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1–30 of 255
Here you can ask and get information on how to use the Eukaryotic Promoter Database (
EPD
).
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Rayka Yokoo
,
CCG EPFL
3
Aug 26
PWMTrain problem accepting FASTA files?
I think I have fixed the bug, You may try a new version at https://epd.expasy.org/pwmtools/test/
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PWMTrain problem accepting FASTA files?
I think I have fixed the bug, You may try a new version at https://epd.expasy.org/pwmtools/test/
Aug 26
Norris, Christopher M.
,
CCG EPFL
2
Aug 14
EPD Search Motif tool
This bug should be fixed. (I get three NFAT5 sites in the human IL2 promoter). Thanks you for having
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EPD Search Motif tool
This bug should be fixed. (I get three NFAT5 sites in the human IL2 promoter). Thanks you for having
Aug 14
Qiu, Zhijun
,
CCG EPFL
2
Jul 24
Transcription factor binding sites
See my reply to Shah Mohd from Jan 17, 2025, copied below: You can use the "Search Motif Tool
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Transcription factor binding sites
See my reply to Shah Mohd from Jan 17, 2025, copied below: You can use the "Search Motif Tool
Jul 24
Pavla Navratilova
, …
CCG EPFL
3
May 24
barley promoters
We are in the process of generating an EPD module for Barley ... more to follow on this list when we
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barley promoters
We are in the process of generating an EPD module for Barley ... more to follow on this list when we
May 24
Meera Devan
, …
Sebastien Moretti
4
Mar 17
Regarding EPD troubleshooting
I guess you did not see my previous email. Should be solved now! Sébastien On 17.03.2025 17:49, Meera
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Regarding EPD troubleshooting
I guess you did not see my previous email. Should be solved now! Sébastien On 17.03.2025 17:49, Meera
Mar 17
GAYATHRI SANTHOSH
,
Moretti Sebastien
2
Mar 17
Hi could you give more information about this? Le dimanche 16 mars 2025 à 15:03:19 UTC+1, GAYATHRI
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Hi could you give more information about this? Le dimanche 16 mars 2025 à 15:03:19 UTC+1, GAYATHRI
Mar 17
Younis Hazari
,
Moretti Sebastien
2
Mar 14
Eukaryotic promoter database
Hi Younis We have recently added the possibility to see a raw EPD entry in text format, what your
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Eukaryotic promoter database
Hi Younis We have recently added the possibility to see a raw EPD entry in text format, what your
Mar 14
Robert Calef
,
CCG EPFL
2
Mar 2
Understanding why a promoter is annotated for a distant gene
Dear Robert, I have looked into this issue and am embarrassed to say that this is clearly an error in
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Understanding why a promoter is annotated for a distant gene
Dear Robert, I have looked into this issue and am embarrassed to say that this is clearly an error in
Mar 2
Deepak Shankar
,
CCG EPFL
2
Mar 2
Inquiry regarding chromosome location and genome assembly difference in SNP2TFBS
Dear Deepak, I'm not sure whether you have to worry at all. If I understand correctly, your SNP
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Inquiry regarding chromosome location and genome assembly difference in SNP2TFBS
Dear Deepak, I'm not sure whether you have to worry at all. If I understand correctly, your SNP
Mar 2
Shah, Mohd (NIH/NEI) [F]
,
CCG EPFL
2
Jan 31
Inquiry Regarding Transcription Factor Binding Site Identification in EPD
You can use the "Search Motif Tool" on the promoter entry viewer page, for instance go to:
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Inquiry Regarding Transcription Factor Binding Site Identification in EPD
You can use the "Search Motif Tool" on the promoter entry viewer page, for instance go to:
Jan 31
Bowen, Nathan
,
CCG EPFL
2
Jan 31
Adding H.sapiens Jan. 2022 (T2T CHM13v2.0/hs1
H.sapiens Jan. 2022 (T2T CHM13v2.0/hs1) is now available on: https://epd.expasy.org/pwmtools/ https:/
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Adding H.sapiens Jan. 2022 (T2T CHM13v2.0/hs1
H.sapiens Jan. 2022 (T2T CHM13v2.0/hs1) is now available on: https://epd.expasy.org/pwmtools/ https:/
Jan 31
Shah, Mohd (NIH/NEI) [F]
Jan 17
TF binding site
Hello, I hope this email finds you well. I am Mohd Hussain Shah, working as Postdoc at NEI/NIH. I am
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TF binding site
Hello, I hope this email finds you well. I am Mohd Hussain Shah, working as Postdoc at NEI/NIH. I am
Jan 17
David Lukac
,
CCG EPFL
2
12/4/24
EPD with alternative IDs
Dear David, Unfortunately, this is currently not possible. However, you can extract this information
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EPD with alternative IDs
Dear David, Unfortunately, this is currently not possible. However, you can extract this information
12/4/24
RITUPARNA CHAKRABORTY
,
CCG EPFL
2
10/6/24
Promoters often have multiple initiation sites (TSSs). Promoters in EPD are assigned to three types:
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Promoters often have multiple initiation sites (TSSs). Promoters in EPD are assigned to three types:
10/6/24
Benoit Pourcet
,
CCG EPFL
2
10/6/24
looking for rabbit promoter
Dear Benoit, Unfortunately, the rabbit is not part of the model organism collection currently
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looking for rabbit promoter
Dear Benoit, Unfortunately, the rabbit is not part of the model organism collection currently
10/6/24
Brochut Maelick
, …
Maëlick Brochut
6
7/2/24
Genome assembly mm39 and automatize for all HOCOMOCO TF
Everything works perfectly with your instructions, and it runs really fast! Thanks a lot for this
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Genome assembly mm39 and automatize for all HOCOMOCO TF
Everything works perfectly with your instructions, and it runs really fast! Thanks a lot for this
7/2/24
Anja Estermann
,
phbu06
3
6/4/24
HOCOMOCO V12 in PWMScan
Dear Anja, Sorry, this has taken a long time. The HOCOMOCOv12 CORE (HUMAN + MOUSE orthologs) TF
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HOCOMOCO V12 in PWMScan
Dear Anja, Sorry, this has taken a long time. The HOCOMOCOv12 CORE (HUMAN + MOUSE orthologs) TF
6/4/24
Carissa Robyn Bleker
,
Philipp Bucher
3
4/25/24
Arabidopsis TSS far away from genes
Dear Philipp, Thank you for your reply and explanation. I look forward to an update. In the meanwhile
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Arabidopsis TSS far away from genes
Dear Philipp, Thank you for your reply and explanation. I look forward to an update. In the meanwhile
4/25/24
Donu Cool
,
Philipp Bucher
2
4/25/24
Regarding not getting my desired gene
Dear Donu, Thank you for reporting this issue. The promoter you are looking for can be found under
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Regarding not getting my desired gene
Dear Donu, Thank you for reporting this issue. The promoter you are looking for can be found under
4/25/24
alyss...@my.jcu.edu.au
2/2/24
[Webmail CCG] No fasta information produced
Hi there, Thank you for creating such a useful tool! I am trying to download promoter sequences for H
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[Webmail CCG] No fasta information produced
Hi there, Thank you for creating such a useful tool! I am trying to download promoter sequences for H
2/2/24
romane....@epfl.ch
2/2/24
[Webmail CCG] Understanding output bed file
Dear all I am using your tool to evaluate the quality of the motifs of specific transcription factors
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[Webmail CCG] Understanding output bed file
Dear all I am using your tool to evaluate the quality of the motifs of specific transcription factors
2/2/24
jin...@nottingham.ac.uk
2/2/24
[Webmail CCG] Retrieving promoter sequence
Hi, I am trying to retrieve the promoter sequence of a gene from EPD but everytime I input the "
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[Webmail CCG] Retrieving promoter sequence
Hi, I am trying to retrieve the promoter sequence of a gene from EPD but everytime I input the "
2/2/24
avill...@conicet.gov.ar
2/2/24
[Webmail CCG] MOTIF SEARCH TOOL
Hello, the Search Motif Tool is not giving any results when pressing "search". It usually
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[Webmail CCG] MOTIF SEARCH TOOL
Hello, the Search Motif Tool is not giving any results when pressing "search". It usually
2/2/24
mle...@i3s.up.pt
2/2/24
[Webmail CCG] Retrieve of promoter sequence using EPD database not possible
Dear Sirs, I've tried several times in different browser (chrome, mozilla, and explorer) and I
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[Webmail CCG] Retrieve of promoter sequence using EPD database not possible
Dear Sirs, I've tried several times in different browser (chrome, mozilla, and explorer) and I
2/2/24
r...@vatiantbio.com
,
Moretti Sebastien
2
2/2/24
[Webmail CCG] UCNEbase offline\?
Hi Rob sorry for the delay, we had issues with the mail server. https://epd.expasy.org/UCNEbase is
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[Webmail CCG] UCNEbase offline\?
Hi Rob sorry for the delay, we had issues with the mail server. https://epd.expasy.org/UCNEbase is
2/2/24
sm1...@bristol.ac.uk
1/29/24
[Webmail CCG] Failure to retrieve Sequences
Good morning, I have been attempting to retrieve the potential promoter sequence for REST over the
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[Webmail CCG] Failure to retrieve Sequences
Good morning, I have been attempting to retrieve the potential promoter sequence for REST over the
1/29/24
hn6...@wayne.edu
1/29/24
[Webmail CCG] promoter sequence retrieval
Hello, I am unable to retrieve the promoter sequences from EPD since few weeks. When I hit the option
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[Webmail CCG] promoter sequence retrieval
Hello, I am unable to retrieve the promoter sequences from EPD since few weeks. When I hit the option
1/29/24
csubho...@gmail.com
1/29/24
[Webmail CCG] Search motif tool not working
Hello, I was using the search motif tool to identify the number of transcription factor binding sites
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[Webmail CCG] Search motif tool not working
Hello, I was using the search motif tool to identify the number of transcription factor binding sites
1/29/24
kha...@uthscsa.edu
1/29/24
[Webmail CCG] Transcription factor Motif
Hello, I usually use this free website to look at transcription factor binding sites to a specific
unread,
[Webmail CCG] Transcription factor Motif
Hello, I usually use this free website to look at transcription factor binding sites to a specific
1/29/24
nurb...@uni-mainz.de
1/29/24
[Webmail CCG] Search Motif tool \- doesnt work\!
HEllo! I was trying to access the information regarding H2-K1 promotor gene, and wanted to see the
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[Webmail CCG] Search Motif tool \- doesnt work\!
HEllo! I was trying to access the information regarding H2-K1 promotor gene, and wanted to see the
1/29/24