Downloads
This page hosts compressed, bulk downloads for all transcriptions factors in the homeodomains database. These files can be quite large, so please be prepared for significant download times. Please note that any files which contain PBM probe sequences are protected by an academic research use license, which will require confirmation prior to file download.
If you wish to download individual files for certain transcriptions factors, you can find them most easily using the browse page, which provides an interface for text-based searches, or the directory page, which provides Windows Explorer-style navigation. The site's public directory index also makes all database files easily accessible.
- All Data
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This download includes all experimental data and computational analyses from the most recent compilation of PBM homeodomain results. (Warning: this file is very large (~1.6GB) and may take several hours to download).
- All Ungapped 8-mer Data
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The normalized enrichment values, median intensity values, z-scores, p-values for the enrichment, and Q-values for the enrichment associated with each contiguous 8-mer.
Separate files for each factor, where each file contains a column for each of the above statistics: Download
Single text file for all normalized enrichment values: Download
Single text file for all normalized intensity values: Download
Single text file for all calculated z-scores: Download
Single text file for all p-values for enrichment: Download
Single text file for all Q-values for enrichment: Download
Single text file for all Q-values for the z-scores: Download
- Top Gapped 8-mer Data
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The normalized enrichment values, median intensity values, and z-scores for the gapped 8-mers with enrichment scores above a specified threshold.
- Motif Logos
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The motif logos derived from the corresponding position weight matrices.
- Normalized Probe Data (60-mer signal intensities and sequences)
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Microarry probes ranked by their normalized intensities (designed from our 'all 10-mer' de Bruijn sequence).
- PWMs
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The position weight matrices (PWMs) for each experiment. These matrices hold frequency values.
Separate files for each factor: Download
Single text file containing all PWMs: Download
- Raw Probe Data.
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Text files containing the unprocessed output from the PBM array runs.