Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.19.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.50705	0.031
27DAP/17DAP	0.7414	0.332
39DAP/27DAP	0.757	0.346
41DAP/39DAP	0.53405	0.055
42DAP/41DAP	1.15006	0.843
43DAP/42DAP	1.20036	0.703
47DAP/43DAP	1.00138	0.864
52DAP/47DAP	1.08371	0.96
57DAP/52DAP	0.99466	0.949

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3222	0.01
17DAP/reference	0.95533	0.536
27DAP/reference	1.07904	0.696
39DAP/reference	1.17555	0.039
41DAP/reference	1.01902	0.714
42DAP/reference	1.12807	0.299
43DAP/reference	0.95526	0.594
47DAP/reference	1.02289	1
52DAP/reference	1.0662	0.912
57DAP/reference	1.12726	0.433

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.47295	0.032
27DAP/17DAP	1.11103	0.798
39DAP/27DAP	0.83369	0.322
41DAP/39DAP	0.92252	0.63
42DAP/41DAP	0.86578	0.404
43DAP/42DAP	0.90392	0.206
47DAP/43DAP	1.02732	0.901
52DAP/47DAP	1.19101	0.616
57DAP/52DAP	1.4657	0.063
57DAP/7DAP	0.66587	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85681	0.122
17DAP/reference	0.97634	0.447
27DAP/reference	0.98603	0.53
39DAP/reference	0.95328	0.354
41DAP/reference	0.89204	0.271
42DAP/reference	0.91429	0.235
43DAP/reference	0.99883	0.637
47DAP/reference	0.99925	0.671
52DAP/reference	0.96834	0.435
57DAP/reference	1.31248	0.023

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08923	0.719
17DAP/reference	1.27385	0.042
27DAP/reference	1.10538	0.316
39DAP/reference	0.81932	0.11
41DAP/reference	0.97283	0.459
42DAP/reference	1.13868	0.634
43DAP/reference	1.49025	0.014
47DAP/reference	1.23037	0.19
52DAP/reference	1.14805	0.417
57DAP/reference	1.26636	0.161

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95772	0.197
17DAP/reference	1.06417	0.585
27DAP/reference	1.08649	0.207
39DAP/reference	1.03232	0.67
41DAP/reference	1.08969	0.486
42DAP/reference	1.35362	0.408
43DAP/reference	1.00908	0.767
47DAP/reference	1.01835	1
52DAP/reference	1.85684	0.237
57DAP/reference	1.12323	0.279

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08392	0.966
26DAP/20DAP	1.12981	0.7
34DAP/26DAP	0.91864	0.682
51DAP/34DAP	0.64961	0.06
52DAP/51DAP	0.87121	0.151
53DAP/52DAP	0.89782	0.426
55DAP/53DAP	0.68253	0.039
57DAP/55DAP	0.83317	0.38
62DAP/57DAP	1.08838	0.868
68DAP/62DAP	1.30883	0.609
68DAP/14DAP	1.05887	0.85

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.18946	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.60013	0.147
Mature Green Tomato/Ripe Tomato	2.55058	0.024
Immature Eggplant/Mature Eggplant	0.95658	0.72
Ripe Pepper/Ripe Tomato	0.94008	1
Mature Eggplant/Ripe Tomato	1.95476	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89216	0.934
1-1-2/M82	N/A	N/A
12-2/M82	1.06631
12-4/M82	0.82796	0.619
1-3/M82	N/A	N/A
2-1-1/M82	0.44269
2-1/M82	N/A	N/A
2-6/M82	0.80814	0.501
3-2/M82	N/A	N/A
4-1-1/M82	1.4002
4-1/M82	1.06065
4-3-2/M82	N/A	N/A
4-3/M82	0.74021
5-3/M82	0.90975	0.447
6-2/M82	1.11606
6-3/M82	0.992	1
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	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	2.52239
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.81199	0.402
WT/WTpooled	N/A	N/A

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	1.18834	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97191	1
DC3000/delta hrp 6h	0.95329	0.95
DC3000/delta hrp 12h	0.91294	1
DC3000/delta hrp 24h	1.06137	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.36343	0.023
DC3000 delta B/DC3000 delta AB	0.41199	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.25406	1
Exp 36h	1.09441	1
Exp 60h	1.06531	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98219	1
Var 0h	0.78596	1
Var 12h I row2-row1	0.9448	0.338
Var 12h NI row2-row1	0.93557	0.546
Var 36h I row2-row1	1.09166	0.742
Var 36h NI row2-row1	1.11524	1
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.09793	0.904
Time course 0hI-0hNI	1.03616	0.852
Time course 12hI-12hNI	0.86084	0.173
Time course 36hI-36hNI	0.86744	0.055
Time course 60hI-60hNI	0.14124	0.005

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)	0.92951	0.567
transgenic ySAMdc/azygous control (breaker)	0.70571	0.142
transgenic ySAMdc/azygous control (red)	1.1765	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03908	0.177

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.62289	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10556	0.105
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.8776	0.503