Data associated with:

  
Assessing Clusters and Motifs from Gene Expression Data
by Jakt, L.M., Cao, L., Cheah, K.S.E. and Smith, D.K.
Genome Research, 2001, 11:112-123

Cluster Primary SetSecondary SetCluster Primary SetSecondary Set
1 142 genes 214 genes 2 183 genes 93 genes
3 102 genes 98 genes 4 164 genes 376 genes
5 148 genes 167 genes 6 97 genes 22 genes
7 99 genes 154 genes 8 145 genes 168 genes
9 144 genes 200 genes 10 75 genes 56 genes
11 94 genes 249 genes 12 77 genes 56 genes
13 96 genes 62 genes 14 73 genes 106 genes
15 112 genes 73 genes 16 94 genes 89 genes
17 79 genes 129 genes 18 89 genes 134 genes
19 71 genes 42 genes 20 83 genes 178 genes
21 55 genes 57 genes 22 82 genes 71 genes
23 63 genes 121 genes 24 83 genes 64 genes
25 74 genes 90 genes 26 44 genes 15 genes
27 61 genes 63 genes 28 66 genes 57 genes
29 50 genes 57 genes 30 58 genes 83 genes
all 2803 genes 3344 genes  


Motif descriptions and the number of matches and the p-values of the matches to a cluster

MCB (T) description matches sequences plot consensus
M14a (T) description matches sequences plot consensus
MCM1 (S) description matches n/a plot consensus
MCM1 1st refinement description matches sequences plot consensus
MCM1 Short description matches sequences plot consensus
MCM1 Long description matches sequences plot consensus
ECB (S) description matches n/a plot consensus
ECB (T) description matches sequences plot consensus
RAP1 (S) description matches n/a plot consensus
RAP1 (S) + pos 4 description matches n/a plot consensus
RAP1 (S) + pos 7 description matches n/a plot consensus
RAP1 (S) + pos 8 description matches n/a plot consensus
RAP1 (S) + pos 4,7 description matches n/a plot consensus
RAP1 (S) + pos 7,8 description matches n/a plot consensus
RAP1 (S) + pos 4,7,8 description matches n/a plot consensus
RAP1 (S) + pos 4,7,8,11,12 description matches n/a plot consensus
RAP1 (L) description matches n/a plot consensus
SFF-I description matches sequences plot consensus
SFF-F description matches sequences plot consensus
M14B (T) description matches sequences plot consensus

Motif descriptions are presented as counts of nucleotides at each position
(except Rap1(L) which is by percentage of nuclotides at each position.)
Sequences are not available for the SCPD and Lascaris motifs and alterations.

(L) From Lascaris et al. 1999. Bioinformatics, 15:267-277.
(S) From the SCPD, Zhu and Zhang 1999. Bioinformatics, 15:607-611.
(T) From Tavazoie et al. 1999. Nature Genetics, 22:281-285.


The program to generate the visual representation of a motif is available


In the event of problems or for further questions please e-mail David Smith

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