Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.14.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99885	0.839
27DAP/17DAP	1.14409	0.845
39DAP/27DAP	0.92692	0.573
41DAP/39DAP	1.04226	0.771
42DAP/41DAP	0.86605	1
43DAP/42DAP	0.96448	0.909
47DAP/43DAP	1.28015	0.334
52DAP/47DAP	0.81291	0.54
57DAP/52DAP	1.00609	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09474	0.17
17DAP/reference	0.9956	0.904
27DAP/reference	0.98208	0.642
39DAP/reference	0.95708	0.35
41DAP/reference	1.04763	0.552
42DAP/reference	1.10606	0.004
43DAP/reference	1.0081	0.957
47DAP/reference	1.06282	0.114
52DAP/reference	1.00392	0.749
57DAP/reference	1.04407	0.291

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10469	0.34
27DAP/17DAP	0.90241	0.537
39DAP/27DAP	0.96323	0.784
41DAP/39DAP	1.10517	0.59
42DAP/41DAP	1.01273	1
43DAP/42DAP	0.85368	0.172
47DAP/43DAP	1.05496	0.848
52DAP/47DAP	1.04723	0.851
57DAP/52DAP	1.07824	0.838
57DAP/7DAP	0.91081	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82911	0.129
17DAP/reference	0.80689	0.011
27DAP/reference	0.74761	0.011
39DAP/reference	0.88801	0.031
41DAP/reference	0.87048	0.064
42DAP/reference	0.8409	0.02
43DAP/reference	0.78791	0.011
47DAP/reference	0.83521	0.101
52DAP/reference	0.83595	0.066
57DAP/reference	0.74016	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05935	0.516
17DAP/reference	1.17583	0.264
27DAP/reference	1.07596	0.535
39DAP/reference	1.09935	0.175
41DAP/reference	1.023	1
42DAP/reference	1.09384	0.195
43DAP/reference	1.247	0.23
47DAP/reference	1.06069	0.256
52DAP/reference	1.16384	0.008
57DAP/reference	1.1364	0.101

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80734	0.031
17DAP/reference	1.05449	0.72
27DAP/reference	0.80791	0.03
39DAP/reference	0.80749	0.026
41DAP/reference	0.95855	0.293
42DAP/reference	0.87234	0.22
43DAP/reference	0.94397	0.398
47DAP/reference	0.98026	0.525
52DAP/reference	0.74468	0.167
57DAP/reference	1.21573	0.245

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01561	0.966
26DAP/20DAP	1.10708	1
34DAP/26DAP	1.48258	0.542
51DAP/34DAP	0.76453	0.102
52DAP/51DAP	1.57538	0.09
53DAP/52DAP	0.74606	0.062
55DAP/53DAP	1.44036	0.106
57DAP/55DAP	0.93966	0.744
62DAP/57DAP	0.98768	1
68DAP/62DAP	1.06918	0.919
68DAP/14DAP	0.96887	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.257	0.558

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.03841	0.666
Mature Green Tomato/Ripe Tomato	1.3933	0.299
Immature Eggplant/Mature Eggplant	1.22846	0.248
Ripe Pepper/Ripe Tomato	0.61594	0.224
Mature Eggplant/Ripe Tomato	1.19989	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.86643	0.841
1-1-2/M82	1.00127	1
12-2/M82	1.16929
12-4/M82	0.9919	1
1-3/M82	1.01893	1
2-1-1/M82	1.18082
2-1/M82	N/A	N/A
2-6/M82	1.18188	0.695
3-2/M82	N/A	N/A
4-1-1/M82	1.06846	1
4-1/M82	1.72587	0.853
4-3-2/M82	1.03932	1
4-3/M82	0.7101	0.578
5-3/M82	1.01168	1
6-2/M82	0.81159	1
6-3/M82	0.9795	1
7-1/M82	1.57473
7-2/M82	1.09581	0.318
9-3-2/M82	1.05607	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.08803	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.55821
IL12-4/WTpooled	1.02076	1
IL1-4/WTpooled	1.01282	1
WT/WTpooled	0.86432	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	0.92117	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.1277	0.894
DC3000/delta hrp 6h	0.98807	0.95
DC3000/delta hrp 12h	1.00631	1
DC3000/delta hrp 24h	1.06099	0.567

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.28379	0.05
DC3000 delta B/DC3000 delta AB	1.06806	0.535

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.10026	1
Exp 36h	1.06863	1
Exp 60h	1.15033	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97821	1
Var 0h	1.02747	1
Var 12h I row2-row1	1.1947	0.224
Var 12h NI row2-row1	0.97939	0.906
Var 36h I row2-row1	0.97173	1
Var 36h NI row2-row1	1.41354	1
Var 60h I row2-row1	0.88842	0.292
Var 60h NI row2-row1	1.02066	0.904
Time course 0hI-0hNI	0.99901	1
Time course 12hI-12hNI	1.04218	0.73
Time course 36hI-36hNI	1.02734	0.722
Time course 60hI-60hNI	1.16882	0.096

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)	0.92443	0.348
transgenic ySAMdc/azygous control (breaker)	1.41231	0.248
transgenic ySAMdc/azygous control (red)	1.12993	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9467	0.046

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88817	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02979	1
Manapal/WT (break)	1.15578	0.381
Manapal/WT (red)	0.66214	0.181