Data Files

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SQL create table statements and human 9 data

Size67.4 MB   Last Modified2007-07-26 14:38:45

To install a local version of the cisRED human 9 database, use mysql to create a new empty database, unzip this file, and run: mysql -h host_name -u user_name -ppassword new_database_name < /full/path/to/the/unzipped/file.sql

feature_similarity_transfac_new with accessions

Size6.1 MB   Last Modified2008-10-31 10:01:23

SQL create table statements and data for a version of the human 9 feature_similarity_transfac_new table which now includes the TRANSFAC TFBS model accession ids. To add this table to a local version of the cisRED human 9 database, delete your existing feature_similarity_transfac_new table, unzip this file, and run: mysql -h host_name -u user_name -ppassword new_database_name < /full/path/to/the/unzipped/file.sql

MFA Input Files

Size130.7 MB   Last Modified2007-08-15 10:35:21

zipped multi-fasta files that were used for motif discovery

search_regions.txt

Size26.3 MB   Last Modified2007-08-15 10:39:02

One region per row; tab separated file from Ensembl

transcript_locations.txt

Size989.7 kB   Last Modified2007-08-15 10:55:21

The locations of the transcripts used to generate the search regions for this database. Columns are: ensembl_gene_id, region_source_id, start, end, strand.

Background files

Size13.3 MB   Last Modified2008-05-13 15:59:42

This .zip file contains one background file for each species included in the comparative genomics for this database. During motif discovery the background was generated by randomly selecting 10% of the total available background sequence contained in these files, for every species present.