Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.6.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10006	0.725
27DAP/17DAP	1.29851	0.742
39DAP/27DAP	0.79941	0.402
41DAP/39DAP	1.1517	0.549
42DAP/41DAP	1.07226	0.903
43DAP/42DAP	1.05953	1
47DAP/43DAP	1.15857	0.459
52DAP/47DAP	0.78127	0.466
57DAP/52DAP	1.11343	0.958

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95535	0.379
17DAP/reference	1.08619	0.457
27DAP/reference	1.32467	0.057
39DAP/reference	1.38502	0.031
41DAP/reference	1.19085	0.158
42DAP/reference	1.19478	0.03
43DAP/reference	1.12147	0.078
47DAP/reference	1.16211	0.048
52DAP/reference	1.20063	0.302
57DAP/reference	1.44523	0.043

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98146	0.763
27DAP/17DAP	1.16694	0.848
39DAP/27DAP	1.17581	0.575
41DAP/39DAP	0.64007	0.169
42DAP/41DAP	0.96072	0.853
43DAP/42DAP	1.07358	0.991
47DAP/43DAP	1.09305	0.941
52DAP/47DAP	1.48023
57DAP/52DAP	0.83573	0.354
57DAP/7DAP	1.29546	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0245	0.927
17DAP/reference	0.94253	0.124
27DAP/reference	1.03996	0.664
39DAP/reference	0.9341	0.23
41DAP/reference	1.00433	0.741
42DAP/reference	1.15388	0.308
43DAP/reference	1.15857	0.226
47DAP/reference	1.2803	0.019
52DAP/reference	1.66698	0.012
57DAP/reference	1.51487	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24344	0.254
17DAP/reference	1.8807	0.009
27DAP/reference	2.06442	0.013
39DAP/reference	1.49878	0.011
41DAP/reference	1.65366	0.005
42DAP/reference	1.72575	0.016
43DAP/reference	2.57605	0.009
47DAP/reference	1.7918	0.008
52DAP/reference	1.67131	0.011
57DAP/reference	1.34764	0.08

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90056	0.422
17DAP/reference	1.15543	0.62
27DAP/reference	0.88995	0.195
39DAP/reference	1.04039	0.889
41DAP/reference	1.02308	0.84
42DAP/reference	1.24914	0.4
43DAP/reference	1.28254	0.84
47DAP/reference	1.57514	0.007
52DAP/reference	1.02404	0.928
57DAP/reference	2.04494	0.01

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.86732	0.708
26DAP/20DAP	1.2745	0.249
34DAP/26DAP	1.15519	0.078
51DAP/34DAP	1.25528	0.565
52DAP/51DAP	0.60184	1
53DAP/52DAP	1.31265	0.565
55DAP/53DAP	0.90483	0.725
57DAP/55DAP	0.88334	0.499
62DAP/57DAP	1.08641	0.445
68DAP/62DAP	1.0247	0.863
68DAP/14DAP	0.81785	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.80275	0.239

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.18478	0.058
Mature Green Tomato/Ripe Tomato	0.65176	0.148
Immature Eggplant/Mature Eggplant	0.79333	0.1
Ripe Pepper/Ripe Tomato	0.76622	0.224
Mature Eggplant/Ripe Tomato	0.78232	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.18214
1-1-2/M82	N/A	N/A
12-2/M82	1.094
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	0.85301
2-1/M82	N/A	N/A
2-6/M82	1.1646	0.594
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	1.09381	0.572
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.06776
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.90361	1
IL2-6/WTpooled	0.86028	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.96061	1
IL12-4/WTpooled	1.04839	0.891
IL1-4/WTpooled	0.98764	1
WT/WTpooled	1.00248	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	0.82839	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.14517	0.774
DC3000/delta hrp 6h	1.09299	1
DC3000/delta hrp 12h	0.98873	1
DC3000/delta hrp 24h	0.93668	0.554

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.01456
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	1.15323	0.254
Exp 36h	0.7976	0.661
Exp 60h	0.77845	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	1.09076	1
Var 0h	0.87735	0.936
Var 12h I row2-row1	1.11056	0.189
Var 12h NI row2-row1	0.9768	0.82
Var 36h I row2-row1	0.80947	0.34
Var 36h NI row2-row1	1.36263	1
Var 60h I row2-row1	0.96464	0.952
Var 60h NI row2-row1	1.22786	0.904
Time course 0hI-0hNI	1.05442	0.852
Time course 12hI-12hNI	1.11832	0.216
Time course 36hI-36hNI	0.86193	0.156
Time course 60hI-60hNI	0.82722	0.161

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)	0.85682	0.362
transgenic ySAMdc/azygous control (breaker)	0.80966	0.173
transgenic ySAMdc/azygous control (red)	1.04502	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02455	0.273

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.78381	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.51507	0.172
Manapal/WT (break)	0.66806	0.299
Manapal/WT (red)	1.16054	0.413