Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.9.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00104	0.911
27DAP/17DAP	1.43585	0.622
39DAP/27DAP	0.8547	0.522
41DAP/39DAP	1.34072	0.225
42DAP/41DAP	1.44171	0.595
43DAP/42DAP	0.84703	0.765
47DAP/43DAP	1.23274	0.668
52DAP/47DAP	1.10078	0.993
57DAP/52DAP	1.02477	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96779	0.513
17DAP/reference	0.99397	0.858
27DAP/reference	0.97627	0.538
39DAP/reference	0.97318	0.587
41DAP/reference	1.02987	0.624
42DAP/reference	0.88951	0.007
43DAP/reference	1.00994	0.957
47DAP/reference	0.89016	0.019
52DAP/reference	0.78498	0.046
57DAP/reference	0.78911	0.047

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94561	0.442
27DAP/17DAP	0.93711	0.446
39DAP/27DAP	1.0013	1
41DAP/39DAP	1.03382	0.799
42DAP/41DAP	1.01915	0.927
43DAP/42DAP	1.02524	0.382
47DAP/43DAP	0.96728	0.743
52DAP/47DAP	1.07716	0.779
57DAP/52DAP	0.96319	0.555
57DAP/7DAP	1.09457

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87129	0.078
17DAP/reference	0.87965	0.015
27DAP/reference	0.84443	0.01
39DAP/reference	0.84242	0.011
41DAP/reference	0.8116	0.013
42DAP/reference	0.76696	0.01
43DAP/reference	0.77102	0.012
47DAP/reference	0.81853	0.04
52DAP/reference	0.74171	0.016
57DAP/reference	0.7776	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12027	0.156
17DAP/reference	1.07955	0.257
27DAP/reference	0.83872	0.22
39DAP/reference	0.9266	0.322
41DAP/reference	0.93051	0.183
42DAP/reference	0.82234	0.013
43DAP/reference	1.18375	0.037
47DAP/reference	0.83348	0.01
52DAP/reference	1.06859	0.3
57DAP/reference	1.20147	0.214

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94223	0.335
17DAP/reference	0.99151	0.778
27DAP/reference	0.84503	0.029
39DAP/reference	0.7629	0.006
41DAP/reference	0.83059	0.035
42DAP/reference	0.81938	0.041
43DAP/reference	0.76997	0.057
47DAP/reference	0.96354	0.538
52DAP/reference	0.89966	0.36
57DAP/reference	0.55205	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01246	0.966
26DAP/20DAP	0.89679	0.512
34DAP/26DAP	1.05585	0.819
51DAP/34DAP	0.9487	0.631
52DAP/51DAP	0.95416	1
53DAP/52DAP	1.0939
55DAP/53DAP	0.98929	0.886
57DAP/55DAP	1.25771	0.114
62DAP/57DAP	1.06458	0.868
68DAP/62DAP	0.90733	0.543
68DAP/14DAP	0.61513	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.10025	0.131

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.07514	0.752
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.73893	0.293
Mature Eggplant/Ripe Tomato	0.51264	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98176	0.961
1-1-2/M82	0.86382
12-2/M82	1.06049	1
12-4/M82	1.20014	0.563
1-3/M82	0.89514	0.378
2-1-1/M82	0.95239	0.92
2-1/M82	1.02299
2-6/M82	1.1193	0.505
3-2/M82	1.00433
4-1-1/M82	1.00093	1
4-1/M82	1.11163
4-3-2/M82	0.86305
4-3/M82	0.8168	0.611
5-3/M82	0.99167	1
6-2/M82	0.91438	1
6-3/M82	0.97559	1
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	0.90155
IL2-6/WTpooled	1.36719
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.12778	1
IL12-4/WTpooled	1.01594	1
IL1-4/WTpooled	0.83878	0.562
WT/WTpooled	1.02343	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	1.10958	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98719	1
DC3000/delta hrp 6h	0.95607	0.95
DC3000/delta hrp 12h	1.21428	1
DC3000/delta hrp 24h	1.09355	0.283

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05211	0.408
DC3000 delta B/DC3000 delta AB	1.19074	0.321

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9971	1
Exp 36h	1.13959	0.693
Exp 60h	1.14308	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00879	1
Var 0h	1.41332	0.98
Var 12h I row2-row1	1.06856	0.443
Var 12h NI row2-row1	0.89748	0.488
Var 36h I row2-row1	0.92954	1
Var 36h NI row2-row1	0.98048	0.706
Var 60h I row2-row1	1.24977	0.562
Var 60h NI row2-row1	1.20919	0.904
Time course 0hI-0hNI	1.09705	0.662
Time course 12hI-12hNI	1.05123	0.747
Time course 36hI-36hNI	1.00068	0.89
Time course 60hI-60hNI	1.07632	0.042

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)	0.91901	0.324
transgenic ySAMdc/azygous control (breaker)	0.76344	0.134
transgenic ySAMdc/azygous control (red)	0.95207	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01179	0.525

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85174	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87253	1
Manapal/WT (break)	0.84609	0.333
Manapal/WT (red)	0.94064	0.607