Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.12.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98591	0.858
27DAP/17DAP	1.31278	0.725
39DAP/27DAP	0.65507	0.216
41DAP/39DAP	0.99768	0.887
42DAP/41DAP	0.87561	1
43DAP/42DAP	0.96874	0.918
47DAP/43DAP	1.06583	0.856
52DAP/47DAP	1.3083	0.69
57DAP/52DAP	1.182	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88012	0.111
17DAP/reference	0.97739	0.63
27DAP/reference	0.96139	0.497
39DAP/reference	1.25402	0.032
41DAP/reference	1.14473	0.102
42DAP/reference	1.4497	0.007
43DAP/reference	1.23267	0.01
47DAP/reference	1.26449	0.284
52DAP/reference	1.19266	0.102
57DAP/reference	1.44512	0.068

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.55505	0.363
27DAP/17DAP	1.77804	0.429
39DAP/27DAP	0.44987
41DAP/39DAP	2.38996	0.284
42DAP/41DAP	N/A	N/A
43DAP/42DAP	1.02065
47DAP/43DAP	1.22167
52DAP/47DAP	2.20844	0.301
57DAP/52DAP	0.71161	0.454
57DAP/7DAP	0.86285

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92917	0.246
17DAP/reference	0.92389	0.253
27DAP/reference	1.24296	0.008
39DAP/reference	1.07074	0.351
41DAP/reference	1.15731	0.191
42DAP/reference	1.06342	0.686
43DAP/reference	1.09232	0.386
47DAP/reference	1.42284	0.07
52DAP/reference	1.56993	0.007
57DAP/reference	1.24092	0.5

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10063	0.852
17DAP/reference	1.46958	0.007
27DAP/reference	1.7808	0.02
39DAP/reference	1.39191	0.085
41DAP/reference	1.59645	0.005
42DAP/reference	1.84963	0.008
43DAP/reference	2.07737	0.012
47DAP/reference	1.91375	0.008
52DAP/reference	1.51689	0.014
57DAP/reference	1.20132	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99469	0.75
17DAP/reference	1.07127	1
27DAP/reference	0.9853	0.657
39DAP/reference	1.18936	0.052
41DAP/reference	1.32872	0.265
42DAP/reference	1.25025	0.121
43DAP/reference	1.02953	0.738
47DAP/reference	1.39124	0.007
52DAP/reference	1.0313	1
57DAP/reference	2.42408	0.005

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.78513	0.399
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.2092	1
51DAP/34DAP	1.07276
52DAP/51DAP	1.30695	1
53DAP/52DAP	1.70886	0.678
55DAP/53DAP	0.92467	0.852
57DAP/55DAP	0.95724	0.855
62DAP/57DAP	1.62151	0.723
68DAP/62DAP	1.09654	0.747
68DAP/14DAP	0.86633

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.40438

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08583	0.877
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.92295	1
1-3/M82	0.63242
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.962	1
3-2/M82	0.96316	1
4-1-1/M82	N/A	N/A
4-1/M82	1.67808
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.96078	1
6-2/M82	N/A	N/A
6-3/M82	0.95047
7-1/M82	N/A	N/A
7-2/M82	0.79578
9-3-2/M82	0.98514

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.62667	0.243
IL2-6/WTpooled	1.14332	0.788
IL7-5/WTpooled	1.17656	0.75
IL7-3/WTpooled	0.66699	0.294
IL12-4/WTpooled	0.92798	0.71
IL1-4/WTpooled	0.89906	0.415
WT/WTpooled	0.88933	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	N/A	N/A

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99059	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.03074	1
DC3000/delta hrp 24h	1.00367	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.79412	1
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.21194	0.98
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	1.6556	0.511
transgenic ySAMdc/azygous control (breaker)	1.00414	1
transgenic ySAMdc/azygous control (red)	1.30941	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97505	0.371

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.2658	1

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.36319	1
Manapal/WT (break)	0.80119	0.333
Manapal/WT (red)	N/A	N/A