Thank you so much, heather ---
**Author:** ![brian\_lee](https://avatars.discourse-cdn.com/v4/letter/b/90ced4/32.png) [@brian\_lee](https://community.brain-map.org/u/brian_lee)\ **Post date:** [July 31, 2023, 9:56pm UTC](https://community.brain-map.org/t/how-rto-download-single-cell-rnaseq-data-in-patchseq/2527/2 "2023-07-31T21:56:39Z")
Hi Heather, can you direct me to where are you are trying to download the data from? I need to know what source/link you are accessing before I can answer. ---
**Author:** ![heather\_green](https://avatars.discourse-cdn.com/v4/letter/h/a88e4f/32.png) [@heather\_green](https://community.brain-map.org/u/heather_green)\ **Post date:** [August 1, 2023, 1:45am UTC](https://community.brain-map.org/t/how-rto-download-single-cell-rnaseq-data-in-patchseq/2527/3 "2023-08-01T01:45:54Z")
That is my fault. I want to download patch-seq data from your website on there [url for data](https://knowledge.brain-map.org/data/1HEYEW7GMUKWIQW37BO/specimens/image?displayProperties=75S21YZHJ1CZ585S202,Z8BZR1LDP9G4I97O394,O267WEUPC2MMK3MI7ZY,DW0F0S320VR4NX0DBPT,75VJLLCLB2ADNQCABJD,4OAW8IKKDOSUF84RZCT,17Q8WESJFABC8QV7O69,Q0LG0S1W23HUAKA2SW3&filter.projectReferenceIds=CONTAINS~1HEYEW7GMUKWIQW37BO&filterProperties=75S21YZHJ1CZ585S202,Z8BZR1LDP9G4I97O394,O267WEUPC2MMK3MI7ZY,DW0F0S320VR4NX0DBPT,75VJLLCLB2ADNQCABJD,4OAW8IKKDOSUF84RZCT,17Q8WESJFABC8QV7O69,Q0LG0S1W23HUAKA2SW3&limit=50&offset=0&sort=4D4RGMXTPBL0YAY5UGJ~DESC,DW0F0S320VR4NX0DBPT~DESC&tileProperties=SPECIMENS_SUMMARY_CELL,EPMT6VK9G59620WK8G3,KNR4W15BCX77H0DNVS7,9HMC0FENZPDPJURHZI2,YAHK4SNZMIJ7MO6C39X,3JH1B8UL3YEO4UAFC6Y,P36029Z8P3KT4E7X55G,602PNBMM1CW6CCJYNCI). I found that your patch-seq data are stored separately, so I click the red box on this picture to download RNAseq data ![1690853596505](https://canada1.discourse-cdn.com/flex027/uploads/brainobservatory/original/1X/a1584ad8a7d75522703aaacd1492393a270ace14.png) I turn to the NEMO website, and I could not find the Source Data URL like the picture below ![1690854007145](https://canada1.discourse-cdn.com/flex027/uploads/brainobservatory/original/1X/f490f9f13f226454ce31d95011062d4a16befbfd.png) There is the URL for data stored in NEMO [RNAseq\_data\_stored\_in\_NEMO\_url](https://assets.nemoarchive.org/dat-7uhwm74) Thanks heather ---
**Author:** ![brian\_lee](https://avatars.discourse-cdn.com/v4/letter/b/90ced4/32.png) [@brian\_lee](https://community.brain-map.org/u/brian_lee)\ **Post date:** [August 1, 2023, 3:30pm UTC](https://community.brain-map.org/t/how-rto-download-single-cell-rnaseq-data-in-patchseq/2527/4 "2023-08-01T15:30:42Z")
Thanks Heather. On those links there should be a link /explanation on how to complete our NDA to gain access to our data. We are reaching out to our NeMO folks to restore this and I will contact you as soon as it is complete. ---
**Author:** ![heather\_green](https://avatars.discourse-cdn.com/v4/letter/h/a88e4f/32.png) [@heather\_green](https://community.brain-map.org/u/heather_green)\ **Post date:** [August 2, 2023, 1:14am UTC](https://community.brain-map.org/t/how-rto-download-single-cell-rnaseq-data-in-patchseq/2527/5 "2023-08-02T01:14:48Z")
Thank you so much, Brian Lee, for helping me with the download link! Your assistance is greatly appreciated! ---
**Author:** ![brian\_lee](https://avatars.discourse-cdn.com/v4/letter/b/90ced4/32.png) [@brian\_lee](https://community.brain-map.org/u/brian_lee)\ **Post date:** [August 3, 2023, 8:03pm UTC](https://community.brain-map.org/t/how-rto-download-single-cell-rnaseq-data-in-patchseq/2527/6 "2023-08-03T20:03:46Z")
Hi Heather, here is the link to complete the NDA - this is required to access our data. This should be on the page you accessed and NeMO is currently working to make it more accessible. [NeMO Archive - Accessing Controlled Access Data](https://nemoarchive.org/resources/accessing-controlled-access-data) ---
**Author:** ![heather\_green](https://avatars.discourse-cdn.com/v4/letter/h/a88e4f/32.png) [@heather\_green](https://community.brain-map.org/u/heather_green)\ **Post date:** [August 5, 2023, 3:04am UTC](https://community.brain-map.org/t/how-rto-download-single-cell-rnaseq-data-in-patchseq/2527/7 "2023-08-05T03:04:38Z")
Hi, Lee. Thanks for your help! I really appreciate it. But now, it says my account doesn’t affiliate with the NIH-Recognized Research Institution. Is there any way I can do to deal with it? How can my account get permission from the institution? Should I sign a new account for it? If not, can I download these data from other websites? Sincerely, Heather ---
**Author:** ![brian\_lee](https://avatars.discourse-cdn.com/v4/letter/b/90ced4/32.png) [@brian\_lee](https://community.brain-map.org/u/brian_lee)\ **Post date:** [August 9, 2023, 7:38pm UTC](https://community.brain-map.org/t/how-rto-download-single-cell-rnaseq-data-in-patchseq/2527/8 "2023-08-09T19:38:53Z")
Hi Heather, accounts must be set up using an institutional email address. ---
**Author:** ![tmchartrand](https://yyz1.discourse-cdn.com/flex027/user_avatar/community.brain-map.org/tmchartrand/32/862_2.png) [@tmchartrand](https://community.brain-map.org/u/tmchartrand)\ **Post date:** [August 21, 2023, 11:31pm UTC](https://community.brain-map.org/t/how-rto-download-single-cell-rnaseq-data-in-patchseq/2527/9 "2023-08-21T23:31:11Z")
Looks to me like the dataset link is now available at the NEMO landing page ([NeMO Data Archive Assets](https://assets.nemoarchive.org/dat-7uhwm74)), with a direct link to [Index of /other/AIBS/AIBS\_patchseq/transcriptome/scell/SMARTseq](http://data.nemoarchive.org/other/AIBS/AIBS_patchseq/transcriptome/scell/SMARTseq/). This shouldn’t be controlled access data, @brian_lee maybe you were mixing this up with the human cell data?