Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.19.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10146	0.964
27DAP/17DAP	1.05716	1
39DAP/27DAP	1.76931	0.047
41DAP/39DAP	0.73004	0.212
42DAP/41DAP	1.32444	0.825
43DAP/42DAP	1.56293	0.985
47DAP/43DAP	0.48848	0.057
52DAP/47DAP	1.08232	0.856
57DAP/52DAP	1.65241	0.886

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.44519	0.012
17DAP/reference	1.37884	0.653
27DAP/reference	1.17009	0.161
39DAP/reference	1.34104	0.504
41DAP/reference	1.12548	1
42DAP/reference	4.88348	0.002
43DAP/reference	N/A	N/A
47DAP/reference	2.03206	0.161
52DAP/reference	0.94075	0.475
57DAP/reference	1.89728

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.4709	0.055
27DAP/17DAP	1.10055	0.69
39DAP/27DAP	0.93871	0.572
41DAP/39DAP	1.5073	0.868
42DAP/41DAP	1.55611	0.291
43DAP/42DAP	1.06685	0.324
47DAP/43DAP	1.01214	0.956
52DAP/47DAP	0.85895	0.203
57DAP/52DAP	0.91456	0.395
57DAP/7DAP	1.14857	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.95358	0.024
17DAP/reference	1.8329	0.006
27DAP/reference	1.3859	0.007
39DAP/reference	1.3636	0.04
41DAP/reference	1.40978	0.011
42DAP/reference	1.87859	0.007
43DAP/reference	2.37292	0.007
47DAP/reference	4.82562	0.014
52DAP/reference	2.60846	0.007
57DAP/reference	2.30429	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31291	0.246
17DAP/reference	2.50621	0.007
27DAP/reference	2.04967	0.029
39DAP/reference	1.66542	0.044
41DAP/reference	1.92283	0.005
42DAP/reference	2.37055	0.007
43DAP/reference	1.71133	0.101
47DAP/reference	2.13763	0.008
52DAP/reference	1.40921	0.008
57DAP/reference	1.79094	0.013

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26324	0.185
17DAP/reference	1.44487	0.136
27DAP/reference	1.13003	0.188
39DAP/reference	1.51524	0.005
41DAP/reference	1.27982	0.011
42DAP/reference	3.11759	0.007
43DAP/reference	2.27473	0.006
47DAP/reference	1.42979	0.031
52DAP/reference	1.58798	0.043
57DAP/reference	1.83385	0.007

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07949	0.966
26DAP/20DAP	2.71898	0.129
34DAP/26DAP	0.67638	0.18
51DAP/34DAP	1.49966	0.281
52DAP/51DAP	0.98903	1
53DAP/52DAP	0.62869	0.049
55DAP/53DAP	0.41902	0.016
57DAP/55DAP	0.90557	0.577
62DAP/57DAP	1.21388	0.868
68DAP/62DAP	1.19994	0.689
68DAP/14DAP	1.99204	0.578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	8.33392	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	1.68812	0.363
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.37004
Mature Eggplant/Ripe Tomato	0.64679	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.85854	0.907
1-1-2/M82	1.31888	1
12-2/M82	0.761	0.955
12-4/M82	1.63626	1
1-3/M82	2.3337	0.277
2-1-1/M82	1.06066	0.764
2-1/M82	0.63459	0.519
2-6/M82	1.33094	0.405
3-2/M82	1.33941	0.426
4-1-1/M82	2.42093	1
4-1/M82	1.05951
4-3-2/M82	1.90416	0.508
4-3/M82	1.37503	0.268
5-3/M82	0.98635	1
6-2/M82	2.36017	1
6-3/M82	0.92256	1
7-1/M82	1.06786	0.925
7-2/M82	2.03308	0.385
9-3-2/M82	2.12281	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.10487	0.277
IL2-6/WTpooled	0.6901	0.383
IL7-5/WTpooled	1.08903	0.792
IL7-3/WTpooled	1.30739	1
IL12-4/WTpooled	1.0137	1
IL1-4/WTpooled	1.10648	1
WT/WTpooled	1.00377	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	0.94143	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93772	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.38113	1
DC3000/delta hrp 24h	0.63437	0.039

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.6979	0.024
DC3000 delta B/DC3000 delta AB	0.73691	0.027

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00565	1
Var 0h	1.23726	0.594
Var 12h I row2-row1	1.12908	1
Var 12h NI row2-row1	1.23368	0.649
Var 36h I row2-row1	1.11353	1
Var 36h NI row2-row1	1.79657	1
Var 60h I row2-row1	0.93003	0.832
Var 60h NI row2-row1	0.96209	1
Time course 0hI-0hNI	1.25523	0.246
Time course 12hI-12hNI	0.91946	0.309
Time course 36hI-36hNI	0.55847	0.023
Time course 60hI-60hNI	0.36286	0.005

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)	1.21618	0.408
transgenic ySAMdc/azygous control (breaker)	0.51798	0.173
transgenic ySAMdc/azygous control (red)	0.93224	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94733	0.133

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.77235	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.97853	1
Manapal/WT (red)	0.93539	0.607