Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.11.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.35228	0.255
27DAP/17DAP	0.86596	0.741
39DAP/27DAP	1.02815	1
41DAP/39DAP	1.07586	0.859
42DAP/41DAP	0.83768	1
43DAP/42DAP	1.31429	0.541
47DAP/43DAP	0.89025	0.618
52DAP/47DAP	1.16735	0.898
57DAP/52DAP	1.11251	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97787	0.455
17DAP/reference	1.08726	0.22
27DAP/reference	1.08764	0.539
39DAP/reference	0.89579	0.284
41DAP/reference	0.95727	0.542
42DAP/reference	0.89474	0.027
43DAP/reference	1.04832	0.569
47DAP/reference	1.04697	0.593
52DAP/reference	1.06695	0.576
57DAP/reference	1.01561	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02544	0.774
27DAP/17DAP	1.03786	0.909
39DAP/27DAP	0.91324	0.502
41DAP/39DAP	1.07991	0.427
42DAP/41DAP	0.92985	0.453
43DAP/42DAP	0.95049	0.618
47DAP/43DAP	0.99135	0.961
52DAP/47DAP	0.94451	0.702
57DAP/52DAP	0.90542	0.321
57DAP/7DAP	0.96858	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94253	0.129
17DAP/reference	0.95937	0.167
27DAP/reference	0.97845	0.43
39DAP/reference	1.07519	0.166
41DAP/reference	1.01205	0.778
42DAP/reference	0.99268	0.641
43DAP/reference	1.00671	1
47DAP/reference	1.01015	1
52DAP/reference	1.06364	0.328
57DAP/reference	1.06658	0.061

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9355	0.518
17DAP/reference	1.0971	0.496
27DAP/reference	1.15807	0.225
39DAP/reference	1.01094	1
41DAP/reference	0.94355	0.322
42DAP/reference	1.08829	0.951
43DAP/reference	0.95941	0.494
47DAP/reference	0.98655	0.59
52DAP/reference	1.0835	0.528
57DAP/reference	1.00959	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02829	0.793
17DAP/reference	0.9916	0.763
27DAP/reference	0.91762	0.043
39DAP/reference	0.97603	0.271
41DAP/reference	0.96689	0.167
42DAP/reference	0.9148	0.019
43DAP/reference	0.86651	0.022
47DAP/reference	0.92659	0.371
52DAP/reference	1.04236	0.724
57DAP/reference	1.03794	0.771

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0567	1
26DAP/20DAP	0.92939	0.512
34DAP/26DAP	0.88772	0.596
51DAP/34DAP	1.01299	0.978
52DAP/51DAP	0.95233	1
53DAP/52DAP	1.09141	0.552
55DAP/53DAP	0.94478	0.417
57DAP/55DAP	1.16521	0.543
62DAP/57DAP	0.86454	0.162
68DAP/62DAP	0.93256	0.747
68DAP/14DAP	1.12566	0.419

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.13381	0.045

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.8575	0.39
Mature Green Tomato/Ripe Tomato	1.37995	0.437
Immature Eggplant/Mature Eggplant	0.41462
Ripe Pepper/Ripe Tomato	2.05237	1
Mature Eggplant/Ripe Tomato	1.47595

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	0.88159
IL2-6/WTpooled	0.83963	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.2739	1
IL12-4/WTpooled	1.06164	0.737
IL1-4/WTpooled	1.06944	1
WT/WTpooled	1.02848	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	0.94727	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08744	0.921
DC3000/delta hrp 6h	1.29976	1
DC3000/delta hrp 12h	1.01668	1
DC3000/delta hrp 24h	0.62389	0.038

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.86333	0.105
DC3000 delta B/DC3000 delta AB	0.85896	0.063

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.51234	1
Exp 36h	0.89823	0.699
Exp 60h	0.98081	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96736	1
Var 0h	1.09304	0.936
Var 12h I row2-row1	0.88485	0.467
Var 12h NI row2-row1	0.8133	0.36
Var 36h I row2-row1	1.17008	1
Var 36h NI row2-row1	1.17101	0.276
Var 60h I row2-row1	0.97112	0.374
Var 60h NI row2-row1	1.10569	0.904
Time course 0hI-0hNI	1.1973	0.764
Time course 12hI-12hNI	1.0075	1
Time course 36hI-36hNI	0.94355	0.323
Time course 60hI-60hNI	0.56209	0.006

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)	0.9243	0.338
transgenic ySAMdc/azygous control (breaker)	1.18769	1
transgenic ySAMdc/azygous control (red)	0.95531	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99853	0.858

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92574	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83133	1
Manapal/WT (break)	1.03582	1
Manapal/WT (red)	N/A	N/A