[BiO BB] How to get the special Transcription Factor target sequences?

[Jinyan Huang]

Yes, I can find binding sites Oct4, Sox2 and c-Myc. But factors of
lin28, Klf4 and nanog cannot be found in this database.

On Sat, May 31, 2008 at 12:08 PM, Alexander Kel
<alexander.kel at biobase-international.com> wrote:
> Hi all,
>
> To use the free public TRANSFAC
> please, click at:
> http://www.gene-regulation.com/pub/databases.html
>
> on the third item in the list:
> "Search TRANSFAC Public"
> http://www.gene-regulation.com/cgi-bin/pub/databases/transfac/search.cgi
>
> Sorry, for the confusion. Our sales and marketing made a good
> effort to put the Transfac professional at the top of the list :)
> But still the public version is available.
>
> Alexander
>
>
>
>
> On Thu, May 29, 2008 at 3:23 AM, Jinyan Huang <hiekeen at gmail.com> wrote:
>> Thank you very much for your suggestion.
>>
>> It is easy to registrate on gene-regulation.com. But when I browse the
>> TRANSFAC database, it links to http://www.biobase-international.com/.
>> For a free trial, it must finish a registration form. It is hard to
>> pass this registration form. It is like this
>> http://www.biobase-international.com/pages/index.php?id=456.
>>
>>
>> In JARSPAR I can not find the factors which I interested
>>
>> no profiles in JASPAR satisfies search criteria
>>
>>
>>
>> 2008/5/29 lichunjiang <lichunjiang at sibs.ac.cn>:
>>>
>>>
>>> Really? I registrated for gene-regulation.com a couple of years ago, it is
>>> quite easy.�It does not make sense that you can not register. Or you
>>> should just write to the service to fix the problem.
>>>
>>> Actually,
>>> it is free to use a reduced version. For the full professional version,
>>> you need to pay.
>>>
>>> Besides Transfac, I recommend another
>>> database: JARSPAR available at http://jaspar.genereg.net/.�It is
>>> totally free to use.
>>> Hope this help.
>>> Good luck!
>>>
>>>
>>>
>>>> It seems it is hard to pass the  registration.
>>>>
>>>> 2008/5/28 J Greenbaum <jgbaum at gmail.com>:
>>>>> The
>>> Transfac database (www.gene-regulation.com/pub/databases.html)
>>>>> should have what you are looking for...
>>>>>
>>>>> Jason Greenbaum
>>>>> Postdoctoral Fellow
>>>>>
>>> La Jolla Institute for Allergy & Immunology
>>>>>
>>>>> 2008/5/27 Jinyan Huang <hiekeen at gmail.com>:
>>>>>> I want to get the Transcription Factor target sequences.
>>> They are
>>>>>>
>>> Oct4 $B!$ (BSox2 $B!$ (BcMyc $B!$ (BKlf4 $B!$ (BNanog $B!$ (BLin28.
>>>>>> Is there such free database? Or should I just search it one
>>> by one
>>>>>> from the literature?
>>>>>>
>>>>>>
>>>>>> --
>>>>>> Best regards,
>>>>>> Jinyan Huang (ekeen)
>>>>>> School of Life
>>> Sciences and Technology, 1302 Room
>>>>>> Tongji University
>>>>>> Siping Road 1239, Shanghai 200092
>>>>>> P.R.
>>> China
>>>>>> Tel :0086-21-65981041
>>>>>> Msn:
>>> hiekeen at hotmail.com
>>>>>> eMail: hiekeen at gmail.com
>>>>>>
>>>>>>
>>> _______________________________________________
>>>>>> BBB
>>> mailing list
>>>>>> BBB at bioinformatics.org
>>>>>>
>>> http://www.bioinformatics.org/mailman/listinfo/bbb
>>>>>>
>>>>>
>>>>>
>>> _______________________________________________
>>>>> BBB mailing
>>> list
>>>>> BBB at bioinformatics.org
>>>>>
>>> http://www.bioinformatics.org/mailman/listinfo/bbb
>>>>>
>>>>
>>>
>>>>
>>>>
>>>> --
>>>> Best regards,
>>>>
>>> Jinyan Huang (ekeen)
>>>> School of Life Sciences and Technology,
>>> 1302 Room
>>>> Tongji University
>>>> Siping Road 1239, Shanghai
>>> 200092
>>>> P.R. China
>>>> Tel :0086-21-65981041
>>>> Msn:
>>> hiekeen at hotmail.com
>>>> eMail: hiekeen at gmail.com
>>>>
>>>> _______________________________________________
>>>> BBB
>>> mailing list
>>>> BBB at bioinformatics.org
>>>>
>>> http://www.bioinformatics.org/mailman/listinfo/bbb
>>>>
>>>>
>>>
>>>
>>>
>>> --
>>> lichunjiang at sibs.ac.cn
>>> Institute of
>>> Biochemistry and Cell Biology,
>>> Shanghai Institutes for Biological
>>> Sciences,
>>> Chinese Academy of Sciences
>>>
>>> _______________________________________________
>>> BBB mailing list
>>> BBB at bioinformatics.org
>>> http://www.bioinformatics.org/mailman/listinfo/bbb
>>>
>>>
>>
>>
>>
>> --
>> Best regards,
>> Jinyan Huang (ekeen)
>> School of Life Sciences and Technology, 1302 Room
>> Tongji University
>> Siping Road 1239, Shanghai 200092
>> P.R. China
>> Tel :0086-21-65981041
>> Msn: hiekeen at hotmail.com
>> eMail: hiekeen at gmail.com
>> _______________________________________________
>> BBB mailing list
>> BBB at bioinformatics.org
>> http://www.bioinformatics.org/mailman/listinfo/bbb
>>
>
>
>
> --
> Alexander Kel, PhD
> SVP R&D
> BIOBASE GmbH,
> Halchtersche Strasse 33
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>



-- 
Best regards,
Jinyan Huang (ekeen)
School of Life Sciences and Technology, 1302 Room
Tongji University
Siping Road 1239, Shanghai 200092
P.R. China
Tel :0086-21-65981041
Msn: hiekeen at hotmail.com
eMail: hiekeen at gmail.com