# Access to raw (bam or fastq) Smart-seq2 human cortex scRNA-seq

**URL:** <https://community.brain-map.org/t/access-to-raw-bam-or-fastq-smart-seq2-human-cortex-scrna-seq/3102>\
**Category:** Allen Brain Cell (ABC) Atlas\
**Created:** [February 24, 2024, 12:36am UTC](https://community.brain-map.org/t/access-to-raw-bam-or-fastq-smart-seq2-human-cortex-scrna-seq/3102 "2024-02-24T00:36:52Z")\
**Posts on this page:** 3\
**Page:** 1

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**Author:** ![davidaknowles](https://yyz1.discourse-cdn.com/flex027/user_avatar/community.brain-map.org/davidaknowles/32/1616_2.png) [@davidaknowles](https://community.brain-map.org/u/davidaknowles)\
**Post date:** [February 24, 2024, 12:36am UTC](https://community.brain-map.org/t/access-to-raw-bam-or-fastq-smart-seq2-human-cortex-scrna-seq/3102/1 "2024-02-24T00:36:52Z")

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Hi. My research group is interested in obtaining access to the raw (bam or fastq) Smart-seq2 human cortex scRNA-seq data ([Human Multiple Cortical Areas SMART-seq - brain-map.org](https://portal.brain-map.org/atlases-and-data/rnaseq/human-multiple-cortical-areas-smart-seq)). This would be with a view to doing alternative splicing analysis which we cannot do with the available count matrices. Thanks for any pointers,

David.

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**Author:** ![jeremyinseattle](https://yyz1.discourse-cdn.com/flex027/user_avatar/community.brain-map.org/jeremyinseattle/32/50_2.png) [@jeremyinseattle](https://community.brain-map.org/u/jeremyinseattle)\
**Post date:** [February 26, 2024, 4:31pm UTC](https://community.brain-map.org/t/access-to-raw-bam-or-fastq-smart-seq2-human-cortex-scrna-seq/3102/2 "2024-02-26T16:31:05Z")

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Hi @davidaknowles,

Please follow the instructions here: [NeMO Archive - Accessing Controlled Access Data](https://nemoarchive.org/resources/accessing-controlled-access-data); this explains how to get NDA approval to download these data via controlled access from NeMO. The two data sets you’ll need to ask for access for are “BRAIN/NeMO: A multimodal atlas of human brain cell types: Middle Temporal Gyrus & Human Cortex RNASeq” and “BRAIN/NeMO: A multimodal atlas of human brain cell types: Human Cortex RNASeq”.

Best,  
Jeremy

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**Author:** ![davidaknowles](https://yyz1.discourse-cdn.com/flex027/user_avatar/community.brain-map.org/davidaknowles/32/1616_2.png) [@davidaknowles](https://community.brain-map.org/u/davidaknowles)\
**Post date:** [February 27, 2024, 12:48am UTC](https://community.brain-map.org/t/access-to-raw-bam-or-fastq-smart-seq2-human-cortex-scrna-seq/3102/3 "2024-02-27T00:48:33Z")

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Thanks!