Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.2.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12029	0.709
27DAP/17DAP	0.93746	0.882
39DAP/27DAP	0.94838	0.67
41DAP/39DAP	1.19142	0.63
42DAP/41DAP	1.05502	1
43DAP/42DAP	0.91305	0.801
47DAP/43DAP	1.04216	0.95
52DAP/47DAP	1.11648	0.851
57DAP/52DAP	1.11189	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2923	0.055
17DAP/reference	1.11867	0.427
27DAP/reference	1.50395	0.009
39DAP/reference	1.69162	0.013
41DAP/reference	1.4767	0.012
42DAP/reference	1.33713	0.001
43DAP/reference	0.91113	0.377
47DAP/reference	1.16684	0.06
52DAP/reference	0.76069	0.055
57DAP/reference	0.92572	0.308

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95051	0.663
27DAP/17DAP	1.00841	1
39DAP/27DAP	1.10492	0.626
41DAP/39DAP	1.03375	0.896
42DAP/41DAP	1.03851	0.886
43DAP/42DAP	1.03761	0.699
47DAP/43DAP	1.01113	0.957
52DAP/47DAP	1.14339	0.649
57DAP/52DAP	0.96346	0.695
57DAP/7DAP	1.07963	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07163	0.843
17DAP/reference	0.87677	0.124
27DAP/reference	0.79056	0.012
39DAP/reference	0.90698	0.083
41DAP/reference	0.89641	0.111
42DAP/reference	0.92796	0.222
43DAP/reference	0.75295	0.02
47DAP/reference	1.05786	0.915
52DAP/reference	0.84617	0.097
57DAP/reference	0.96742	0.353

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13529	0.384
17DAP/reference	1.66254	0.008
27DAP/reference	1.38265	0.018
39DAP/reference	1.23968	0.309
41DAP/reference	1.05908	0.831
42DAP/reference	1.40731	0.043
43DAP/reference	1.10059	0.532
47DAP/reference	1.51596	0.008
52DAP/reference	1.2392	0.043
57DAP/reference	1.41773	0.172

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97933	0.566
17DAP/reference	1.06909	0.746
27DAP/reference	0.86021	0.23
39DAP/reference	0.78738	0.101
41DAP/reference	0.93416	0.331
42DAP/reference	0.97797	0.671
43DAP/reference	0.96004	0.503
47DAP/reference	0.73763	0.01
52DAP/reference	0.78922	0.158
57DAP/reference	0.94283	0.416

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99838	1
26DAP/20DAP	0.74344	0.317
34DAP/26DAP	1.03121	1
51DAP/34DAP	0.90076	0.498
52DAP/51DAP	1.15746	0.197
53DAP/52DAP	0.93418	0.695
55DAP/53DAP	1.20169	0.566
57DAP/55DAP	1.23442	0.793
62DAP/57DAP	0.84375	0.28
68DAP/62DAP	0.98829	0.863
68DAP/14DAP	0.73258	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.0461	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	4.69817	0.058
Mature Green Tomato/Ripe Tomato	1.24488	0.267
Immature Eggplant/Mature Eggplant	0.87572	0.493
Ripe Pepper/Ripe Tomato	0.94042	1
Mature Eggplant/Ripe Tomato	2.29351

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.61436
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	0.73741
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	N/A	N/A
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	0.81253

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.86851	0.321
IL2-6/WTpooled	1.59174
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.93259
IL12-4/WTpooled	0.29805
IL1-4/WTpooled	1.58758	1
WT/WTpooled	0.97462	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	1.14364	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95857	1
DC3000/delta hrp 6h	1.06843	1
DC3000/delta hrp 12h	1.05329	1
DC3000/delta hrp 24h	0.62091	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.84383	0.105
DC3000 delta B/DC3000 delta AB	1.00353	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.17055	1
Exp 36h	0.87755	0.749
Exp 60h	0.83858	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98607	1
Var 0h	1.06461	0.98
Var 12h I row2-row1	0.8326	0.514
Var 12h NI row2-row1	1.13005	1
Var 36h I row2-row1	1.08032	1
Var 36h NI row2-row1	0.81092	0.645
Var 60h I row2-row1	0.73759	0.832
Var 60h NI row2-row1	0.9909	1
Time course 0hI-0hNI	1.03464	0.764
Time course 12hI-12hNI	0.95046	0.6
Time course 36hI-36hNI	1.06603	0.453
Time course 60hI-60hNI	1.30259	0.16

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)	0.81637	0.246
transgenic ySAMdc/azygous control (breaker)	0.90172	0.49
transgenic ySAMdc/azygous control (red)	1.05935	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01109	0.619

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.54247	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.26627	0.14
Manapal/WT (break)	0.99496	1
Manapal/WT (red)	N/A	N/A