Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-6.1.6.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13793	0.786
27DAP/17DAP	1.12964	0.845
39DAP/27DAP	0.7607	0.402
41DAP/39DAP	1.43055	0.288
42DAP/41DAP	1.03695	1
43DAP/42DAP	0.96605	0.91
47DAP/43DAP	1.26402	0.234
52DAP/47DAP	1.18556	0.736
57DAP/52DAP	0.98212	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01621	0.872
17DAP/reference	1.0406	0.492
27DAP/reference	1.08187	0.194
39DAP/reference	1.0196	0.664
41DAP/reference	1.01989	0.855
42DAP/reference	0.95598	0.103
43DAP/reference	0.9367	0.448
47DAP/reference	0.97349	0.366
52DAP/reference	0.92288	0.341
57DAP/reference	0.91606	0.277

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.24299	0.515
27DAP/17DAP	1.03736	0.951
39DAP/27DAP	0.9029	0.194
41DAP/39DAP	1.03178	0.895
42DAP/41DAP	0.87364	0.167
43DAP/42DAP	1.15519	0.25
47DAP/43DAP	0.91633	0.569
52DAP/47DAP	1.07965	0.749
57DAP/52DAP	0.94516	0.617
57DAP/7DAP	2.07095	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.404	0.026
17DAP/reference	1.88455	0.006
27DAP/reference	1.74245	0.01
39DAP/reference	1.49404	0.026
41DAP/reference	1.34868	0.041
42DAP/reference	1.26533	0.174
43DAP/reference	1.14508	0.241
47DAP/reference	1.00118	1
52DAP/reference	1.25606	0.01
57DAP/reference	1.12207	0.043

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00914	0.933
17DAP/reference	0.96593	0.378
27DAP/reference	0.93801	0.327
39DAP/reference	0.96102	0.314
41DAP/reference	0.82699	0.089
42DAP/reference	1.06725	0.915
43DAP/reference	0.8419	0.114
47DAP/reference	1.05477	0.301
52DAP/reference	0.9795	0.407
57DAP/reference	1.0529	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34433	0.027
17DAP/reference	1.20637	0.237
27DAP/reference	1.29607	0.025
39DAP/reference	1.23875	0.059
41DAP/reference	1.32463	0.112
42DAP/reference	0.79676	0.108
43DAP/reference	0.89028	0.281
47DAP/reference	0.90577	0.224
52DAP/reference	0.8194	0.319
57DAP/reference	0.74455	0.064

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.987	1
26DAP/20DAP	1.22983	0.62
34DAP/26DAP	0.80121	0.584
51DAP/34DAP	1.17537	0.759
52DAP/51DAP	0.83661	0.151
53DAP/52DAP	1.34532	0.662
55DAP/53DAP	0.80904	0.195
57DAP/55DAP	1.20868	0.818
62DAP/57DAP	N/A	N/A
68DAP/62DAP	0.92982	0.505
68DAP/14DAP	0.79744	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.79333	0.186

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.9775	0.618
Mature Green Tomato/Ripe Tomato	0.93592	0.522
Immature Eggplant/Mature Eggplant	1.11193	0.248
Ripe Pepper/Ripe Tomato	4.52928	1
Mature Eggplant/Ripe Tomato	1.76662	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.00962	N/A
12-2/M82	N/A	N/A
12-4/M82	0.78695	0.274
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	0.98088	1
4-3-2/M82	0.81376	0.487
4-3/M82	N/A	N/A
5-3/M82	0.95364	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	1.1316	N/A
9-3-2/M82	0.78214	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95564	1
IL2-6/WTpooled	0.93564	1
IL7-5/WTpooled	1.07409	1
IL7-3/WTpooled	0.90636	0.418
IL12-4/WTpooled	1.03732	0.839
IL1-4/WTpooled	0.99043	1
WT/WTpooled	1.04755	0.736

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	1.23686	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97599	0.849
DC3000/delta hrp 6h	1.22435	1
DC3000/delta hrp 12h	1.01772	1
DC3000/delta hrp 24h	1.00814	0.84

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.11053	1
Exp 36h	0.97076	0.943
Exp 60h	0.96979	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04304	1
Var 0h	1.1029	0.98
Var 12h I row2-row1	0.96399	0.856
Var 12h NI row2-row1	0.98244	1
Var 36h I row2-row1	0.98326	1
Var 36h NI row2-row1	0.71548	0.791
Var 60h I row2-row1	4.44058	0.562
Var 60h NI row2-row1	0.91204	0.302
Time course 0hI-0hNI	1.01011	1
Time course 12hI-12hNI	0.96996	0.79
Time course 36hI-36hNI	0.91004	0.198
Time course 60hI-60hNI	0.77146	0.047

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)	1.02204	0.699
transgenic ySAMdc/azygous control (breaker)	1.15576	0.248
transgenic ySAMdc/azygous control (red)	0.90684	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03685	0.317

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86001	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.08305	0.307
Manapal/WT (break)	0.70509	0.333
Manapal/WT (red)	0.95806	0.863