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ScerTF

Details for SWI5

The Table below describes all of the matrices annotated to SWI5 in this database. For each individual matrix, we provide several metrics related to the performance of that matrix in accurately representing the DNA binding specificity of the annotated transcription factor. The Fisher's p-value represents the probability that the recommended matrix identified SWI5-bound promoters by random chance. If no experimental data exists for this particular TF, the field is labeled as "No Data". In addition to benchmarking against high-throughput experimental data, we also inform our recommendations based on matrix information content, length, and corroboration by experimental studies of individual of cis-regulatory sequences.

Each individual matrix can be downloaded as a position count matrix (PCM), position frequency matrix (PFM), or position weight matrix (PWM). Click on the appropriate button in the left column to download the desired matrix.

Also provided is a recommended cutoff to use when scanning a genome for regulatory sequences with the provided position weight matrix. An optimal cutoff was identified for each position weight matrix that provides the greatest discriminative power to distinguish between bound and unbound sequences in available ChIP experiments.

Recommended Matrix:
For information about selection criteria click here

Source

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Detailed Information

SWI5

Matrices:




Data Source:
Badis et. al.
Fisher's P-value
4.55e-08


Information Content
11.291

Max PWM Score
9.19

Recommended PWM Cutoff
4.79
Recommended Position Specific Matrix for SWI5 comes from Badis et. al.
 
SWI5: Transcription factor that activates transcription of genes expressed at the M/G1 phase boundary and in G1 phase; localization to the nucleus occurs during G1 and appears to be regulated by phosphorylation by Cdc28p kinase
Aliases: YDR146C
Genes Bound in SWI5 ChIP-chip: YAL017W, YAL018C, YAL022C, YAR009C, YBL048W, YBL049W, YBL069W, YBL071C, YBL108W, YBR040W, YBR058C-A, YBR059C, YBR070C, YBR071W, YBR083W, YBR097W, YBR157C, YBR158W +183 more
Genes affected by SWI5 deletion: YCR040W, YGR278W, YHL014C, YGR282C, YJR020W, YOR225W, YDL098C, YDL131W, YDR192C, YFR032C-A, YGL009C, YBR031W, YCR013C, YGR279C, YKR042W, YKR013W, YMR044W +109 more
TF-TF interactions for SWI5: None


Additional Candidate Matrices:
Source
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Detailed Information
SWI5

Matrices:




Data Source:
Foat et. al.
Fisher's P-value
1.01e-14


Information Content
16.985

Max PWM Score
15.61

Recommended PWM Cutoff
8.93
SWI5

Matrices:




Data Source:
Macisaac et. al
Fisher's P-value
2.44e-09


Information Content
7.077

Max PWM Score
8.4

Recommended PWM Cutoff
6.69
SWI5

Matrices:




Data Source:
Pachkov et al
Fisher's P-value
7.52e-08


Information Content
10.371

Max PWM Score
8.55

Recommended PWM Cutoff
7.0
SWI5

Matrices:




Data Source:
Harbison et. al.
Fisher's P-value
1.53e-07


Information Content
9.697

Max PWM Score
8.14

Recommended PWM Cutoff
4.33
SWI5

Matrices:




Data Source:
Zhu J and MQ Zhang
Fisher's P-value
1.0000


Information Content
5.434

Max PWM Score
9.35

Recommended PWM Cutoff
8.41