Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.8.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22766	0.67
27DAP/17DAP	0.98688	0.947
39DAP/27DAP	0.92277	0.631
41DAP/39DAP	1.26024	0.359
42DAP/41DAP	1.0995	0.933
43DAP/42DAP	1.02794	0.937
47DAP/43DAP	1.07158	0.889
52DAP/47DAP	0.95687	0.843
57DAP/52DAP	0.97832	0.966

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9887	0.63
17DAP/reference	0.92677	0.194
27DAP/reference	0.99972	0.904
39DAP/reference	1.09736	0.434
41DAP/reference	1.09279	0.171
42DAP/reference	0.92201	0.099
43DAP/reference	1.16224	0.05
47DAP/reference	1.07277	0.353
52DAP/reference	0.9469	0.3
57DAP/reference	0.99112	0.61

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02399	0.947
27DAP/17DAP	0.91856	0.508
39DAP/27DAP	1.08684	0.56
41DAP/39DAP	0.94783	0.764
42DAP/41DAP	1.12832	0.46
43DAP/42DAP	0.8929	0.149
47DAP/43DAP	0.96372	0.796
52DAP/47DAP	0.97867	0.917
57DAP/52DAP	0.95254	0.603
57DAP/7DAP	0.85175	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80749	0.095
17DAP/reference	0.79089	0.015
27DAP/reference	0.88778	0.125
39DAP/reference	0.7212	0.011
41DAP/reference	0.74736	0.018
42DAP/reference	0.67993	0.014
43DAP/reference	0.65662	0.011
47DAP/reference	0.99729	1
52DAP/reference	0.60539	0.016
57DAP/reference	0.6438	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12486	0.43
17DAP/reference	1.06366	0.739
27DAP/reference	0.93906	0.423
39DAP/reference	1.00356	1
41DAP/reference	0.96003	0.268
42DAP/reference	1.00134	1
43DAP/reference	1.33231	0.036
47DAP/reference	1.17333	0.008
52DAP/reference	1.03569	0.702
57DAP/reference	1.10896	0.101

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.69916	0.024
17DAP/reference	0.97101	0.624
27DAP/reference	0.68906	0.032
39DAP/reference	0.75264	0.022
41DAP/reference	0.83972	0.037
42DAP/reference	0.97886	0.671
43DAP/reference	0.80554	0.031
47DAP/reference	0.99749	0.61
52DAP/reference	0.88264	0.368
57DAP/reference	1.04209	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93831	1
26DAP/20DAP	0.90085	1
34DAP/26DAP	0.93443	0.834
51DAP/34DAP	1.20649	0.473
52DAP/51DAP	0.97837	1
53DAP/52DAP	1.00998	1
55DAP/53DAP	1.08856	0.622
57DAP/55DAP	1.22323	0.818
62DAP/57DAP	1.11745	0.622
68DAP/62DAP	1.08862	0.95
68DAP/14DAP	1.30754	0.087

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85555	0.076

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.73039	0.202
Mature Green Tomato/Ripe Tomato	1.01824	0.835
Immature Eggplant/Mature Eggplant	1.34552	0.101
Ripe Pepper/Ripe Tomato	1.34121	1
Mature Eggplant/Ripe Tomato	1.30832	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08873
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.93572	1
1-3/M82	0.848
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	0.71018
4-1/M82	1.15148
4-3-2/M82	1.00381	1
4-3/M82	1.04746	1
5-3/M82	1.06658	1
6-2/M82	1.08042
6-3/M82	N/A	N/A
7-1/M82	0.99265	1
7-2/M82	1.14838
9-3-2/M82	0.85532	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.85603	0.277
IL2-6/WTpooled	1.20559	0.659
IL7-5/WTpooled	0.67465
IL7-3/WTpooled	1.08921	1
IL12-4/WTpooled	0.83597	0.581
IL1-4/WTpooled	1.18384	1
WT/WTpooled	0.89186	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	1.0203	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97295	1
DC3000/delta hrp 6h	0.82293	0.95
DC3000/delta hrp 12h	0.93638	1
DC3000/delta hrp 24h	0.90256	0.306

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	0.9034	0.766

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93361	1
Exp 36h	1.46481	0.693
Exp 60h	1.64644	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96627	1
Var 0h	1.051	1
Var 12h I row2-row1	1.05476	0.283
Var 12h NI row2-row1	0.76422	0.627
Var 36h I row2-row1	0.8489	1
Var 36h NI row2-row1	1.01685	1
Var 60h I row2-row1	0.97226	0.952
Var 60h NI row2-row1	1.07382	0.904
Time course 0hI-0hNI	1.00133	1
Time course 12hI-12hNI	0.98252	0.802
Time course 36hI-36hNI	0.94598	0.26
Time course 60hI-60hNI	0.79337	0.015

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)	0.93098	0.246
transgenic ySAMdc/azygous control (breaker)	1.04491	1
transgenic ySAMdc/azygous control (red)	0.94216	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03337	0.069

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.74609	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81899	1
Manapal/WT (break)	0.91234	1
Manapal/WT (red)	1.276	0.413