Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.14.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80052	0.111
27DAP/17DAP	1.01962	1
39DAP/27DAP	1.46325	0.229
41DAP/39DAP	0.72344	0.138
42DAP/41DAP	0.94136	1
43DAP/42DAP	1.02144	1
47DAP/43DAP	1.00605	0.959
52DAP/47DAP	1.41286	0.69
57DAP/52DAP	1.17555	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20952	0.018
17DAP/reference	0.99827	1
27DAP/reference	1.00025	0.923
39DAP/reference	1.10256	0.169
41DAP/reference	1.00737	0.963
42DAP/reference	1.20142	0.003
43DAP/reference	0.95205	0.287
47DAP/reference	1.10661	0.065
52DAP/reference	1.12716	0.195
57DAP/reference	1.34321	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96153	0.613
27DAP/17DAP	0.92559	0.684
39DAP/27DAP	0.94287	0.648
41DAP/39DAP	1.02629	0.88
42DAP/41DAP	0.99181	0.858
43DAP/42DAP	0.7802	0.049
47DAP/43DAP	0.91645	0.247
52DAP/47DAP	0.95382	0.848
57DAP/52DAP	1.12189	0.584
57DAP/7DAP	0.76802	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.20068	0.024
17DAP/reference	2.20339	0.006
27DAP/reference	1.93711	0.006
39DAP/reference	1.91381	0.005
41DAP/reference	2.28189	0.009
42DAP/reference	2.72216	0.006
43DAP/reference	2.48792	0.006
47DAP/reference	1.56006	0.047
52DAP/reference	2.35891	0.007
57DAP/reference	1.76151	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34111	0.099
17DAP/reference	1.47865	0.027
27DAP/reference	1.45978	0.178
39DAP/reference	1.44035	0.019
41DAP/reference	1.39487	0.022
42DAP/reference	1.69477	0.007
43DAP/reference	1.34428	0.086
47DAP/reference	1.6388	0.008
52DAP/reference	1.22644	0.012
57DAP/reference	1.11442	0.567

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.84479	0.019
17DAP/reference	1.50297	0.217
27DAP/reference	1.82309	0.017
39DAP/reference	1.84331	0.007
41DAP/reference	1.66941	0.007
42DAP/reference	1.79373	0.007
43DAP/reference	1.94315	0.007
47DAP/reference	1.1517	0.12
52DAP/reference	1.73301	0.044
57DAP/reference	1.88082	0.01

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98613	1
26DAP/20DAP	0.91197	1
34DAP/26DAP	1.22823	0.542
51DAP/34DAP	0.86332	0.442
52DAP/51DAP	1.0291	1
53DAP/52DAP	0.84531	0.323
55DAP/53DAP	0.89358	0.273
57DAP/55DAP	0.86165	0.375
62DAP/57DAP	1.10228	0.622
68DAP/62DAP	1.07542	1
68DAP/14DAP	1.25921	0.739

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.28896	0.057

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.27174	0.058
Mature Green Tomato/Ripe Tomato	1.45124	0.077
Immature Eggplant/Mature Eggplant	0.84525	0.082
Ripe Pepper/Ripe Tomato	0.90898	1
Mature Eggplant/Ripe Tomato	1.22527	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.929
1-1-2/M82	1.00325	1
12-2/M82	0.5135
12-4/M82	0.72851	0.257
1-3/M82	1.41766
2-1-1/M82	0.97844
2-1/M82	1.10515
2-6/M82	0.94078	1
3-2/M82	1.14456	0.382
4-1-1/M82	1.33424	1
4-1/M82	1.16284
4-3-2/M82	N/A	N/A
4-3/M82	0.94287
5-3/M82	1.25795	0.572
6-2/M82	0.96553	1
6-3/M82	N/A	N/A
7-1/M82	1.00085
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	0.95477	0.321
IL2-6/WTpooled	1.23041	0.395
IL7-5/WTpooled	1.16556	0.792
IL7-3/WTpooled	1.07743	0.362
IL12-4/WTpooled	1.08402	0.695
IL1-4/WTpooled	1.10145	1
WT/WTpooled	0.95651	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	1.12257	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04962	0.875
DC3000/delta hrp 6h	0.94795	0.95
DC3000/delta hrp 12h	1.12983	1
DC3000/delta hrp 24h	1.12622	0.322

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.1807	0.042
DC3000 delta B/DC3000 delta AB	1.06108	0.55

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98189	1
Exp 36h	1.08941	1
Exp 60h	0.90771	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95242	1
Var 0h	1.11142	0.782
Var 12h I row2-row1	0.96072	0.856
Var 12h NI row2-row1	1.03197	1
Var 36h I row2-row1	1.2106	0.305
Var 36h NI row2-row1	0.74273	0.329
Var 60h I row2-row1	0.98338	1
Var 60h NI row2-row1	0.78503	0.297
Time course 0hI-0hNI	0.87432	0.136
Time course 12hI-12hNI	1.02102	0.774
Time course 36hI-36hNI	1.2808	0.114
Time course 60hI-60hNI	1.56679	0.009

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)	0.99442	0.931
transgenic ySAMdc/azygous control (breaker)	1.50505	0.178
transgenic ySAMdc/azygous control (red)	1.18376	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.1089	0.119

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.16675	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88218	1
Manapal/WT (break)	0.98	1
Manapal/WT (red)	1.17378	0.164