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ScerTF

Details for UME6

The Table below describes all of the matrices annotated to UME6 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 UME6-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

UME6

Matrices:




Data Source:
Pachkov et al
Fisher's P-value
7.71e-81


Information Content
18.308

Max PWM Score
15.37

Recommended PWM Cutoff
10.32
Recommended Position Specific Matrix for UME6 comes from Pachkov et al
 
UME6: Key transcriptional regulator of early meiotic genes, binds URS1 upstream regulatory sequence, couples metabolic responses to nutritional cues with initiation and progression of meiosis, forms complex with Ime1p, and also with Sin3p-Rpd3p
Aliases: YDR207C, RIM16, NIM2, CAR80
Genes Bound in UME6 ChIP-chip: YAL017W, YAL018C, YAL022C, YAL053W, YAL054C, YAR035W, YBL063W, YBL064C, YBL077W, YBL078C, YBL085W, YBL086C, YBR112C, YBR114W, YBR184W, YBR196C, YBR197C, YBR246W +280 more
Genes affected by UME6 deletion: YBR006W, YCR010C, YCL050C, YDR034W-B, YDR366C, YHL044W, YHL048W, YIL078W, YIL110W, YIL142W, YIL144W, YIL146C, YIL084C, YIL116W, YIL148W, YLR214W, YLR244C +456 more
TF-TF interactions for UME6: DAL82, MIG1, MIG3, RSC3, RSC30, RSF2, SUT1, YPR196W
Click here to see target gene co-expression data supporting TF-TF interaction predictions


Additional Candidate Matrices:
Source
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Detailed Information
UME6_B

Matrices:




Data Source:
Foat et. al.
Fisher's P-value
7.46e-76


Information Content
12.349

Max PWM Score
12.29

Recommended PWM Cutoff
9.1
UME6

Matrices:




Data Source:
Harbison et. al.
Fisher's P-value
1.10e-69


Information Content
12.975

Max PWM Score
13.12

Recommended PWM Cutoff
9.4
UME6

Matrices:




Data Source:
Macisaac et. al
Fisher's P-value
1.46e-69


Information Content
14.834

Max PWM Score
13.49

Recommended PWM Cutoff
9.09
UME6

Matrices:




Data Source:
Zhu et. al.
Fisher's P-value
2.31e-68


Information Content
13.879

Max PWM Score
14.64

Recommended PWM Cutoff
9.06
UME6_A

Matrices:




Data Source:
Foat et. al.
Fisher's P-value
7.21e-64


Information Content
10.701

Max PWM Score
9.9

Recommended PWM Cutoff
9.34
UME6

Matrices:




Data Source:
Badis et. al.
Fisher's P-value
9.88e-59


Information Content
10.358

Max PWM Score
9.67

Recommended PWM Cutoff
8.57
UME6

Matrices:




Data Source:
Zhao and Stormo
Fisher's P-value
3.74e-24


Information Content
7.363

Max PWM Score
6.92

Recommended PWM Cutoff
6.92