Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.1.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10515	0.947
27DAP/17DAP	0.88759	0.725
39DAP/27DAP	1.45572	0.173
41DAP/39DAP	0.7826	0.27
42DAP/41DAP	1.13388	0.978
43DAP/42DAP	0.9139	0.799
47DAP/43DAP	0.96943	0.835
52DAP/47DAP	1.03256	0.916
57DAP/52DAP	1.38374	0.694

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85367	0.077
17DAP/reference	0.84809	0.111
27DAP/reference	1.01024	1
39DAP/reference	0.89105	0.088
41DAP/reference	0.89981	0.267
42DAP/reference	0.93133	0.111
43DAP/reference	0.91297	0.143
47DAP/reference	1.01713	1
52DAP/reference	1.17246	0.256
57DAP/reference	1.18893	0.049

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0277	0.826
27DAP/17DAP	0.86377	0.195
39DAP/27DAP	0.87	0.377
41DAP/39DAP	0.90802	0.764
42DAP/41DAP	1.1086	0.46
43DAP/42DAP	0.91656	0.321
47DAP/43DAP	0.86439	0.122
52DAP/47DAP	0.7618	0.047
57DAP/52DAP	0.80746	0.324
57DAP/7DAP	0.73061	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04359	0.65
17DAP/reference	0.9534	0.389
27DAP/reference	0.89148	0.051
39DAP/reference	1.09362	0.351
41DAP/reference	0.94473	0.394
42DAP/reference	0.81407	0.058
43DAP/reference	0.98586	0.527
47DAP/reference	1.11796	0.659
52DAP/reference	1.02974	0.941
57DAP/reference	0.98852	0.589

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96333	0.607
17DAP/reference	0.80957	0.014
27DAP/reference	1.17631	0.254
39DAP/reference	1.04746	1
41DAP/reference	1.06341	0.705
42DAP/reference	1.11522	0.455
43DAP/reference	0.94894	0.438
47DAP/reference	0.93171	0.221
52DAP/reference	0.91571	0.078
57DAP/reference	0.92306	0.243

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96021	0.311
17DAP/reference	0.91634	0.417
27DAP/reference	1.07984	0.596
39DAP/reference	0.871	0.043
41DAP/reference	0.85959	0.148
42DAP/reference	1.07957	0.589
43DAP/reference	0.92833	0.281
47DAP/reference	0.84963	0.191
52DAP/reference	1.70768	0.779
57DAP/reference	1.13152	0.706

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07723	0.966
26DAP/20DAP	1.08655	0.707
34DAP/26DAP	1.02122	1
51DAP/34DAP	1.14787	0.215
52DAP/51DAP	0.84541	1
53DAP/52DAP	0.99465	0.924
55DAP/53DAP	0.69302	0.111
57DAP/55DAP	1.18531	0.745
62DAP/57DAP	1.26602	0.902
68DAP/62DAP	1.64835	0.1
68DAP/14DAP	2.46136	0.024

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.72872	0.059

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.56246	0.112
Mature Green Tomato/Ripe Tomato	1.47357	0.053
Immature Eggplant/Mature Eggplant	2.0892	0.05
Ripe Pepper/Ripe Tomato	1.23546	1
Mature Eggplant/Ripe Tomato	0.68278	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05196	1
1-1-2/M82	1.2239	1
12-2/M82	1.05678	1
12-4/M82	0.7058	0.358
1-3/M82	1.1306	1
2-1-1/M82	0.96433	1
2-1/M82	1.00417	1
2-6/M82	0.82537	1
3-2/M82	1.41303
4-1-1/M82	0.9715	1
4-1/M82	1.20977
4-3-2/M82	1.0349
4-3/M82	1.22821	0.268
5-3/M82	0.83456	0.642
6-2/M82	0.78458	0.497
6-3/M82	0.96464	1
7-1/M82	1.0838	0.598
7-2/M82	1.12054	1
9-3-2/M82	0.8671

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.14304	1
IL2-6/WTpooled	0.7606	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.09654	1
IL12-4/WTpooled	0.93119	0.581
IL1-4/WTpooled	1.14495	1
WT/WTpooled	1.01675	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	1.0229	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00273	1
DC3000/delta hrp 6h	0.85855	0.95
DC3000/delta hrp 12h	1.01916	1
DC3000/delta hrp 24h	1.10705	0.411

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.66882	0.028
DC3000 delta B/DC3000 delta AB	0.59863	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.36774	1
Exp 36h	1.07928	1
Exp 60h	1.39007	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03723	1
Var 0h	1.16172	0.98
Var 12h I row2-row1	1.13332	1
Var 12h NI row2-row1	0.96234	0.713
Var 36h I row2-row1	1.02109	1
Var 36h NI row2-row1	1.1999	0.253
Var 60h I row2-row1	1.06488	0.562
Var 60h NI row2-row1	1.01613	1
Time course 0hI-0hNI	0.99156	1
Time course 12hI-12hNI	1.01979	0.811
Time course 36hI-36hNI	0.97153	0.403
Time course 60hI-60hNI	0.21683	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)	1.14214	0.294
transgenic ySAMdc/azygous control (breaker)	0.73936	0.131
transgenic ySAMdc/azygous control (red)	0.73259	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99776	0.886

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07938	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81317	0.172
Manapal/WT (break)	1.01298	1
Manapal/WT (red)	0.77251	0.181