Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.16.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.45158	0.725
27DAP/17DAP	1.02942	0.947
39DAP/27DAP	1.40115	0.219
41DAP/39DAP	1.11779	0.742
42DAP/41DAP	0.93455	1
43DAP/42DAP	0.78361	0.561
47DAP/43DAP	0.83915	0.504
52DAP/47DAP	1.7492	0.549
57DAP/52DAP	0.80088	0.844

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06495	0.278
17DAP/reference	1.14864	0.024
27DAP/reference	1.09389	0.33
39DAP/reference	1.03891	0.335
41DAP/reference	1.05203	0.552
42DAP/reference	1.04919	0.467
43DAP/reference	1.11072	0.189
47DAP/reference	1.11141	0.093
52DAP/reference	0.98177	0.515
57DAP/reference	1.06742	0.433

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16844	0.558
27DAP/17DAP	0.84723	0.58
39DAP/27DAP	0.96557	0.821
41DAP/39DAP	1.2367	0.682
42DAP/41DAP	1.08111	0.571
43DAP/42DAP	1.26968	0.122
47DAP/43DAP	1.06069	0.853
52DAP/47DAP	0.89031	0.591
57DAP/52DAP	1.20572	0.523
57DAP/7DAP	0.96544	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99889	0.682
17DAP/reference	1.09165	0.688
27DAP/reference	1.0315	0.974
39DAP/reference	0.92476	0.23
41DAP/reference	0.86328	0.127
42DAP/reference	0.91224	0.275
43DAP/reference	1.10399	0.788
47DAP/reference	1.06631	0.67
52DAP/reference	1.10036	0.197
57DAP/reference	1.25439	0.061

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03314	0.842
17DAP/reference	1.18209	0.098
27DAP/reference	1.08993	0.367
39DAP/reference	0.94801	0.339
41DAP/reference	0.92785	0.331
42DAP/reference	1.07714	0.519
43DAP/reference	1.16146	0.522
47DAP/reference	1.01176	1
52DAP/reference	1.03739	0.559
57DAP/reference	1.15469	0.334

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10751	0.588
17DAP/reference	1.10807	0.431
27DAP/reference	0.8917	0.119
39DAP/reference	1.16679	0.097
41DAP/reference	0.95182	0.459
42DAP/reference	1.19006	0.327
43DAP/reference	0.98175	0.639
47DAP/reference	1.36663	0.011
52DAP/reference	1.2555	0.067
57DAP/reference	1.13547	0.262

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	2.02783	0.966
26DAP/20DAP	0.99531	1
34DAP/26DAP	0.98181	1
51DAP/34DAP	1.0068	0.98
52DAP/51DAP	0.86597	1
53DAP/52DAP	1.7609	0.044
55DAP/53DAP	0.93907	0.663
57DAP/55DAP	0.89995	0.577
62DAP/57DAP	1.0575	0.994
68DAP/62DAP	1.01612	0.914
68DAP/14DAP	1.42578	0.2

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94398	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.3497	0.176
Mature Green Tomato/Ripe Tomato	0.77695	0.066
Immature Eggplant/Mature Eggplant	0.68539	0.081
Ripe Pepper/Ripe Tomato	1.00157	1
Mature Eggplant/Ripe Tomato	1.96596	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.87061
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	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	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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.04242	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	0.91111	0.95
DC3000/delta hrp 12h	0.9553	1
DC3000/delta hrp 24h	N/A	N/A

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.60356	0.025
DC3000 delta B/DC3000 delta AB	0.477	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95075	1
Exp 36h	0.74214	0.406
Exp 60h	0.78184	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	0.944	1
Var 0h	1.37595	0.782
Var 12h I row2-row1	0.77939	0.363
Var 12h NI row2-row1	0.95245	0.906
Var 36h I row2-row1	0.87968	0.805
Var 36h NI row2-row1	1.13399	0.276
Var 60h I row2-row1	1.24829	0.543
Var 60h NI row2-row1	0.93097	1
Time course 0hI-0hNI	0.98503	0.97
Time course 12hI-12hNI	0.98691	0.94
Time course 36hI-36hNI	0.88452	0.125
Time course 60hI-60hNI	0.14919	0.005

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)	0.97927	0.722
transgenic ySAMdc/azygous control (breaker)	0.97948	1
transgenic ySAMdc/azygous control (red)	0.93372	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00023	0.967

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.62141	0.228

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.50521	0.083
Manapal/WT (break)	1.49718	1
Manapal/WT (red)	1.56899	1