Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.20.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10388	0.977
27DAP/17DAP	1.20333	0.845
39DAP/27DAP	0.93972	0.62
41DAP/39DAP	1.09558	0.822
42DAP/41DAP	0.89835	1
43DAP/42DAP	1.07498	1
47DAP/43DAP	1.14604	0.746
52DAP/47DAP	1.00052	0.845
57DAP/52DAP	1.07005	0.962

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9462	0.39
17DAP/reference	1.09376	0.193
27DAP/reference	1.02496	0.831
39DAP/reference	1.15829	0.067
41DAP/reference	1.02212	0.91
42DAP/reference	0.95096	0.088
43DAP/reference	1.04644	0.403
47DAP/reference	0.94236	0.137
52DAP/reference	0.93701	0.33
57DAP/reference	0.90235	0.082

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04756	0.947
27DAP/17DAP	1.38598	0.156
39DAP/27DAP	1.17746	0.925
41DAP/39DAP	0.63576	0.013
42DAP/41DAP	1.53069	0.009
43DAP/42DAP	2.30445	0.013
47DAP/43DAP	0.96352	0.757
52DAP/47DAP	1.39601	0.241
57DAP/52DAP	0.93179	0.632
57DAP/7DAP	1.78984

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81401	0.078
17DAP/reference	0.72525	0.012
27DAP/reference	0.79356	0.011
39DAP/reference	0.71814	0.012
41DAP/reference	0.76567	0.025
42DAP/reference	0.68431	0.01
43DAP/reference	0.69138	0.013
47DAP/reference	0.92472	0.504
52DAP/reference	0.67389	0.011
57DAP/reference	0.70139	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11525	0.127
17DAP/reference	0.94872	0.41
27DAP/reference	0.89807	0.115
39DAP/reference	0.92756	0.33
41DAP/reference	0.81873	0.052
42DAP/reference	0.87885	0.073
43DAP/reference	1.06965	0.681
47DAP/reference	1.02443	0.712
52DAP/reference	1.02465	0.882
57DAP/reference	1.08855	0.277

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79702	0.04
17DAP/reference	0.90382	0.281
27DAP/reference	0.75841	0.032
39DAP/reference	0.74437	0.025
41DAP/reference	0.76194	0.02
42DAP/reference	0.68489	0.016
43DAP/reference	0.73892	0.027
47DAP/reference	1.10474	0.12
52DAP/reference	0.79046	0.174
57DAP/reference	0.75481	0.042

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13409	0.966
26DAP/20DAP	0.76111	0.512
34DAP/26DAP	0.58598
51DAP/34DAP	1.28941	0.719
52DAP/51DAP	1.03584	1
53DAP/52DAP	1.58287	0.121
55DAP/53DAP	1.0781	0.927
57DAP/55DAP	1.09072	0.301
62DAP/57DAP	1.06364	0.833
68DAP/62DAP	1.43254	0.037
68DAP/14DAP	1.08866	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.07078	0.064

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.77183	0.23
Mature Green Tomato/Ripe Tomato	0.90361	0.487
Immature Eggplant/Mature Eggplant	0.80179	0.096
Ripe Pepper/Ripe Tomato	0.72238	0.224
Mature Eggplant/Ripe Tomato	0.39958	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.77986	0.883
1-1-2/M82	0.98042	1
12-2/M82	1.24824
12-4/M82	0.98799	1
1-3/M82	0.90356	1
2-1-1/M82	0.85165	0.465
2-1/M82	0.65655	0.345
2-6/M82	0.83475	1
3-2/M82	1.11254	0.84
4-1-1/M82	0.81292	0.962
4-1/M82	0.49165	1
4-3-2/M82	0.92335	1
4-3/M82	0.74742	0.611
5-3/M82	0.8289	0.395
6-2/M82	0.85138
6-3/M82	1.21269	1
7-1/M82	1.11045	0.741
7-2/M82	0.8995	0.881
9-3-2/M82	0.918	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92868	0.247
IL2-6/WTpooled	1.07547	0.659
IL7-5/WTpooled	1.17479	0.792
IL7-3/WTpooled	1.0779	1
IL12-4/WTpooled	1.08736	0.673
IL1-4/WTpooled	0.94101	1
WT/WTpooled	1.08752	0.957

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	1.31444	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.17014	0.921
DC3000/delta hrp 6h	1.02418	0.95
DC3000/delta hrp 12h	1.09454	1
DC3000/delta hrp 24h	0.91939	0.455

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	1.33481

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.81325	1
Exp 36h	0.83007	0.623
Exp 60h	0.78962	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99657	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.81829	0.654
Var 12h NI row2-row1	1.10677	1
Var 36h I row2-row1	0.89739	0.575
Var 36h NI row2-row1	0.6567	0.852
Var 60h I row2-row1	1.15545	0.562
Var 60h NI row2-row1	1.30962	0.904
Time course 0hI-0hNI	1.04864	0.833
Time course 12hI-12hNI	0.7941	0.038
Time course 36hI-36hNI	0.49521	0.023
Time course 60hI-60hNI	0.38937	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)	0.91282	0.348
transgenic ySAMdc/azygous control (breaker)	0.60063	0.125
transgenic ySAMdc/azygous control (red)	0.99349	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99415	0.712

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00577	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.61358	0.172
Manapal/WT (break)	0.73267	0.333
Manapal/WT (red)	0.34271	0.181