Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.18.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93288	0.64
27DAP/17DAP	1.5841	0.839
39DAP/27DAP	1.23722	0.922
41DAP/39DAP	1.11272	0.742
42DAP/41DAP	0.99815	1
43DAP/42DAP	1.0785	0.945
47DAP/43DAP	1.44186	0.481
52DAP/47DAP	1.00345	0.823
57DAP/52DAP	0.93127	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88008	0.224
17DAP/reference	0.95082	0.503
27DAP/reference	0.92496	0.275
39DAP/reference	0.77631	0.027
41DAP/reference	0.82791	0.154
42DAP/reference	0.96959	0.315
43DAP/reference	1.03466	1
47DAP/reference	0.758	0.148
52DAP/reference	0.77981	0.022
57DAP/reference	0.92693	0.324

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08498	0.736
27DAP/17DAP	1.18815	0.511
39DAP/27DAP	0.9032	0.514
41DAP/39DAP	0.90027	0.53
42DAP/41DAP	0.96141	0.679
43DAP/42DAP	0.98443	0.875
47DAP/43DAP	1.04317	0.95
52DAP/47DAP	0.74377	0.103
57DAP/52DAP	1.29574	0.311
57DAP/7DAP	0.92727	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87729	0.086
17DAP/reference	0.9459	0.295
27DAP/reference	1.08756	0.453
39DAP/reference	0.85575	0.126
41DAP/reference	0.66862	0.012
42DAP/reference	0.72445	0.06
43DAP/reference	0.98303	0.527
47DAP/reference	0.79007	0.04
52DAP/reference	0.68667	0.017
57DAP/reference	0.93573	0.223

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88952	0.374
17DAP/reference	1.13363	0.508
27DAP/reference	0.962	0.34
39DAP/reference	0.81055	0.072
41DAP/reference	0.90035	0.137
42DAP/reference	0.93253	0.261
43DAP/reference	1.03245	0.831
47DAP/reference	0.8282	0.012
52DAP/reference	0.85731	0.086
57DAP/reference	0.86266	0.063

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95621	0.335
17DAP/reference	1.10253	0.311
27DAP/reference	0.9802	0.566
39DAP/reference	0.89341	0.058
41DAP/reference	0.85919	0.237
42DAP/reference	0.90396	0.22
43DAP/reference	0.90967	0.15
47DAP/reference	0.72055	0.023
52DAP/reference	1.67296	0.146
57DAP/reference	0.87508	0.134

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11739	0.966
26DAP/20DAP	1.26241	0.53
34DAP/26DAP	1.21192	0.819
51DAP/34DAP	0.92129	0.624
52DAP/51DAP	1.24526	0.588
53DAP/52DAP	1.26382	0.608
55DAP/53DAP	1.06969	0.842
57DAP/55DAP	1.51377	0.728
62DAP/57DAP	1.11663	1
68DAP/62DAP	0.91174	0.722
68DAP/14DAP	0.81324	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.73927	0.025

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.47732	0.095
Mature Green Tomato/Ripe Tomato	1.57567	0.881
Immature Eggplant/Mature Eggplant	1.64549	0.248
Ripe Pepper/Ripe Tomato	1.39535	0.256
Mature Eggplant/Ripe Tomato	0.52004	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92562
1-1-2/M82	0.88376
12-2/M82	1.43476
12-4/M82	0.93881	0.619
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.65314
4-3-2/M82	N/A	N/A
4-3/M82	0.65566
5-3/M82	0.87295	0.642
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.87104
7-2/M82	N/A	N/A
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	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.00792
WT/WTpooled	N/A	N/A

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	1.26427	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0125	1
DC3000/delta hrp 6h	1.2065	1
DC3000/delta hrp 12h	1.02618	1
DC3000/delta hrp 24h	0.9557	0.682

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	1.49595	0.099

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0357	1
Exp 36h	0.91177	0.82
Exp 60h	1.09523	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98584	1
Var 0h	1.1414	0.98
Var 12h I row2-row1	0.95379	0.467
Var 12h NI row2-row1	1.10537	0.649
Var 36h I row2-row1	1.1753	0.298
Var 36h NI row2-row1	1.01773	1
Var 60h I row2-row1	0.87232	0.285
Var 60h NI row2-row1	1.0578	1
Time course 0hI-0hNI	1.20334	0.344
Time course 12hI-12hNI	1.00522	1
Time course 36hI-36hNI	1.1386	0.355
Time course 60hI-60hNI	1.08059	0.359

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)	0.96916	0.614
transgenic ySAMdc/azygous control (breaker)	1.53462	0.248
transgenic ySAMdc/azygous control (red)	1.11181	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09891	0.096

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92557	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.04183	1
Manapal/WT (break)	0.95757	1
Manapal/WT (red)	0.61511	0.181