Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.19.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03108	0.975
27DAP/17DAP	0.93249	0.863
39DAP/27DAP	1.3588	0.219
41DAP/39DAP	0.84997	0.552
42DAP/41DAP	1.10993	0.938
43DAP/42DAP	1.14413	1
47DAP/43DAP	2.17151	0.746
52DAP/47DAP	1.12122	0.886
57DAP/52DAP	0.98354	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86421	0.118
17DAP/reference	1.06524	0.294
27DAP/reference	1.03932	0.58
39DAP/reference	0.99192	0.885
41DAP/reference	1.03487	0.624
42DAP/reference	0.95639	0.188
43DAP/reference	0.9707	0.653
47DAP/reference	0.96059	0.279
52DAP/reference	0.86133	0.152
57DAP/reference	0.90488	0.186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82476	0.35
27DAP/17DAP	1.15875	0.494
39DAP/27DAP	1.4801	0.378
41DAP/39DAP	1.14133	0.887
42DAP/41DAP	0.81807	0.603
43DAP/42DAP	0.83543	0.022
47DAP/43DAP	1.34192	0.475
52DAP/47DAP	1.01115	0.901
57DAP/52DAP	1.1515	0.552
57DAP/7DAP	1.10374	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90202	0.146
17DAP/reference	0.84377	0.108
27DAP/reference	0.92924	0.231
39DAP/reference	1.26171	0.007
41DAP/reference	0.96475	0.431
42DAP/reference	1.05809	0.889
43DAP/reference	1.01035	1
47DAP/reference	1.07131	0.561
52DAP/reference	1.11551	0.036
57DAP/reference	1.12417	0.137

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89138	0.096
17DAP/reference	0.93326	0.279
27DAP/reference	0.8564	0.155
39DAP/reference	0.89323	0.132
41DAP/reference	0.89538	0.152
42DAP/reference	0.93132	0.261
43DAP/reference	0.83611	0.039
47DAP/reference	0.97159	0.423
52DAP/reference	0.92815	0.22
57DAP/reference	0.90721	0.18

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82803	0.092
17DAP/reference	0.99958	0.763
27DAP/reference	0.88355	0.089
39DAP/reference	0.95478	0.393
41DAP/reference	0.87387	0.07
42DAP/reference	0.96604	0.552
43DAP/reference	0.88613	0.206
47DAP/reference	0.96928	0.494
52DAP/reference	0.9475	0.551
57DAP/reference	0.82718	0.095

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.34156	0.966
26DAP/20DAP	1.73894
34DAP/26DAP	1.59254	0.542
51DAP/34DAP	0.79027
52DAP/51DAP	0.93494	1
53DAP/52DAP	1.12151	0.91
55DAP/53DAP	1.00814	1
57DAP/55DAP	1.25645	0.881
62DAP/57DAP	1.10284	1
68DAP/62DAP	0.77696	0.464
68DAP/14DAP	0.77628	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82135	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	8.20498
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	0.81236
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.33421	0.505
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	1.24264
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.90391
4-3-2/M82	N/A	N/A
4-3/M82	0.5356
5-3/M82	1.05626	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	0.80951
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.2232	0.277
IL2-6/WTpooled	1.27751	0.46
IL7-5/WTpooled	1.62458	1
IL7-3/WTpooled	0.7093	0.294
IL12-4/WTpooled	1.22971	0.695
IL1-4/WTpooled	1.37877	1
WT/WTpooled	0.92035	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	1.02415	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02566	0.894
DC3000/delta hrp 6h	0.85482	0.95
DC3000/delta hrp 12h	0.9002	1
DC3000/delta hrp 24h	1.05514	0.76

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	4.62481
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	0.97553	1
Exp 36h	1.14049	1
Exp 60h	0.97256	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.10871	1
Var 0h	0.92466	1
Var 12h I row2-row1	1.00135	1
Var 12h NI row2-row1	1.02808	1
Var 36h I row2-row1	1.21255	0.908
Var 36h NI row2-row1	0.92892
Var 60h I row2-row1	0.96164	0.952
Var 60h NI row2-row1	1.08485	0.904
Time course 0hI-0hNI	1.03063	1
Time course 12hI-12hNI	2.29487	0.256
Time course 36hI-36hNI	1.02444	0.975
Time course 60hI-60hNI	2.19145	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)	1.04999	0.384
transgenic ySAMdc/azygous control (breaker)	1.12369	1
transgenic ySAMdc/azygous control (red)	1.00494	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06801	0.105

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.1932	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.78899	0.216