Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.19.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05962	0.847
27DAP/17DAP	0.57481	0.118
39DAP/27DAP	1.43147	0.708
41DAP/39DAP	1.02797	0.939
42DAP/41DAP	1.11504	1
43DAP/42DAP	1.05817	0.925
47DAP/43DAP	0.98568	0.926
52DAP/47DAP	0.8112	0.526
57DAP/52DAP	1.15984	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78214	0.034
17DAP/reference	0.82744	0.026
27DAP/reference	0.86425	0.134
39DAP/reference	0.85161	0.146
41DAP/reference	0.78869	0.008
42DAP/reference	0.99952	0.587
43DAP/reference	0.8919	0.043
47DAP/reference	0.90369	0.071
52DAP/reference	0.91467	0.258
57DAP/reference	1.04031	0.724

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09322	0.719
27DAP/17DAP	1.13099	0.685
39DAP/27DAP	0.99524	1
41DAP/39DAP	1.17427	0.641
42DAP/41DAP	1.01537	0.929
43DAP/42DAP	0.7837	0.03
47DAP/43DAP	1.10627	0.758
52DAP/47DAP	1.12711	0.589
57DAP/52DAP	1.17016	0.346
57DAP/7DAP	1.24309	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10325	0.452
17DAP/reference	1.11976	0.134
27DAP/reference	0.87687	0.171
39DAP/reference	1.00429	1
41DAP/reference	0.99536	0.677
42DAP/reference	0.813	0.024
43DAP/reference	1.04869	0.788
47DAP/reference	1.11188	0.582
52DAP/reference	1.07151	0.308
57DAP/reference	1.35122	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74034	0.007
17DAP/reference	0.73548	0.004
27DAP/reference	0.73406	0.028
39DAP/reference	0.79899	0.018
41DAP/reference	0.89087	0.103
42DAP/reference	0.93189	0.289
43DAP/reference	0.88696	0.206
47DAP/reference	0.99824	0.714
52DAP/reference	0.80728	0.007
57DAP/reference	0.64057	0.003

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88099	0.183
17DAP/reference	1.28111	0.898
27DAP/reference	0.94094	0.218
39DAP/reference	0.89433	0.163
41DAP/reference	1.07654	0.657
42DAP/reference	0.83634	0.108
43DAP/reference	1.25127	0.459
47DAP/reference	0.7816	0.016
52DAP/reference	0.88487	0.342
57DAP/reference	1.14436	0.132

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.31202	0.966
26DAP/20DAP	1.5991	0.099
34DAP/26DAP	1.23888	0.542
51DAP/34DAP	5.20974	0.022
52DAP/51DAP	0.81321	0.151
53DAP/52DAP	1.77778	0.051
55DAP/53DAP	1.43479	0.055
57DAP/55DAP	1.51019	0.584
62DAP/57DAP	0.27297	0.002
68DAP/62DAP	1.35124	0.31
68DAP/14DAP	1.93653	0.041

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.15287	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.29087	0.073
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.81028	0.069
Ripe Pepper/Ripe Tomato	922.064	1
Mature Eggplant/Ripe Tomato	14.166	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	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	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.90585	0.321
IL2-6/WTpooled	0.82592	0.473
IL7-5/WTpooled	1.03266	0.792
IL7-3/WTpooled	1.04178	1
IL12-4/WTpooled	1.05801	0.785
IL1-4/WTpooled	0.91399	0.457
WT/WTpooled	1.1207	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	1.3409	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.89635	0.839
DC3000/delta hrp 6h	1.04563	1
DC3000/delta hrp 12h	1.00849	1
DC3000/delta hrp 24h	1.17426	0.535

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.91511
DC3000 delta B/DC3000 delta AB	0.78895

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0747	1
Exp 36h	0.74325	0.471
Exp 60h	0.70039	0.253

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0126	1
Var 0h	1.13546	0.98
Var 12h I row2-row1	1.16643	0.348
Var 12h NI row2-row1	1.0316	1
Var 36h I row2-row1	0.98026	1
Var 36h NI row2-row1	1.1131	1
Var 60h I row2-row1	0.67271	0.285
Var 60h NI row2-row1	0.96198	1
Time course 0hI-0hNI	1.008	1
Time course 12hI-12hNI	1.06901	0.811
Time course 36hI-36hNI	1.50777	0.355
Time course 60hI-60hNI	5.01877	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)	0.9392	0.614
transgenic ySAMdc/azygous control (breaker)	2.79707	0.172
transgenic ySAMdc/azygous control (red)	0.95229	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.7172	0.14

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.09848	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	11.7891	0.083
Manapal/WT (break)	5.67671	0.123
Manapal/WT (red)	N/A	N/A