Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.7.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.837	0.347
27DAP/17DAP	1.14647	0.866
39DAP/27DAP	0.85848	0.474
41DAP/39DAP	1.28695	0.422
42DAP/41DAP	1.12795	0.913
43DAP/42DAP	0.98315	0.925
47DAP/43DAP	1.09813	0.95
52DAP/47DAP	1.2007	0.856
57DAP/52DAP	0.92415	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03274	1
17DAP/reference	0.96714	0.567
27DAP/reference	0.99403	0.779
39DAP/reference	1.03229	1
41DAP/reference	0.9246	0.201
42DAP/reference	0.84938	0.008
43DAP/reference	1.21229	0.152
47DAP/reference	0.95788	0.3
52DAP/reference	1.06677	0.633
57DAP/reference	1.21943	0.052

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.67324
27DAP/17DAP	0.90869	0.887
39DAP/27DAP	0.83904
41DAP/39DAP	0.92742
42DAP/41DAP	1.56433	0.291
43DAP/42DAP	0.32473
47DAP/43DAP	1.08972	1
52DAP/47DAP	0.81059	0.729
57DAP/52DAP	N/A	N/A
57DAP/7DAP	1.2881

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.39824	0.046
17DAP/reference	1.25223	0.077
27DAP/reference	1.14052	0.371
39DAP/reference	1.49167	0.008
41DAP/reference	1.22678	0.075
42DAP/reference	1.2435	0.037
43DAP/reference	1.12477	0.569
47DAP/reference	1.19646	0.395
52DAP/reference	1.23424	0.041
57DAP/reference	1.15067	0.268

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02877	0.787
17DAP/reference	0.85403	0.075
27DAP/reference	0.9543	0.423
39DAP/reference	1.08723	0.412
41DAP/reference	0.99881	0.519
42DAP/reference	0.94129	0.321
43DAP/reference	0.96801	0.539
47DAP/reference	1.09136	0.498
52DAP/reference	1.04352	0.988
57DAP/reference	0.94931	0.338

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07663	0.644
17DAP/reference	0.95047	0.55
27DAP/reference	0.97145	0.319
39DAP/reference	1.26951	0.285
41DAP/reference	1.13647	0.162
42DAP/reference	1.26735	0.279
43DAP/reference	1.16931	0.134
47DAP/reference	0.936	0.296
52DAP/reference	1.03543	0.917
57DAP/reference	1.19516	0.354

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.29032	0.966
26DAP/20DAP	0.31787
34DAP/26DAP	2.2435	0.542
51DAP/34DAP	1.44874	0.049
52DAP/51DAP	1.0069	1
53DAP/52DAP	1.34582	0.179
55DAP/53DAP	0.80592	0.632
57DAP/55DAP	1.15165	0.865
62DAP/57DAP	1.31891	1
68DAP/62DAP	0.84281	0.668
68DAP/14DAP	1.07372	0.739

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.47277	0.115

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.79597	0.2
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.85627
Mature Eggplant/Ripe Tomato	1.45064	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.87428	0.804
12-2/M82	N/A	N/A
12-4/M82	1.24604	0.694
1-3/M82	0.77952
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.93562
3-2/M82	1.03348	1
4-1-1/M82	0.88766
4-1/M82	0.71089
4-3-2/M82	0.98793	1
4-3/M82	0.85932	0.72
5-3/M82	0.98644	1
6-2/M82	1.01053
6-3/M82	1.00224	1
7-1/M82	1.00683
7-2/M82	N/A	N/A
9-3-2/M82	0.97552	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.78287	1
IL2-6/WTpooled	1.24616	0.584
IL7-5/WTpooled	1.54138
IL7-3/WTpooled	0.80188	0.298
IL12-4/WTpooled	1.08916	0.785
IL1-4/WTpooled	0.96127	0.699
WT/WTpooled	1.01476	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	0.97246	1
DC3000/delta hrp 6h	1.01481	0.95
DC3000/delta hrp 12h	0.92643	1
DC3000/delta hrp 24h	0.96289	0.924

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.73135
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	0.9966	1
Exp 60h	1.41137	0.221

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	N/A	N/A
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)	1.13876	0.267
transgenic ySAMdc/azygous control (breaker)	1.3617	0.178
transgenic ySAMdc/azygous control (red)	1.08722	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9836	0.383

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.12282	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81068	1
Manapal/WT (break)	1.52175	0.381
Manapal/WT (red)	1.20948	0.222