Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.4.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22984	0.315
27DAP/17DAP	0.96635	0.908
39DAP/27DAP	1.04351	0.82
41DAP/39DAP	1.04196	0.96
42DAP/41DAP	1.00027	1
43DAP/42DAP	1.01466	0.937
47DAP/43DAP	1.18669	0.965
52DAP/47DAP	1.38294	0.608
57DAP/52DAP	1.38169	0.96

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84406	0.162
17DAP/reference	0.98385	0.819
27DAP/reference	0.85627	0.023
39DAP/reference	1.13388	0.352
41DAP/reference	0.89849	0.667
42DAP/reference	0.87306	0.176
43DAP/reference	0.78613
47DAP/reference	1.29555	0.752
52DAP/reference	0.90652	0.21
57DAP/reference	1.58985

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0291	0.91
27DAP/17DAP	1.05999	0.932
39DAP/27DAP	0.79877	0.057
41DAP/39DAP	1.09467	1
42DAP/41DAP	0.8229	0.298
43DAP/42DAP	0.87043	0.157
47DAP/43DAP	1.14199	0.758
52DAP/47DAP	0.88955	0.753
57DAP/52DAP	0.77659	0.135
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.54864	0.036
17DAP/reference	1.26886	0.147
27DAP/reference	0.88816	0.135
39DAP/reference	1.11363	0.351
41DAP/reference	1.13572	0.491
42DAP/reference	1.27807	0.1
43DAP/reference	1.16816	0.188
47DAP/reference	0.99951	0.671
52DAP/reference	1.05911	0.781
57DAP/reference	1.15163	0.288

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16853	0.038
17DAP/reference	1.50776	0.518
27DAP/reference	0.81397	0.155
39DAP/reference	0.80017	0.047
41DAP/reference	1.00215	0.718
42DAP/reference	1.00512	0.723
43DAP/reference	1.00867	0.736
47DAP/reference	1.10934	0.426
52DAP/reference	0.9252	0.28
57DAP/reference	1.30223	0.127

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15677	0.172
17DAP/reference	1.43725	0.105
27DAP/reference	1.14339	0.043
39DAP/reference	1.16298	0.563
41DAP/reference	1.07366	0.754
42DAP/reference	1.14481	0.848
43DAP/reference	0.87842	0.246
47DAP/reference	0.90628	0.269
52DAP/reference	2.41779
57DAP/reference	0.86742	0.134

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03904	0.966
26DAP/20DAP	1.08988	1
34DAP/26DAP	1.05196	1
51DAP/34DAP	0.9974	0.835
52DAP/51DAP	1.06411	1
53DAP/52DAP	1.46193	0.58
55DAP/53DAP	1.25028	0.511
57DAP/55DAP	1.3189	0.185
62DAP/57DAP	1.79434	0.723
68DAP/62DAP	0.68471	0.037
68DAP/14DAP	0.49277	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.15597	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.19969	0.898
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.91305

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00489	1
1-1-2/M82	0.8904	1
12-2/M82	N/A	N/A
12-4/M82	1.07327	1
1-3/M82	0.60537
2-1-1/M82	1.03459
2-1/M82	N/A	N/A
2-6/M82	0.77617	0.501
3-2/M82	0.93594	1
4-1-1/M82	0.73833	1
4-1/M82	0.99712	1
4-3-2/M82	0.61147
4-3/M82	0.85104	1
5-3/M82	0.90744	1
6-2/M82	0.57801	0.497
6-3/M82	0.79785
7-1/M82	0.96323
7-2/M82	0.73863	0.553
9-3-2/M82	0.66598	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.03225	0.493
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.53409	1
IL7-3/WTpooled	0.75067	0.418
IL12-4/WTpooled	1.08211	0.785
IL1-4/WTpooled	0.98085	1
WT/WTpooled	1.07145	0.999

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	0.88803	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10259	0.692
DC3000/delta hrp 6h	1.19207	1
DC3000/delta hrp 12h	1.03479	1
DC3000/delta hrp 24h	1.10621	0.397

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	0.72398

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.19365	1
Exp 60h	1.07674	1

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	0.88837	0.255
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	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	0.96198	0.863
Time course 12hI-12hNI	1.06078	0.747
Time course 36hI-36hNI	0.90951	0.265
Time course 60hI-60hNI	0.90757	0.319

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)	0.90396	0.286
transgenic ySAMdc/azygous control (breaker)	1.49952	0.172
transgenic ySAMdc/azygous control (red)	1.04428	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99528	0.806

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.39397	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.23368	0.14
Manapal/WT (break)	0.90275	1
Manapal/WT (red)	1.11266	0.413