Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.10.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09829	0.839
27DAP/17DAP	1.14352	0.849
39DAP/27DAP	0.70838	0.474
41DAP/39DAP	1.02002	0.909
42DAP/41DAP	0.97098	1
43DAP/42DAP	0.89867	0.833
47DAP/43DAP	1.51746	0.261
52DAP/47DAP	0.99607	0.924
57DAP/52DAP	0.92234	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78341	0.106
17DAP/reference	0.98688	0.777
27DAP/reference	0.89776	0.194
39DAP/reference	1.29094	0.117
41DAP/reference	1.16398	0.133
42DAP/reference	0.84786	0.022
43DAP/reference	1.00556	1
47DAP/reference	1.04792	1
52DAP/reference	0.88523	0.172
57DAP/reference	0.88716	0.21

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07496	0.899
27DAP/17DAP	1.17715	0.541
39DAP/27DAP	0.86261	0.437
41DAP/39DAP	0.90378	0.747
42DAP/41DAP	0.89256	0.591
43DAP/42DAP	1.16886	0.585
47DAP/43DAP	0.99421	0.961
52DAP/47DAP	1.23877	0.552
57DAP/52DAP	1.15323	0.674
57DAP/7DAP	0.55236

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.68975	0.077
17DAP/reference	1.07285	0.162
27DAP/reference	1.05559	0.551
39DAP/reference	0.73692	0.011
41DAP/reference	0.71046	0.019
42DAP/reference	0.68088	0.019
43DAP/reference	0.92887	0.305
47DAP/reference	0.84133	0.222
52DAP/reference	0.84093	0.137
57DAP/reference	1.09703	0.746

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37007	0.491
17DAP/reference	0.94819	0.499
27DAP/reference	1.05709	1
39DAP/reference	0.79115	0.031
41DAP/reference	0.83939	0.087
42DAP/reference	1.07079	0.969
43DAP/reference	1.88596	0.03
47DAP/reference	1.2109	0.138
52DAP/reference	1.06632	0.322
57DAP/reference	1.26993	0.409

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75634	0.049
17DAP/reference	1.02468	0.988
27DAP/reference	1.01944	0.843
39DAP/reference	1.13439	0.043
41DAP/reference	1.01243	1
42DAP/reference	0.87975	0.059
43DAP/reference	0.66823	0.033
47DAP/reference	1.20688	0.163
52DAP/reference	1.35206	0.549
57DAP/reference	0.77461	0.07

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91757	1
26DAP/20DAP	1.32599	1
34DAP/26DAP	0.74481	0.702
51DAP/34DAP	1.20112	0.654
52DAP/51DAP	0.83113	1
53DAP/52DAP	1.08816	1
55DAP/53DAP	1.06397	0.939
57DAP/55DAP	1.19858	0.779
62DAP/57DAP	0.88465	0.681
68DAP/62DAP	1.10756	1
68DAP/14DAP	0.96852	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97171	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.38434	0.014
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.16357

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.23363	0.551
1-1-2/M82	N/A	N/A
12-2/M82	1.05576
12-4/M82	0.83332	0.619
1-3/M82	0.8334
2-1-1/M82	0.97286
2-1/M82	N/A	N/A
2-6/M82	0.88748
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.0369	1
5-3/M82	1.29417	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
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	0.91398
IL2-6/WTpooled	1.03832	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.8131	0.294
IL12-4/WTpooled	0.91147	1
IL1-4/WTpooled	0.98981	1
WT/WTpooled	1.07326	0.777

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	1.03025

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.28157	0.921
DC3000/delta hrp 6h	1.14933
DC3000/delta hrp 12h	1.1799	1
DC3000/delta hrp 24h	0.88122	0.246

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	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	1.00193	1
Var 0h	1.04132	0.98
Var 12h I row2-row1	1.08692	0.224
Var 12h NI row2-row1	0.82031	0.243
Var 36h I row2-row1	0.95419
Var 36h NI row2-row1	1.14881	1
Var 60h I row2-row1	1.04282	1
Var 60h NI row2-row1	1.00058	1
Time course 0hI-0hNI	0.96824	0.87
Time course 12hI-12hNI	1.05331	0.714
Time course 36hI-36hNI	0.99541	0.654
Time course 60hI-60hNI	0.64882	0.007

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)	1.03126	0.921
transgenic ySAMdc/azygous control (breaker)	1.143	0.248
transgenic ySAMdc/azygous control (red)	1.03424	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94497	0.065

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92817	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89381	1
Manapal/WT (break)	0.73552	0.333
Manapal/WT (red)	1.05122	1