Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.1.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85509	0.31
27DAP/17DAP	1.46168	0.618
39DAP/27DAP	0.52292	0.216
41DAP/39DAP	1.41214	0.603
42DAP/41DAP	1.1685	0.898
43DAP/42DAP	0.98245	0.937
47DAP/43DAP	1.00653	0.779
52DAP/47DAP	1.20731	0.828
57DAP/52DAP	0.96295	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94534	0.412
17DAP/reference	1.12837	0.185
27DAP/reference	1.44841	0.194
39DAP/reference	1.16517	0.114
41DAP/reference	1.03503	1
42DAP/reference	1.08687	0.731
43DAP/reference	0.96653	0.631
47DAP/reference	1.16811	0.463
52DAP/reference	1.54934	0.015
57DAP/reference	1.26859	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27189
27DAP/17DAP	0.93041	0.887
39DAP/27DAP	1.09863	0.643
41DAP/39DAP	1.03975
42DAP/41DAP	1.21424	0.872
43DAP/42DAP	46.0222
47DAP/43DAP	4.61317
52DAP/47DAP	0.91858	0.726
57DAP/52DAP	1.07609	1
57DAP/7DAP	0.9988

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88027	0.27
17DAP/reference	0.85624	0.049
27DAP/reference	1.08785	0.453
39DAP/reference	0.7598	0.039
41DAP/reference	0.77259	0.054
42DAP/reference	0.8276	0.033
43DAP/reference	0.87531	0.192
47DAP/reference	1.02839	1
52DAP/reference	0.75029	0.046
57DAP/reference	0.82643	0.036

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88092	0.362
17DAP/reference	1.3123	0.181
27DAP/reference	0.98523	0.642
39DAP/reference	2.29742	0.119
41DAP/reference	1.17325	0.382
42DAP/reference	1.66055	0.018
43DAP/reference	1.29756	0.215
47DAP/reference	1.2554	0.176
52DAP/reference	1.25738	0.3
57DAP/reference	1.02237	0.834

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8129	0.054
17DAP/reference	0.79602	0.066
27DAP/reference	0.97609	0.594
39DAP/reference	0.9294	0.36
41DAP/reference	0.98063	0.682
42DAP/reference	1.09711	0.566
43DAP/reference	2.14804	0.403
47DAP/reference	1.36778	0.424
52DAP/reference	2.1433	0.257
57DAP/reference	2.35721	0.204

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.47097
26DAP/20DAP	0.79583
34DAP/26DAP	1.02944
51DAP/34DAP	0.52538	0.171
52DAP/51DAP	1.115	0.565
53DAP/52DAP	0.79064	0.445
55DAP/53DAP	1.153	0.703
57DAP/55DAP	0.62988
62DAP/57DAP	N/A	N/A
68DAP/62DAP	2.68232
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.11236	0.954

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.73675
Mature Eggplant/Ripe Tomato	4.23869	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
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	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
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	0.91272	0.243
IL2-6/WTpooled	1.13093	0.788
IL7-5/WTpooled	1.40657	1
IL7-3/WTpooled	0.83203	0.294
IL12-4/WTpooled	1.20541	0.737
IL1-4/WTpooled	0.88167	0.834
WT/WTpooled	1.0654	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	N/A	N/A

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

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

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	N/A	N/A

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	N/A	N/A
Var 0h	0.98897
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	5.59677
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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)	0.57302	1
Manapal/WT (red)	1.48897	0.222