Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.11.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91916	0.543
27DAP/17DAP	1.01938	1
39DAP/27DAP	0.84781	0.482
41DAP/39DAP	2.33811	0.212
42DAP/41DAP	1.14353	0.978
43DAP/42DAP	1.12545	0.949
47DAP/43DAP	0.95776	0.821
52DAP/47DAP	1.26061	0.538
57DAP/52DAP	1.02193	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.949	0.362
17DAP/reference	1.0108	0.653
27DAP/reference	0.96102	0.349
39DAP/reference	1.01097	0.771
41DAP/reference	0.99944	1
42DAP/reference	0.85113	0.003
43DAP/reference	1.0036	1
47DAP/reference	0.8598	0.006
52DAP/reference	0.74057	0.017
57DAP/reference	0.8214	0.034

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8534	0.148
27DAP/17DAP	1.03192	0.928
39DAP/27DAP	1.02636	0.793
41DAP/39DAP	1.03223	1
42DAP/41DAP	1.03043	0.927
43DAP/42DAP	1.09808	0.176
47DAP/43DAP	1.05107	0.817
52DAP/47DAP	0.98245	0.913
57DAP/52DAP	0.98991	0.823
57DAP/7DAP	1.08396	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76741	0.058
17DAP/reference	0.81034	0.011
27DAP/reference	0.78025	0.01
39DAP/reference	0.87933	0.015
41DAP/reference	0.8524	0.011
42DAP/reference	0.84728	0.017
43DAP/reference	0.81834	0.019
47DAP/reference	0.80721	0.101
52DAP/reference	0.85037	0.043
57DAP/reference	0.86024	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97938	0.72
17DAP/reference	0.94791	0.26
27DAP/reference	1.04116	0.663
39DAP/reference	0.8132	0.072
41DAP/reference	0.82367	0.071
42DAP/reference	0.82634	0.012
43DAP/reference	0.99484	0.774
47DAP/reference	0.91564	0.09
52DAP/reference	0.94182	0.22
57DAP/reference	1.01447	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83983	0.054
17DAP/reference	0.95915	0.537
27DAP/reference	0.87556	0.067
39DAP/reference	0.76168	0.011
41DAP/reference	0.84199	0.058
42DAP/reference	0.66416	0.018
43DAP/reference	0.73513	0.043
47DAP/reference	0.8982	0.207
52DAP/reference	0.80933	0.137
57DAP/reference	0.45348	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08774	0.945
26DAP/20DAP	0.92943	0.512
34DAP/26DAP	1.09073	0.819
51DAP/34DAP	1.02968	0.84
52DAP/51DAP	1.01871	0.86
53DAP/52DAP	1.04385	0.819
55DAP/53DAP	1.04945	0.562
57DAP/55DAP	0.9746	0.855
62DAP/57DAP	1.01801	1
68DAP/62DAP	1.19409	0.792
68DAP/14DAP	0.94251	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96657	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.79812	0.256
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.18399	0.224
Mature Eggplant/Ripe Tomato	0.32031	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99131	1
1-1-2/M82	0.95957	0.958
12-2/M82	1.1297	1
12-4/M82	0.93695	1
1-3/M82	0.86418	0.501
2-1-1/M82	1.06562	0.689
2-1/M82	1.29447
2-6/M82	1.09495	0.339
3-2/M82	0.94426	1
4-1-1/M82	0.96251	1
4-1/M82	0.93447	1
4-3-2/M82	0.87541	1
4-3/M82	0.95263	1
5-3/M82	0.93315	0.642
6-2/M82	1.03987	1
6-3/M82	1.09481	1
7-1/M82	0.95418	1
7-2/M82	1.12802	1
9-3-2/M82	0.8797	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.81613	0.358
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.98566	1
IL12-4/WTpooled	1.08322	1
IL1-4/WTpooled	0.91632	0.699
WT/WTpooled	0.93075	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	1.30695	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93075	0.941
DC3000/delta hrp 6h	0.77488	0.95
DC3000/delta hrp 12h	1.14617	1
DC3000/delta hrp 24h	1.05746	0.71

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.9793	0.955
DC3000 delta B/DC3000 delta AB	1.06632	0.468

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06321	1
Exp 36h	1.59768	0.693
Exp 60h	1.69935	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00581	1
Var 0h	1.06735	0.98
Var 12h I row2-row1	1.20744	0.272
Var 12h NI row2-row1	0.96043	0.906
Var 36h I row2-row1	0.82478	0.805
Var 36h NI row2-row1	0.96853	0.791
Var 60h I row2-row1	2.3762	1
Var 60h NI row2-row1	1.22881	0.904
Time course 0hI-0hNI	1.12295	0.662
Time course 12hI-12hNI	1.07698	0.654
Time course 36hI-36hNI	1.0707	0.218
Time course 60hI-60hNI	1.57654	0.008

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)	1.34409	0.455
transgenic ySAMdc/azygous control (breaker)	0.44568	0.125
transgenic ySAMdc/azygous control (red)	0.97768	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97687	0.126

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.95209	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.86864	1
Manapal/WT (break)	0.90919	1
Manapal/WT (red)	0.59459	0.187