Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.12.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10234	0.725
27DAP/17DAP	1.01554	0.92
39DAP/27DAP	0.9486	0.663
41DAP/39DAP	0.95296	0.833
42DAP/41DAP	2.30215	0.021
43DAP/42DAP	0.96029	0.895
47DAP/43DAP	1.88119	0.241
52DAP/47DAP	0.79877	0.479
57DAP/52DAP	1.01337	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2569	0.009
17DAP/reference	1.0837	0.528
27DAP/reference	1.16867	0.252
39DAP/reference	1.24567	0.243
41DAP/reference	1.21923	0.019
42DAP/reference	1.18498	0.035
43DAP/reference	0.97442	0.691
47DAP/reference	0.94281	0.322
52DAP/reference	1.07401	0.388
57DAP/reference	1.21778	0.18

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04161	0.785
27DAP/17DAP	1.04782	0.957
39DAP/27DAP	1.10616	0.526
41DAP/39DAP	0.91924	0.645
42DAP/41DAP	1.33879	0.005
43DAP/42DAP	1.84872	0.018
47DAP/43DAP	1.09083	0.552
52DAP/47DAP	1.21716	0.441
57DAP/52DAP	0.92395	0.591
57DAP/7DAP	1.03666	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91754	0.326
17DAP/reference	1.41202	0.102
27DAP/reference	2.46581	0.012
39DAP/reference	0.8859	0.17
41DAP/reference	0.88984	0.298
42DAP/reference	0.80035	0.016
43DAP/reference	0.78627	0.038
47DAP/reference	0.99794	1
52DAP/reference	0.76431	0.046
57DAP/reference	0.86762	0.042

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85057	0.353
17DAP/reference	0.62826	0.003
27DAP/reference	1.29099	0.303
39DAP/reference	1.00971	0.769
41DAP/reference	1.3684	0.157
42DAP/reference	1.21791	0.259
43DAP/reference	1.12817	0.202
47DAP/reference	1.51359	0.008
52DAP/reference	1.11546	0.988
57DAP/reference	1.04615

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15715	0.338
17DAP/reference	1.18516	0.159
27DAP/reference	1.40595	0.207
39DAP/reference	1.3425	0.055
41DAP/reference	1.56319	0.011
42DAP/reference	1.77894	0.016
43DAP/reference	1.24309	0.439
47DAP/reference	1.26171	0.63
52DAP/reference	1.23642	0.649
57DAP/reference	2.19941	0.008

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.40364
26DAP/20DAP	0.87407	1
34DAP/26DAP	1.25633	0.819
51DAP/34DAP	1.04424	0.883
52DAP/51DAP	1.51361	0.035
53DAP/52DAP	0.82579	0.342
55DAP/53DAP	1.51487	0.061
57DAP/55DAP	0.7411	0.168
62DAP/57DAP	1.2429	0.8
68DAP/62DAP	0.95248	0.81
68DAP/14DAP	2.53078

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.08268	0.527

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.36291	0.021
Immature Eggplant/Mature Eggplant	1.58892
Ripe Pepper/Ripe Tomato	0.2613	0.224
Mature Eggplant/Ripe Tomato	0.62231	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.74046
12-2/M82	N/A	N/A
12-4/M82	1.15715	1
1-3/M82	1.08233
2-1-1/M82	0.81709
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.89803
4-1-1/M82	N/A	N/A
4-1/M82	2.1578
4-3-2/M82	1.30892
4-3/M82	N/A	N/A
5-3/M82	1.24251
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.20306
7-2/M82	0.91601	0.881
9-3-2/M82	0.9908	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.31061	0.277
IL2-6/WTpooled	0.99949	1
IL7-5/WTpooled	0.88657	1
IL7-3/WTpooled	1.21849	1
IL12-4/WTpooled	1.00312	1
IL1-4/WTpooled	1.09672	1
WT/WTpooled	0.95258	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	0.94996	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99087	1
DC3000/delta hrp 6h	0.78544
DC3000/delta hrp 12h	0.77717
DC3000/delta hrp 24h	1.01691	0.797

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.93795	0.66
DC3000 delta B/DC3000 delta AB	1.06507	0.503

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02805	1
Var 0h	1.02	1
Var 12h I row2-row1	0.85215	0.565
Var 12h NI row2-row1	1.07058	1
Var 36h I row2-row1	1.03411	1
Var 36h NI row2-row1	0.56224	0.645
Var 60h I row2-row1	0.9149	0.832
Var 60h NI row2-row1	0.97373	1
Time course 0hI-0hNI	1.06096	0.574
Time course 12hI-12hNI	0.9579	0.612
Time course 36hI-36hNI	1.00421	0.908
Time course 60hI-60hNI	0.9326	0.161

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)	1.24075	0.218
transgenic ySAMdc/azygous control (breaker)	0.90641	1
transgenic ySAMdc/azygous control (red)	0.93405	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.84285	0.034

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.89977	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.76366	1
Manapal/WT (break)	0.95663	1
Manapal/WT (red)	0.85186	0.315