# Centromedian thalamus & central amygdala **URL:** \ **Category:** General\ **Created:** [August 9, 2022, 9:47pm UTC](https://community.brain-map.org/t/centromedian-thalamus-central-amygdala/1781 "2022-08-09T21:47:01Z")\ **Posts on this page:** 17\ **Page:** 1
**Author:** ![altorfer92](https://avatars.discourse-cdn.com/v4/letter/a/b3f665/32.png) [@altorfer92](https://community.brain-map.org/u/altorfer92)\ **Post date:** [August 9, 2022, 9:47pm UTC](https://community.brain-map.org/t/centromedian-thalamus-central-amygdala/1781/1 "2022-08-09T21:47:01Z")
From where I can get the sex dimorphic gene expression of these two brain structures? I am looking for epigenetic marker ---
**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:** [August 10, 2022, 4:31pm UTC](https://community.brain-map.org/t/centromedian-thalamus-central-amygdala/1781/2 "2022-08-10T16:31:29Z")
Can you please clarify whether you have specific species and/or data set and/or publication you are looking at, or whether you would be happy with any information about this topic? I am unaware of any such epigenetic data as part of Allen Brain Map, although raw gene expression (and maybe epigenetics?) data from tissues containing these structures is part of the BICCN data archives. I can further inquire if you can provide some context. Thanks! ---
**Author:** ![altorfer92](https://avatars.discourse-cdn.com/v4/letter/a/b3f665/32.png) [@altorfer92](https://community.brain-map.org/u/altorfer92)\ **Post date:** [August 10, 2022, 4:44pm UTC](https://community.brain-map.org/t/centromedian-thalamus-central-amygdala/1781/3 "2022-08-10T16:44:09Z")
> [@jeremyinseattle](#): > > BICCN data archives Human brain! No publication. Just data. I would love to see these epimarkers. These two brain structures ate sex dimorphic. So its clear there are ~10-30 genes there which are expressed very sex dimorphic. At this time there isnt any of this kind of data. ---
**Author:** ![altorfer92](https://avatars.discourse-cdn.com/v4/letter/a/b3f665/32.png) [@altorfer92](https://community.brain-map.org/u/altorfer92)\ **Post date:** [August 10, 2022, 4:46pm UTC](https://community.brain-map.org/t/centromedian-thalamus-central-amygdala/1781/4 "2022-08-10T16:46:28Z")
If I would pay money to the Allen Institute would they provide me this kind of data? ---
**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:** [August 10, 2022, 5:33pm UTC](https://community.brain-map.org/t/centromedian-thalamus-central-amygdala/1781/5 "2022-08-10T17:33:45Z")
All data that is available is listed at [brain-map.org](http://brain-map.org), [biccn.org](http://biccn.org), or the associated data archives. There is no need to pay. ---
**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:** [August 10, 2022, 5:42pm UTC](https://community.brain-map.org/t/centromedian-thalamus-central-amygdala/1781/6 "2022-08-10T17:42:58Z")
One possibility would be [download data](http://human.brain-map.org/static/download) from the Allen Human Brain Atlas. Donor H0351.1015 is female and the rest are male, so you would be very underpowered, but data from all brain structures in included in this data set and you could perform a differential expression analysis. The [Brainspan](https://www.brainspan.org/) atlas has many more male and female donors from multiple developmental stages, but not for all the brain regions you requested. That said, someone [wrote a paper about this topic](https://www.nature.com/articles/srep21181) on the Brainspan data, so you could start there. ---
**Author:** ![altorfer92](https://avatars.discourse-cdn.com/v4/letter/a/b3f665/32.png) [@altorfer92](https://community.brain-map.org/u/altorfer92)\ **Post date:** [August 10, 2022, 6:22pm UTC](https://community.brain-map.org/t/centromedian-thalamus-central-amygdala/1781/7 "2022-08-10T18:22:37Z")
So from this data I can see the genes which are sex dimorphix expressed? ---
**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:** [August 10, 2022, 6:24pm UTC](https://community.brain-map.org/t/centromedian-thalamus-central-amygdala/1781/8 "2022-08-10T18:24:52Z")
Yes. You’d need to download the data and do the analysis yourself, but there should be information about sex and age for each donor, as well as expression levels for each gene. ---
**Author:** ![altorfer92](https://avatars.discourse-cdn.com/v4/letter/a/b3f665/32.png) [@altorfer92](https://community.brain-map.org/u/altorfer92)\ **Post date:** [August 10, 2022, 6:28pm UTC](https://community.brain-map.org/t/centromedian-thalamus-central-amygdala/1781/9 "2022-08-10T18:28:22Z")
Just one female? Thats weak. ---
**Author:** ![altorfer92](https://avatars.discourse-cdn.com/v4/letter/a/b3f665/32.png) [@altorfer92](https://community.brain-map.org/u/altorfer92)\ **Post date:** [August 10, 2022, 6:31pm UTC](https://community.brain-map.org/t/centromedian-thalamus-central-amygdala/1781/10 "2022-08-10T18:31:19Z")
So [biccn.org](http://biccn.org) has many transcriptome data for these structures? ---
**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:** [August 10, 2022, 6:44pm UTC](https://community.brain-map.org/t/centromedian-thalamus-central-amygdala/1781/11 "2022-08-10T18:44:18Z")
Allen Human Brain Atlas has 6 donors (1 female), but all brain regions. BrainSpan has 50 or so donors across development, but for a subset of brain regions. [biccn.org](http://biccn.org) has a lot of data from many modalities from many labs for various projects. I’m not sure if it will have precisely what you need, but you can search [here](https://portal.nemoarchive.org/search/s?facetTab=cases&filters=%7B%22op%22:%22and%22,%22content%22:%5B%7B%22op%22:%22in%22,%22content%22:%7B%22field%22:%22sample.organism%22,%22value%22:%5B%22Human%22%5D%7D%7D%5D%7D). ---
**Author:** ![altorfer92](https://avatars.discourse-cdn.com/v4/letter/a/b3f665/32.png) [@altorfer92](https://community.brain-map.org/u/altorfer92)\ **Post date:** [August 10, 2022, 6:50pm UTC](https://community.brain-map.org/t/centromedian-thalamus-central-amygdala/1781/12 "2022-08-10T18:50:48Z")
Can I contact you the next days. At the moment I am overwhelmed. ---
**Author:** ![altorfer92](https://avatars.discourse-cdn.com/v4/letter/a/b3f665/32.png) [@altorfer92](https://community.brain-map.org/u/altorfer92)\ **Post date:** [August 10, 2022, 6:58pm UTC](https://community.brain-map.org/t/centromedian-thalamus-central-amygdala/1781/13 "2022-08-10T18:58:47Z")
Brainspan has 50 donors? I can only see one for development and one for prenatal. ---
**Author:** ![altorfer92](https://avatars.discourse-cdn.com/v4/letter/a/b3f665/32.png) [@altorfer92](https://community.brain-map.org/u/altorfer92)\ **Post date:** [August 11, 2022, 6:11pm UTC](https://community.brain-map.org/t/centromedian-thalamus-central-amygdala/1781/14 "2022-08-11T18:11:56Z")
I have downloaded one sample from the Allen data. I dont understand it. I have unzipped the file and I get several different files. ---
**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:** [August 11, 2022, 6:14pm UTC](https://community.brain-map.org/t/centromedian-thalamus-central-amygdala/1781/15 "2022-08-11T18:14:45Z")
There should be a readme file in the downloaded zip file. Start with that. [This post](https://community.brain-map.org/t/microarray-expression-file/1741) has a bit more info. ---
**Author:** ![altorfer92](https://avatars.discourse-cdn.com/v4/letter/a/b3f665/32.png) [@altorfer92](https://community.brain-map.org/u/altorfer92)\ **Post date:** [August 18, 2022, 3:12pm UTC](https://community.brain-map.org/t/centromedian-thalamus-central-amygdala/1781/20 "2022-08-18T15:12:00Z")
That wrong. I cant find any mediodorsal thalamus. ---
**Author:** ![altorfer92](https://avatars.discourse-cdn.com/v4/letter/a/b3f665/32.png) [@altorfer92](https://community.brain-map.org/u/altorfer92)\ **Post date:** [August 21, 2022, 8:13pm UTC](https://community.brain-map.org/t/centromedian-thalamus-central-amygdala/1781/21 "2022-08-21T20:13:04Z")
How I do this?