hg38 refGene file for CEAS

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PaulG

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Mar 2, 2018, 9:57:53 AM3/2/18
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Hi, where can I download the hg38 refGEne file for running CEAS? On the CEAS website only hg18 and 19 are avaialble.
thanks!

Paul

Jian Ma

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Mar 4, 2018, 9:11:30 PM3/4/18
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Hi,

I make a copy of the hg38 gene table in Cistrome AP. Please download here http://cistrome.org/~jian/hg38

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PaulG

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Mar 5, 2018, 9:20:55 AM3/5/18
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That's perfect, thanks!


On Sunday, 4 March 2018 21:11:30 UTC-5, Jian Ma wrote:
Hi,

I make a copy of the hg38 gene table in Cistrome AP. Please download here http://cistrome.org/~jian/hg38
2018-03-02 22:57 GMT+08:00 PaulG <paul.gu...@gmail.com>:
Hi, where can I download the hg38 refGEne file for running CEAS? On the CEAS website only hg18 and 19 are avaialble.
thanks!

Paul

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Jian Ma,


PaulG

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Mar 5, 2018, 12:16:23 PM3/5/18
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Hi Jian Ma,

I ran CEAS using your hg38 file on samples I'd used in the pas with hg19, and I'm getting very different distributions of genomic features between the two (eg: 5 times fewer promoter peaks). Do you have any suggestion as to why that might be?

Thanks
Paul

Jian Ma

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Mar 5, 2018, 8:27:01 PM3/5/18
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Hi Paul,

Do you also use hg38 for peak calling or other analysis steps?

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Paul Guilhamon

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Mar 5, 2018, 8:39:30 PM3/5/18
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Hi, yes absolutely. I'm comparing everything done with hg19 to everything done with hg38.

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Jeff Bruce

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Aug 24, 2018, 12:17:37 PM8/24/18
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Hi Jian, would you mind making this file available again? 

Thanks for your help,

Jeff


On Sunday, March 4, 2018 at 9:11:30 PM UTC-5, Jian Ma wrote:
Hi,

I make a copy of the hg38 gene table in Cistrome AP. Please download here http://cistrome.org/~jian/hg38
2018-03-02 22:57 GMT+08:00 PaulG <paul.gu...@gmail.com>:
Hi, where can I download the hg38 refGEne file for running CEAS? On the CEAS website only hg18 and 19 are avaialble.
thanks!

Paul

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Jian Ma,


Jian Ma

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Aug 26, 2018, 9:13:03 PM8/26/18
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Please download at http://cistrome.org/~jian/hg38

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Jeff Bruce

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Aug 27, 2018, 9:14:31 AM8/27/18
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Thank you Jian, much appreciated.

Samah ElGh

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Feb 4, 2020, 10:09:19 AM2/4/20
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HI Jian Ma

Do you know where I can download mm10 refGene?

Thank you
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Jian Ma,


Jian Ma

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Feb 11, 2020, 2:45:48 AM2/11/20
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Hi,

Please use this one for CEAS. (attachment)

mm10.zip

qin zhang

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Mar 4, 2020, 8:29:50 AM3/4/20
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Hi,

The link you posted for downloading hg38 refGene file is not working, could you please make it available again?

Thank you very much!

Zhang

qin zhang

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Mar 4, 2020, 8:30:27 AM3/4/20
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Hi,

The link you posted for downloading hg38 refGene file is not working, could you please make it available again?

Thank you very much!

Zhang

On Monday, March 5, 2018 at 4:11:30 AM UTC+2, Jian Ma wrote:
Hi,

I make a copy of the hg38 gene table in Cistrome AP. Please download here http://cistrome.org/~jian/hg38
2018-03-02 22:57 GMT+08:00 PaulG <paul.g...@gmail.com>:
Hi, where can I download the hg38 refGEne file for running CEAS? On the CEAS website only hg18 and 19 are avaialble.
thanks!

Paul

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Jian Ma,


Jian Ma

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Mar 4, 2020, 10:45:58 PM3/4/20
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qin zhang <qin.zhan...@gmail.com> 于2020年3月4日周三 下午9:30写道:
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