Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.7.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89572	0.503
27DAP/17DAP	2.15083	0.498
39DAP/27DAP	1.09439	1
41DAP/39DAP	1.23456	0.612
42DAP/41DAP	1.12234	0.974
43DAP/42DAP	1.24445	0.785
47DAP/43DAP	0.50772	0.05
52DAP/47DAP	1.36765	0.566
57DAP/52DAP	0.9616	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.54596	0.025
17DAP/reference	0.5366	0.009
27DAP/reference	0.71698	0.098
39DAP/reference	0.70075	0.058
41DAP/reference	0.62445	0.039
42DAP/reference	0.79853	0.01
43DAP/reference	0.88375	0.302
47DAP/reference	0.8361	0.038
52DAP/reference	0.84298	0.131
57DAP/reference	1.09493	0.366

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95739	0.663
27DAP/17DAP	1.01323	1
39DAP/27DAP	0.84005	0.097
41DAP/39DAP	0.85934	0.236
42DAP/41DAP	1.2853	0.836
43DAP/42DAP	1.05858	0.585
47DAP/43DAP	0.92586	0.647
52DAP/47DAP	1.19207	0.568
57DAP/52DAP	1.21724	0.388
57DAP/7DAP	0.87598	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00149	0.682
17DAP/reference	1.09809	0.102
27DAP/reference	0.97356	0.462
39DAP/reference	1.24909	0.012
41DAP/reference	1.05846	0.977
42DAP/reference	0.99871	0.828
43DAP/reference	1.20105	0.093
47DAP/reference	1.01453	1
52DAP/reference	1.16469	0.041
57DAP/reference	1.07547	0.268

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.61896	0.006
17DAP/reference	0.69524	0.026
27DAP/reference	0.72613	0.03
39DAP/reference	0.86171	0.202
41DAP/reference	1.25521	0.416
42DAP/reference	0.84285	0.121
43DAP/reference	0.67099	0.033
47DAP/reference	0.93801	0.328
52DAP/reference	0.68908	0.006
57DAP/reference	0.62268	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92674	0.104
17DAP/reference	0.83716	0.275
27DAP/reference	1.00999	0.843
39DAP/reference	0.87526	0.179
41DAP/reference	0.9289	0.148
42DAP/reference	1.05099	0.863
43DAP/reference	0.94963	0.416
47DAP/reference	0.84314	0.183
52DAP/reference	1.10756	0.904
57DAP/reference	2.17208	0.013

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.87213	0.89
26DAP/20DAP	0.81425	0.512
34DAP/26DAP	1.38864	1
51DAP/34DAP	1.0266	1
52DAP/51DAP	1.73344	0.066
53DAP/52DAP	0.86476	0.259
55DAP/53DAP	1.26856	0.494
57DAP/55DAP	0.67779	0.091
62DAP/57DAP	1.1264	0.158
68DAP/62DAP	0.80247	0.135
68DAP/14DAP	0.73295	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.78257	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.26919	0.881
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.68062	0.224
Mature Eggplant/Ripe Tomato	0.54248	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02778
1-1-2/M82	1.07362	1
12-2/M82	0.53995
12-4/M82	0.7627	0.619
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	1.25044
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	1.0316
5-3/M82	1.67126	0.496
6-2/M82	N/A	N/A
6-3/M82	0.39895
7-1/M82	N/A	N/A
7-2/M82	2.21944
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.61643
IL7-3/WTpooled	1.25682	0.362
IL12-4/WTpooled	1.12146	0.595
IL1-4/WTpooled	0.87163	0.444
WT/WTpooled	0.9417

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	1.05344	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99014	1
DC3000/delta hrp 6h	1.06447	1
DC3000/delta hrp 12h	0.72057	1
DC3000/delta hrp 24h	0.98101	0.91

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.87506	0.436
DC3000 delta B/DC3000 delta AB	1.14674	0.308

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.22026	1
Exp 36h	1.26571	1
Exp 60h	0.93318	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01189	1
Var 0h	0.96254	1
Var 12h I row2-row1	0.92945	0.39
Var 12h NI row2-row1	1.55563	0.235
Var 36h I row2-row1	1.38564	0.309
Var 36h NI row2-row1	0.55416	0.469
Var 60h I row2-row1	1.38713	0.562
Var 60h NI row2-row1	0.71766	0.298
Time course 0hI-0hNI	1.13473	0.662
Time course 12hI-12hNI	1.03611	1
Time course 36hI-36hNI	2.18776	0.004
Time course 60hI-60hNI	5.12082	0.013

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)	0.97408	0.409
transgenic ySAMdc/azygous control (breaker)	2.3486	0.248
transgenic ySAMdc/azygous control (red)	0.87973	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08655	0.886

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9738	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.54297	0.307
Manapal/WT (break)	0.92945	1
Manapal/WT (red)	0.68431	0.181