Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.20.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25122	0.602
27DAP/17DAP	1.33272	0.681
39DAP/27DAP	1.29327	0.732
41DAP/39DAP	1.94544	0.511
42DAP/41DAP	3.21906	0.042
43DAP/42DAP	1.68794	0.91
47DAP/43DAP	0.58043	0.086
52DAP/47DAP	1.00078	0.873
57DAP/52DAP	1.07487	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85152	0.078
17DAP/reference	1.077	0.239
27DAP/reference	0.89701	0.304
39DAP/reference	0.96284	0.575
41DAP/reference	1.25072	0.171
42DAP/reference	1.1637	0.166
43DAP/reference	0.95311
47DAP/reference	1.05831	0.989
52DAP/reference	1.15902	1
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31726	0.154
27DAP/17DAP	1.08144	0.887
39DAP/27DAP	3.05609	0.044
41DAP/39DAP	2.73917	0.006
42DAP/41DAP	1.3186	0.241
43DAP/42DAP	0.87331	0.351
47DAP/43DAP	4.21322	0.013
52DAP/47DAP	0.77585	0.433
57DAP/52DAP	2.60501	0.029
57DAP/7DAP	42.9614	0.22

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.74016	0.097
17DAP/reference	1.24603	0.134
27DAP/reference	1.24882	0.246
39DAP/reference	1.61485	0.018
41DAP/reference	1.11324	0.27
42DAP/reference	1.54198	0.018
43DAP/reference	1.83818	0.07
47DAP/reference	2.07557	0.025
52DAP/reference	1.82184	0.012
57DAP/reference	1.411	0.057

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89652	0.342
17DAP/reference	0.77552	0.024
27DAP/reference	1.01985	1
39DAP/reference	1.04959	0.702
41DAP/reference	0.95038
42DAP/reference	1.00418
43DAP/reference	1.32325	0.124
47DAP/reference	0.06656
52DAP/reference	0.90346	0.111
57DAP/reference	2.29236	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93765	0.311
17DAP/reference	0.92736	0.308
27DAP/reference	1.16561	0.171
39DAP/reference	1.03063	0.711
41DAP/reference	1.05916	0.777
42DAP/reference	0.97039	0.671
43DAP/reference	1.02106	0.614
47DAP/reference	0.78678	0.049
52DAP/reference	1.07031	0.813
57DAP/reference	1.28192	0.814

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03619	1
26DAP/20DAP	0.87964
34DAP/26DAP	0.82579	0.565
51DAP/34DAP	0.75373	0.369
52DAP/51DAP	0.61499
53DAP/52DAP	1.9096	0.489
55DAP/53DAP	1.47606	0.375
57DAP/55DAP	0.96623	0.855
62DAP/57DAP	0.45959	0.016
68DAP/62DAP	1.29489	0.17
68DAP/14DAP	1.30178	0.328

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	17.5625	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.51827	0.027
Immature Eggplant/Mature Eggplant	3.54281	0.05
Ripe Pepper/Ripe Tomato	0.18444	0.224
Mature Eggplant/Ripe Tomato	0.49404	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99255	1
1-1-2/M82	1.09899	1
12-2/M82	1.95507	0.61
12-4/M82	1.05075	1
1-3/M82	1.54299
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.80265	0.501
3-2/M82	1.05234
4-1-1/M82	0.7797
4-1/M82	1.66364	0.295
4-3-2/M82	1.62977	0.241
4-3/M82	0.49718	0.509
5-3/M82	1.53791	0.496
6-2/M82	N/A	N/A
6-3/M82	1.01868	1
7-1/M82	2.08813
7-2/M82	0.8601	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.89954	1
IL2-6/WTpooled	1.12025	0.788
IL7-5/WTpooled	0.84444	1
IL7-3/WTpooled	1.1561	1
IL12-4/WTpooled	1.02367	0.891
IL1-4/WTpooled	1.05278	1
WT/WTpooled	0.874	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	1.52262	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.15263	0.921
DC3000/delta hrp 6h	1.33505	1
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.93332	0.503

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.83401	0.045
DC3000 delta B/DC3000 delta AB	2.51019	0.077

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02556	1
Exp 36h	2.35553	0.489
Exp 60h	2.24929	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03343	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.12393	0.613
Var 12h NI row2-row1	1.68291	0.34
Var 36h I row2-row1	0.65673	0.805
Var 36h NI row2-row1	0.79611	0.469
Var 60h I row2-row1	0.72181	0.306
Var 60h NI row2-row1	0.95838	1
Time course 0hI-0hNI	1.21315	0.344
Time course 12hI-12hNI	1.25746	0.164
Time course 36hI-36hNI	3.85469	0.004
Time course 60hI-60hNI	42.5421	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)	1.14861	0.408
transgenic ySAMdc/azygous control (breaker)	0.90424	0.49
transgenic ySAMdc/azygous control (red)	1.27955	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9185	0.133

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.95964	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88726	1
Manapal/WT (break)	0.8248	1
Manapal/WT (red)	0.27211	0.229