Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.13.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.41938	0.523
27DAP/17DAP	1.05416	0.91
39DAP/27DAP	1.76777	0.735
41DAP/39DAP	1.21896
42DAP/41DAP	1.12773	1
43DAP/42DAP	1.39738	0.259
47DAP/43DAP	1.25136	0.355
52DAP/47DAP	0.91528	0.711
57DAP/52DAP	0.80414	0.844

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10026	0.567
17DAP/reference	1.24199	0.185
27DAP/reference	1.1508	0.194
39DAP/reference	1.20519	0.096
41DAP/reference	1.13221	0.287
42DAP/reference	0.99532	0.567
43DAP/reference	1.02095	0.73
47DAP/reference	0.98723	0.535
52DAP/reference	0.95319	0.416
57DAP/reference	0.9319	0.074

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84249	0.158
27DAP/17DAP	1.31259	0.677
39DAP/27DAP	1.14014	0.565
41DAP/39DAP	1.25446	0.853
42DAP/41DAP	0.87273	0.387
43DAP/42DAP	1.19912	0.664
47DAP/43DAP	1.26469	0.772
52DAP/47DAP	1.03122	0.959
57DAP/52DAP	1.16538	0.666
57DAP/7DAP	0.9126

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88637	0.224
17DAP/reference	1.04132	0.574
27DAP/reference	1.08677	0.107
39DAP/reference	1.12667	0.57
41DAP/reference	1.17489	0.363
42DAP/reference	1.04203	1
43DAP/reference	1.09106	0.483
47DAP/reference	0.95593	0.383
52DAP/reference	1.03565	0.886
57DAP/reference	0.98838	0.569

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16138	0.258
17DAP/reference	1.12548	0.151
27DAP/reference	0.91247	0.188
39DAP/reference	0.95601	0.322
41DAP/reference	0.93752	0.242
42DAP/reference	0.93692	0.212
43DAP/reference	1.33829	0.17
47DAP/reference	1.08427	0.291
52DAP/reference	0.90837	0.143
57DAP/reference	0.9897	0.68

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97492	0.526
17DAP/reference	1.07223	0.657
27DAP/reference	1.01309	0.777
39DAP/reference	1.12148	0.406
41DAP/reference	1.12203	0.249
42DAP/reference	1.05242	0.576
43DAP/reference	1.01897	0.767
47DAP/reference	1.13035	0.339
52DAP/reference	1.03789	0.759
57DAP/reference	0.90241	0.229

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13448	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	2.54226	1
51DAP/34DAP	0.86392	0.618
52DAP/51DAP	1.34553	0.651
53DAP/52DAP	1.03054	0.917
55DAP/53DAP	1.13355	1
57DAP/55DAP	1.1249	0.854
62DAP/57DAP	1.37676	0.678
68DAP/62DAP	0.89095	0.722
68DAP/14DAP	0.89597	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00212	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.71517	0.287
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.66834
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	1.40076
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	0.60356
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.89423
3-2/M82	N/A	N/A
4-1-1/M82	0.69675
4-1/M82	1.41967
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.97287
6-2/M82	0.48006
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.04297
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.20448	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.15943	0.673
IL1-4/WTpooled	0.75875
WT/WTpooled	1.07431

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	1.77015	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09198	0.715
DC3000/delta hrp 6h	1.17692	1
DC3000/delta hrp 12h	0.98754	1
DC3000/delta hrp 24h	0.92906	0.395

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	N/A	N/A
Exp 36h	0.94783	0.749
Exp 60h	0.93648	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.16522	1
Var 0h	0.91228	0.933
Var 12h I row2-row1	1.72892	0.379
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	0.9927	0.489
Var 36h NI row2-row1	0.97478
Var 60h I row2-row1	1.15277	1
Var 60h NI row2-row1	0.75338	0.866
Time course 0hI-0hNI	1.13443	0.852
Time course 12hI-12hNI	0.88365	0.535
Time course 36hI-36hNI	1.95966	0.009
Time course 60hI-60hNI	2.41428	0.008

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)	1.04674	0.748
transgenic ySAMdc/azygous control (breaker)	1.36049	0.172
transgenic ySAMdc/azygous control (red)	1.13964	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98796	0.393

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.19852	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.86169	1
Manapal/WT (break)	0.95055	1
Manapal/WT (red)	1.70199	0.133