Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.1.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22701	0.77
27DAP/17DAP	0.77316	0.587
39DAP/27DAP	0.9371	0.67
41DAP/39DAP	0.83797	0.512
42DAP/41DAP	1.14207	0.863
43DAP/42DAP	1.80972	0.954
47DAP/43DAP	1.38966	0.715
52DAP/47DAP	1.07459	0.91
57DAP/52DAP	1.01917	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05389	0.756
17DAP/reference	1.03597	0.675
27DAP/reference	1.04748	0.909
39DAP/reference	0.93244	0.487
41DAP/reference	1.10524	0.421
42DAP/reference	1.09876	0.449
43DAP/reference	0.88994	0.023
47DAP/reference	1.51678	0.093
52DAP/reference	0.88315	0.139
57DAP/reference	1.1338	0.332

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.36662	0.508
27DAP/17DAP	0.97457	0.878
39DAP/27DAP	0.99396	0.984
41DAP/39DAP	1.11132	0.909
42DAP/41DAP	0.77472	0.358
43DAP/42DAP	1.24251	0.478
47DAP/43DAP	1.16868	0.713
52DAP/47DAP	0.82098	0.522
57DAP/52DAP	1.51359	0.65
57DAP/7DAP	3.2692	0.204

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03235	0.857
17DAP/reference	1.07589	0.688
27DAP/reference	1.18666	0.246
39DAP/reference	1.24852	0.222
41DAP/reference	1.19901	0.491
42DAP/reference	1.317	0.1
43DAP/reference	1.16995	0.048
47DAP/reference	1.08806	0.915
52DAP/reference	0.94887	0.363
57DAP/reference	1.13005	0.214

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22721	0.254
17DAP/reference	1.19244	0.264
27DAP/reference	1.02517	1
39DAP/reference	1.08317	0.912
41DAP/reference	0.82601	0.059
42DAP/reference	0.99429	0.655
43DAP/reference	0.99019	0.736
47DAP/reference	0.90135	0.137
52DAP/reference	1.01191	1
57DAP/reference	1.01757	0.848

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99564	0.75
17DAP/reference	1.65478	0.05
27DAP/reference	1.42685	0.105
39DAP/reference	1.05453	0.792
41DAP/reference	1.19657	0.333
42DAP/reference	1.01489	0.816
43DAP/reference	0.93005	0.449
47DAP/reference	0.95041	0.465
52DAP/reference	0.87752	0.385
57DAP/reference	1.40127	0.062

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.59631	0.207
26DAP/20DAP	0.6439	0.317
34DAP/26DAP	1.05416	1
51DAP/34DAP	1.05739	0.677
52DAP/51DAP	0.88216	1
53DAP/52DAP	1.59981	0.221
55DAP/53DAP	0.90266	0.53
57DAP/55DAP	0.87693	0.612
62DAP/57DAP	1.90414
68DAP/62DAP	1.48292	0.95
68DAP/14DAP	0.72104	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.98262	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.51529	0.104
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.45072	0.064
Ripe Pepper/Ripe Tomato	11.7354	1
Mature Eggplant/Ripe Tomato	3.16595

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	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	0.78456	0.247
IL2-6/WTpooled	1.11253	0.584
IL7-5/WTpooled	0.80709	1
IL7-3/WTpooled	0.97315	1
IL12-4/WTpooled	0.89079	0.71
IL1-4/WTpooled	0.70862	0.422
WT/WTpooled	1.01572	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	0.82358	0.226

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94625	1
DC3000/delta hrp 6h	1.07404	1
DC3000/delta hrp 12h	1.10008	1
DC3000/delta hrp 24h	0.73539	0.037

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.94844
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	0.94637	1
Exp 36h	0.79354	0.456
Exp 60h	0.70817	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04136
Var 0h	0.79256	1
Var 12h I row2-row1	0.64754	0.39
Var 12h NI row2-row1	0.97883	0.906
Var 36h I row2-row1	0.93949	1
Var 36h NI row2-row1	1.04288	1
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.86064	0.977
Time course 0hI-0hNI	1.02058	0.852
Time course 12hI-12hNI	0.90769	0.188
Time course 36hI-36hNI	0.7618	0.023
Time course 60hI-60hNI	0.0969	0.006

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)	1.00086	1
transgenic ySAMdc/azygous control (breaker)	1.57909	0.248
transgenic ySAMdc/azygous control (red)	1.46335	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96666	0.191

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.89339	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	5.0366	0.083
Manapal/WT (break)	4.2383	0.123
Manapal/WT (red)	N/A	N/A