# \#sea-ad **URL:** https://community.brain-map.org/tag/sea-ad/95.md [Latest](https://community.brain-map.org/latest.md) · [Categories](https://community.brain-map.org/categories.md) · [Tags](https://community.brain-map.org/tags.md) --- ## [Clarification of SEA-AD MTG layer-level IBA1–6E10 colocalization percentage](https://community.brain-map.org/t/clarification-of-sea-ad-mtg-layer-level-iba1-6e10-colocalization-percentage/5068)
**Author:** [@Alexy](https://community.brain-map.org/u/Alexy)\ **Replies:** 0\ **Last updated:** [September 5, 2026, 9:23pm UTC](https://community.brain-map.org/t/clarification-of-sea-ad-mtg-layer-level-iba1-6e10-colocalization-percentage/5068 "2026-09-05T21:23:09Z")
Hello SEA-AD team, I am preparing a donor-level secondary analysis using the publicly released June 2026 SEA-AD quantitative neuropathology summary and processed MTG endothelial pseudobulk data. I would appreciate clari… --- ## [Donor mapping for MERFISH MEC/HPF specimens](https://community.brain-map.org/t/donor-mapping-for-merfish-mec-hpf-specimens/5020)
**Author:** [@TamaraV](https://community.brain-map.org/u/TamaraV)\ **Replies:** 4\ **Last updated:** [August 4, 2026, 8:44pm UTC](https://community.brain-map.org/t/donor-mapping-for-merfish-mec-hpf-specimens/5020 "2026-08-04T20:44:53Z")
I’m working with two SEA-AD MERFISH files from the spatial-transcriptomics bucket: medial-entorhinal-cortex/combined\_anndata\_object/1444201261\_MEC\_mapped.h5ad andhippocampus/combined\_anndata\_object/1444211893\_HPF\_mapped.… --- ## [(SEA-AD) Donors and Samples](https://community.brain-map.org/t/sea-ad-donors-and-samples/4669)
**Author:** [@Victhagas](https://community.brain-map.org/u/Victhagas)\ **Replies:** 6\ **Last updated:** [July 26, 2026, 10:07pm UTC](https://community.brain-map.org/t/sea-ad-donors-and-samples/4669 "2026-07-26T22:07:05Z")
Hi guys, I was performing DEG analysis on the SEA-AD data and got confused about two things: When we access the AWS S3 Explorer, we can get the donor data, there are around 84 .h5ad files. I checked, and many of them… --- ## [SEA-AD BC Matrices Question](https://community.brain-map.org/t/sea-ad-bc-matrices-question/4696)
**Author:** [@eitan.kaplan](https://community.brain-map.org/u/eitan.kaplan)\ **Replies:** 0\ **Last updated:** [September 12, 2025, 8:27pm UTC](https://community.brain-map.org/t/sea-ad-bc-matrices-question/4696 "2025-09-12T20:27:16Z")
I am the Scientific Project Manager for the SEA-AD Consortium. I am posting a community question and answer received via email related to working with SEA-AD data: Q: “I want to work with your MTG snRNAseq data that is … --- ## [(SEA-AD) For the same donor, is it possible to map the small DAPI section to its IHC counterpart?](https://community.brain-map.org/t/sea-ad-for-the-same-donor-is-it-possible-to-map-the-small-dapi-section-to-its-ihc-counterpart/4108)
**Author:** [@musikisomorphie](https://community.brain-map.org/u/musikisomorphie)\ **Replies:** 2\ **Last updated:** [February 1, 2025, 10:19am UTC](https://community.brain-map.org/t/sea-ad-for-the-same-donor-is-it-possible-to-map-the-small-dapi-section-to-its-ihc-counterpart/4108 "2025-02-01T10:19:21Z")
Hi there, I am Jiqing, a post-doc researcher at the Department of Biomedical Engineering, University of Basel. Currently, we are working on a GenAI project that requires exactly paired spatial transcriptomic (ST) and bi… --- ## [Processed gene expression matrix for SEA-AD?](https://community.brain-map.org/t/processed-gene-expression-matrix-for-sea-ad/3964)
**Author:** [@willgryanv](https://community.brain-map.org/u/willgryanv)\ **Replies:** 1\ **Last updated:** [December 10, 2024, 5:57pm UTC](https://community.brain-map.org/t/processed-gene-expression-matrix-for-sea-ad/3964 "2024-12-10T17:57:00Z")
Hi there, Are there plans to generate a processed gene expression matrix for the latest SEA-AD dataset? I noted it’s absence on the S3 bucket and explore page. For example, the earlier Human MTG 10x SEA-AD explore page … --- ## [SEA-AD snRNAseq raw data file selection](https://community.brain-map.org/t/sea-ad-snrnaseq-raw-data-file-selection/3570)
**Author:** [@eitan.kaplan](https://community.brain-map.org/u/eitan.kaplan)\ **Replies:** 1\ **Last updated:** [August 13, 2024, 5:32pm UTC](https://community.brain-map.org/t/sea-ad-snrnaseq-raw-data-file-selection/3570 "2024-08-13T17:32:17Z")
I am the Scientific Project Manager for the SEA-AD Consortium. I am posting a community question received via email related to working with SEA-AD data: I am hoping to use the SEA-AD snRNAseq dataset for a part of my Ph… --- ## [SEA-AD donors metadata and diagnoses](https://community.brain-map.org/t/sea-ad-donors-metadata-and-diagnoses/3476)
**Author:** [@eitan.kaplan](https://community.brain-map.org/u/eitan.kaplan)\ **Replies:** 5\ **Last updated:** [July 27, 2024, 8:05pm UTC](https://community.brain-map.org/t/sea-ad-donors-metadata-and-diagnoses/3476 "2024-07-27T20:05:30Z")
I am the Scientific Project Manager for the SEA-AD Consortium. I am posting a community question received via email related to working with SEA-AD data: All of my questions stem from the “Documentation, Data, and Downlo… --- ## [SEA-AD snRNASeq dataset format and loading in R for analysis using Seuratv5](https://community.brain-map.org/t/sea-ad-snrnaseq-dataset-format-and-loading-in-r-for-analysis-using-seuratv5/3454)
**Author:** [@eitan.kaplan](https://community.brain-map.org/u/eitan.kaplan)\ **Replies:** 1\ **Last updated:** [July 17, 2024, 3:51pm UTC](https://community.brain-map.org/t/sea-ad-snrnaseq-dataset-format-and-loading-in-r-for-analysis-using-seuratv5/3454 "2024-07-17T15:51:44Z")
I am the Scientific Project Manager for the SEA-AD Consortium. I am posting a community question received via email related to working with SEA-AD data: I am trying to use the dataset: SEAAD\_MTG\_RNAseq\_final-nuclei.2024… --- ## [SEA-AD donors: Categorizing as AD vs Control?](https://community.brain-map.org/t/sea-ad-donors-categorizing-as-ad-vs-control/3458)
**Author:** [@eitan.kaplan](https://community.brain-map.org/u/eitan.kaplan)\ **Replies:** 1\ **Last updated:** [July 12, 2024, 7:47pm UTC](https://community.brain-map.org/t/sea-ad-donors-categorizing-as-ad-vs-control/3458 "2024-07-12T19:47:56Z")
I am the Scientific Project Manager for the SEA-AD Consortium. I am posting a community question received via email related to working with SEA-AD data: I am writing to inquire about the donor metadata available on the … --- ## [SEA-AD snATAC-seq data](https://community.brain-map.org/t/sea-ad-snatac-seq-data/2776)
**Author:** [@eitan.kaplan](https://community.brain-map.org/u/eitan.kaplan)\ **Replies:** 4\ **Last updated:** [April 22, 2024, 1:06pm UTC](https://community.brain-map.org/t/sea-ad-snatac-seq-data/2776 "2024-04-22T13:06:57Z")
I am the Scientific Project Manager for the SEA-AD Consortium. I am posting a community question received via email related to working with SEA-AD data: I am interested in using the SEA-AD dataset. I was wondering if yo… --- ## [Interpreting Graphs in SEA-AD Gene Expression Trajectory Viewer and Comparative Viewer](https://community.brain-map.org/t/interpreting-graphs-in-sea-ad-gene-expression-trajectory-viewer-and-comparative-viewer/3126)
**Author:** [@eitan.kaplan](https://community.brain-map.org/u/eitan.kaplan)\ **Replies:** 1\ **Last updated:** [March 6, 2024, 5:25pm UTC](https://community.brain-map.org/t/interpreting-graphs-in-sea-ad-gene-expression-trajectory-viewer-and-comparative-viewer/3126 "2024-03-06T17:25:44Z")
I am the Scientific Project Manager for the SEA-AD Consortium. I am posting a community question received via email related to working with SEA-AD data: I have recently started browsing your fantastic dataset on the SEA… --- ## [Questions about RNA seq SEA-AD data](https://community.brain-map.org/t/questions-about-rna-seq-sea-ad-data/2662)
**Author:** [@eitan.kaplan](https://community.brain-map.org/u/eitan.kaplan)\ **Replies:** 9\ **Last updated:** [December 12, 2023, 7:40am UTC](https://community.brain-map.org/t/questions-about-rna-seq-sea-ad-data/2662 "2023-12-12T07:40:26Z")
I am the Scientific Project Manager for the SEA-AD Consortium. I am posting a community question received via email related to working with SEA-AD data: We have been trying to work with SEA-AD data for some time, includ… --- ## [SEA-AD Datasets Query](https://community.brain-map.org/t/sea-ad-datasets-query/2670)
**Author:** [@eitan.kaplan](https://community.brain-map.org/u/eitan.kaplan)\ **Replies:** 1\ **Last updated:** [October 26, 2023, 4:56pm UTC](https://community.brain-map.org/t/sea-ad-datasets-query/2670 "2023-10-26T16:56:31Z")
I am the Scientific Project Manager for the SEA-AD Consortium. I am posting a community question received via email related to working with SEA-AD data: I have made use of some of the SEA-AD Allen Institute Datasets for… --- ## [Where to obtain Continuous Pseuo-progression scores (CPS) in SEA-AD data](https://community.brain-map.org/t/where-to-obtain-continuous-pseuo-progression-scores-cps-in-sea-ad-data/2599)
**Author:** [@tadeoye](https://community.brain-map.org/u/tadeoye)\ **Replies:** 1\ **Last updated:** [October 6, 2023, 5:43pm UTC](https://community.brain-map.org/t/where-to-obtain-continuous-pseuo-progression-scores-cps-in-sea-ad-data/2599 "2023-10-06T17:43:52Z")
Hello team, After reviewing the uploaded metadata and supplementary data for the SEA-AD data, I observed that the Continuous Pseudo-progression scores of AD severity (CPS scores) were not included. Would it be possible … --- ## [Downloading and exploring -omics data from SEA-AD](https://community.brain-map.org/t/downloading-and-exploring-omics-data-from-sea-ad/1964)
**Author:** [@jeremyinseattle](https://community.brain-map.org/u/jeremyinseattle)\ **Replies:** 2\ **Last updated:** [February 2, 2023, 5:11pm UTC](https://community.brain-map.org/t/downloading-and-exploring-omics-data-from-sea-ad/1964 "2023-02-02T17:11:36Z")
The Seattle Alzheimer’s Disease Brain Cell Atlas (SEA-AD) consortium strives to gain a deep molecular and cellular understanding of the early pathogenesis of Alzheimer’s disease. As part of this effort, \>2 million cells …