Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.17.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78481	0.221
27DAP/17DAP	1.29247	0.784
39DAP/27DAP	1.4102	0.246
41DAP/39DAP	0.73766	0.166
42DAP/41DAP	0.74666	0.774
43DAP/42DAP	1.14543	0.816
47DAP/43DAP	1.03193	0.95
52DAP/47DAP	1.3409	0.649
57DAP/52DAP	0.88263	0.82

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11183	0.218
17DAP/reference	0.80749	0.041
27DAP/reference	0.98705	0.725
39DAP/reference	0.70757	0.012
41DAP/reference	0.85868	0.154
42DAP/reference	1.45439	0.001
43DAP/reference	0.82793	0.047
47DAP/reference	1.00948	1
52DAP/reference	0.88596	0.089
57DAP/reference	1.00905	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16918	1
27DAP/17DAP	0.88557	0.39
39DAP/27DAP	1.0392	1
41DAP/39DAP	1.63089	0.007
42DAP/41DAP	0.77495	0.109
43DAP/42DAP	1.15354	0.134
47DAP/43DAP	1.13857	0.276
52DAP/47DAP	1.52272	0.136
57DAP/52DAP	1.52186	0.13
57DAP/7DAP	1.21103	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12184	0.409
17DAP/reference	0.81183	0.094
27DAP/reference	1.04512	1
39DAP/reference	1.11914	0.297
41DAP/reference	1.27449	0.075
42DAP/reference	1.33876	0.1
43DAP/reference	1.42595	0.011
47DAP/reference	1.09656	1
52DAP/reference	1.23125	0.159
57DAP/reference	1.37346	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07967	0.679
17DAP/reference	1.1159	0.229
27DAP/reference	1.2665	0.221
39DAP/reference	1.32013	0.09
41DAP/reference	1.02995	1
42DAP/reference	1.22374	0.015
43DAP/reference	1.08888	0.735
47DAP/reference	1.47115	0.018
52DAP/reference	0.97252	0.407
57DAP/reference	1.38677	0.013

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93628	0.29
17DAP/reference	0.8926	0.426
27DAP/reference	1.16158	0.042
39DAP/reference	1.16563	0.055
41DAP/reference	1.10166	0.605
42DAP/reference	1.33562	0.029
43DAP/reference	1.05813	0.721
47DAP/reference	0.98277	0.525
52DAP/reference	1.17771	0.398
57DAP/reference	1.3152	0.051

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90428	1
26DAP/20DAP	1.54998	0.615
34DAP/26DAP	0.53854	0.067
51DAP/34DAP	1.32169
52DAP/51DAP	1.49763	0.367
53DAP/52DAP	0.95899	0.854
55DAP/53DAP	1.18057	0.922
57DAP/55DAP	0.86551	0.499
62DAP/57DAP	0.9947	0.994
68DAP/62DAP	1.03461	0.944
68DAP/14DAP	1.13285	0.915

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.57497	0.018

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.02619	1
Mature Green Tomato/Ripe Tomato	0.56063	0.02
Immature Eggplant/Mature Eggplant	1.09883	0.58
Ripe Pepper/Ripe Tomato	0.24975	0.224
Mature Eggplant/Ripe Tomato	0.52709	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10132	0.591
1-1-2/M82	1.02713	1
12-2/M82	1.39214	1
12-4/M82	0.79539	1
1-3/M82	1.32601
2-1-1/M82	0.60136	0.465
2-1/M82	0.70864	0.322
2-6/M82	1.3604
3-2/M82	N/A	N/A
4-1-1/M82	1.28015	1
4-1/M82	1.33707
4-3-2/M82	1.3234	0.508
4-3/M82	1.32496	0.268
5-3/M82	0.68309	0.419
6-2/M82	1.24092	1
6-3/M82	0.93008	1
7-1/M82	0.59712
7-2/M82	1.38864	0.385
9-3-2/M82	1.12722	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.02064	0.788
IL7-5/WTpooled	0.63018
IL7-3/WTpooled	0.80313	0.294
IL12-4/WTpooled	1.05299	0.785
IL1-4/WTpooled	0.91037	0.457
WT/WTpooled	1.04819	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	1.09526	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.16266	0.758
DC3000/delta hrp 6h	1.07921	1
DC3000/delta hrp 12h	1.36705	1
DC3000/delta hrp 24h	0.74246	0.048

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.39805	0.06
DC3000 delta B/DC3000 delta AB	1.18631	0.206

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.24666	1
Exp 36h	1.39931	1
Exp 60h	1.34815	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01047	1
Var 0h	0.87524	0.261
Var 12h I row2-row1	1.10891	0.506
Var 12h NI row2-row1	0.95145	0.546
Var 36h I row2-row1	1.16759	0.309
Var 36h NI row2-row1	1.27575	0.276
Var 60h I row2-row1	0.83835	0.439
Var 60h NI row2-row1	0.9984	1
Time course 0hI-0hNI	1.04058	0.852
Time course 12hI-12hNI	1.09432	0.213
Time course 36hI-36hNI	1.22291	0.006
Time course 60hI-60hNI	0.94178	0.319

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)	1.01984	0.798
transgenic ySAMdc/azygous control (breaker)	0.44583	0.129
transgenic ySAMdc/azygous control (red)	1.11884	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.28879	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.7908	1
Manapal/WT (break)	0.66079	0.333
Manapal/WT (red)	0.52222	0.181