Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.11.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00789	1
27DAP/17DAP	1.22314	0.854
39DAP/27DAP	0.88381	0.39
41DAP/39DAP	1.24735	0.352
42DAP/41DAP	1.01385	1
43DAP/42DAP	1.00706	0.937
47DAP/43DAP	1.01536	0.979
52DAP/47DAP	1.38725	0.498
57DAP/52DAP	1.0148	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05593	0.76
17DAP/reference	1.03214	0.22
27DAP/reference	0.96115	0.314
39DAP/reference	1.08397	0.14
41DAP/reference	0.96924	0.667
42DAP/reference	0.96358	0.202
43DAP/reference	0.98833	0.785
47DAP/reference	1.00237	1
52DAP/reference	0.99512	0.636
57DAP/reference	0.94746	0.147

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86376
27DAP/17DAP	1.00551	1
39DAP/27DAP	1.07373	0.596
41DAP/39DAP	1.0297	0.909
42DAP/41DAP	1.00939	0.934
43DAP/42DAP	1.00202	1
47DAP/43DAP	0.99741	0.998
52DAP/47DAP	1.09695	0.779
57DAP/52DAP	0.99823	0.905
57DAP/7DAP	1.11506	0.22

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86094	0.138
17DAP/reference	0.74356	0.016
27DAP/reference	0.66639	0.01
39DAP/reference	0.89753	0.146
41DAP/reference	1.01168	0.619
42DAP/reference	0.81266	0.06
43DAP/reference	0.80373	0.013
47DAP/reference	0.85522	0.066
52DAP/reference	0.85491	0.061
57DAP/reference	0.85952	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05617	0.491
17DAP/reference	1.02224	0.723
27DAP/reference	0.94145	0.292
39DAP/reference	0.92174	0.119
41DAP/reference	1.0372	1
42DAP/reference	1.02715	1
43DAP/reference	1.05785	0.611
47DAP/reference	0.98596	0.434
52DAP/reference	0.98302	0.5
57DAP/reference	1.09473	0.252

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7691	0.059
17DAP/reference	0.87154	0.224
27DAP/reference	0.7201	0.029
39DAP/reference	0.70463	0.012
41DAP/reference	0.82375	0.024
42DAP/reference	0.76499	0.041
43DAP/reference	0.90873	0.158
47DAP/reference	0.93131	0.199
52DAP/reference	0.84219	0.262
57DAP/reference	0.81386	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04509	0.966
26DAP/20DAP	1.03903
34DAP/26DAP	0.87979
51DAP/34DAP	1.02257	0.829
52DAP/51DAP	N/A	N/A
53DAP/52DAP	1.32649
55DAP/53DAP	0.83123	0.663
57DAP/55DAP	1.07066	0.975
62DAP/57DAP	0.93966	0.994
68DAP/62DAP	1.10664	0.737
68DAP/14DAP	0.97471	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99427	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.67765
Mature Green Tomato/Ripe Tomato	0.85872	0.256
Immature Eggplant/Mature Eggplant	0.82181
Ripe Pepper/Ripe Tomato	0.85996	1
Mature Eggplant/Ripe Tomato	1.02653	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04244	1
1-1-2/M82	1.00572	1
12-2/M82	0.91219	0.955
12-4/M82	0.92701	1
1-3/M82	0.97596
2-1-1/M82	1.14106	0.764
2-1/M82	1.25654
2-6/M82	1.01118	1
3-2/M82	0.96918	1
4-1-1/M82	1.04961	1
4-1/M82	1.07618
4-3-2/M82	1.07476	1
4-3/M82	1.1075	1
5-3/M82	0.96547	1
6-2/M82	0.96148	1
6-3/M82	0.96025	1
7-1/M82	1.03924	0.598
7-2/M82	0.96358	0.796
9-3-2/M82	0.88422	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.48758	0.243
IL2-6/WTpooled	1.16686	0.788
IL7-5/WTpooled	0.94006	1
IL7-3/WTpooled	0.43521	0.294
IL12-4/WTpooled	0.62561	0.543
IL1-4/WTpooled	0.73282	0.457
WT/WTpooled	0.9873	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	1.00024	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08318	0.692
DC3000/delta hrp 6h	0.84285	0.95
DC3000/delta hrp 12h	0.95834	1
DC3000/delta hrp 24h	1.04044	0.71

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.00247	1
DC3000 delta B/DC3000 delta AB	0.95612	0.543

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.85228	1
Exp 36h	0.65893	0.504
Exp 60h	0.98356	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96617	1
Var 0h	1.03986	0.936
Var 12h I row2-row1	1.09443	0.348
Var 12h NI row2-row1	0.97567	0.906
Var 36h I row2-row1	0.73498	0.805
Var 36h NI row2-row1	1.09006	1
Var 60h I row2-row1	1.05476	0.562
Var 60h NI row2-row1	1.20928	0.904
Time course 0hI-0hNI	1.06362	0.833
Time course 12hI-12hNI	1.02875	0.754
Time course 36hI-36hNI	0.9004	0.194
Time course 60hI-60hNI	0.92812	0.319

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)	0.99722	0.931
transgenic ySAMdc/azygous control (breaker)	1.09922	1
transgenic ySAMdc/azygous control (red)	1.31539	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97966	0.177

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.17118	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.76929	0.093
Manapal/WT (break)	1.15383	0.381
Manapal/WT (red)	1.28202	0.133