Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.11.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79653	0.389
27DAP/17DAP	1.22456	0.864
39DAP/27DAP	0.74472	0.397
41DAP/39DAP	0.87676	0.611
42DAP/41DAP	1.15993	0.962
43DAP/42DAP	0.7483	0.61
47DAP/43DAP	1.07325	0.842
52DAP/47DAP	0.77873	0.42
57DAP/52DAP	0.85671	0.882

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03011	0.814
17DAP/reference	1.1062	0.427
27DAP/reference	1.03487	0.709
39DAP/reference	1.14403	0.169
41DAP/reference	1.27237	0.019
42DAP/reference	1.05938	0.565
43DAP/reference	1.10439	0.152
47DAP/reference	0.99467	0.568
52DAP/reference	0.85894	0.077
57DAP/reference	0.95429	0.377

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95007	0.629
27DAP/17DAP	1.27161	0.465
39DAP/27DAP	1.09725	0.845
41DAP/39DAP	0.87273	0.599
42DAP/41DAP	1.03503	0.932
43DAP/42DAP	0.93199	0.709
47DAP/43DAP	0.94313	0.833
52DAP/47DAP	1.05967	0.831
57DAP/52DAP	0.82123	0.27
57DAP/7DAP	1.29203	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.28286	0.067
17DAP/reference	2.53584	0.006
27DAP/reference	2.58099	0.007
39DAP/reference	3.02112	0.005
41DAP/reference	2.97138	0.019
42DAP/reference	3.58125	0.006
43DAP/reference	5.2591	0.006
47DAP/reference	3.18525	0.124
52DAP/reference	3.54115	0.007
57DAP/reference	2.78	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14621	0.279
17DAP/reference	1.0291	0.711
27DAP/reference	0.94561	0.467
39DAP/reference	0.7703	0.132
41DAP/reference	0.95088	0.373
42DAP/reference	1.15853	0.207
43DAP/reference	1.25243	0.777
47DAP/reference	1.09283	0.138
52DAP/reference	1.1787	0.3
57DAP/reference	1.08794	0.908

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.65196	0.016
17DAP/reference	1.64534	0.522
27DAP/reference	2.94561	0.042
39DAP/reference	3.39305	0.027
41DAP/reference	2.62762	0.008
42DAP/reference	2.45859	0.009
43DAP/reference	2.84139	0.022
47DAP/reference	1.26152	0.02
52DAP/reference	4.12424	0.036
57DAP/reference	2.2645	0.332

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07321	1
26DAP/20DAP	0.65873	0.151
34DAP/26DAP	0.89267	0.861
51DAP/34DAP	1.90629	0.159
52DAP/51DAP	1.12737	0.197
53DAP/52DAP	0.60774
55DAP/53DAP	1.64409	0.05
57DAP/55DAP	1.27021	0.881
62DAP/57DAP	0.90273	0.681
68DAP/62DAP	1.33181	0.919
68DAP/14DAP	0.77925	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98846	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.03732	0.898
Immature Eggplant/Mature Eggplant	N/A	N/A
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	1.22436	0.526
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.99284	1
1-3/M82	0.68864	0.378
2-1-1/M82	0.88408
2-1/M82	N/A	N/A
2-6/M82	1.15738	1
3-2/M82	0.64423
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	N/A	N/A
5-3/M82	0.90044	1
6-2/M82	N/A	N/A
6-3/M82	0.94377
7-1/M82	N/A	N/A
7-2/M82	0.78294
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.07691	0.277
IL2-6/WTpooled	0.78803	0.383
IL7-5/WTpooled	1.02532	1
IL7-3/WTpooled	1.23745	0.362
IL12-4/WTpooled	1.23847	0.538
IL1-4/WTpooled	0.95725	1
WT/WTpooled	1.04808	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	1.13839	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07171	0.921
DC3000/delta hrp 6h	2.1929	1
DC3000/delta hrp 12h	0.66294
DC3000/delta hrp 24h	1.14405	0.283

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	0.94772	1
Var 0h	1.48146	0.594
Var 12h I row2-row1	0.80104	0.242
Var 12h NI row2-row1	1.04321	1
Var 36h I row2-row1	0.8719	0.262
Var 36h NI row2-row1	1.01189
Var 60h I row2-row1	1.28801	0.562
Var 60h NI row2-row1	0.63069	0.866
Time course 0hI-0hNI	0.90631	0.297
Time course 12hI-12hNI	1.14534	0.275
Time course 36hI-36hNI	1.14953	0.218
Time course 60hI-60hNI	1.18592	0.053

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	1
transgenic ySAMdc/azygous control (breaker)	1.83168	0.248
transgenic ySAMdc/azygous control (red)	2.75093	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96319	0.11

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.84547	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.08867	0.307
Manapal/WT (break)	1.23127	1
Manapal/WT (red)	1.33771	0.413