Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.18.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13732	0.904
27DAP/17DAP	1.05968	0.927
39DAP/27DAP	1.12197	0.769
41DAP/39DAP	1.60609	0.264
42DAP/41DAP	1.37864	0.691
43DAP/42DAP	0.96306	0.91
47DAP/43DAP	1.1906	0.965
52DAP/47DAP	0.97248	0.777
57DAP/52DAP	0.80761	0.55

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06198	0.334
17DAP/reference	1.08573	0.074
27DAP/reference	0.97807	0.654
39DAP/reference	1.02736	0.497
41DAP/reference	1.10147	0.203
42DAP/reference	0.97518	0.305
43DAP/reference	1.04579	0.569
47DAP/reference	1.01589	1
52DAP/reference	0.92208	0.105
57DAP/reference	0.92494	0.078

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.77361	0.547
27DAP/17DAP	1.00636	0.969
39DAP/27DAP	0.85331	0.164
41DAP/39DAP	1.06518	0.861
42DAP/41DAP	1.33128	0.436
43DAP/42DAP	1.02898	1
47DAP/43DAP	0.8935	0.701
52DAP/47DAP	0.95177	0.898
57DAP/52DAP	0.94073	0.641
57DAP/7DAP	0.81014	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2368	0.147
17DAP/reference	1.30737	1
27DAP/reference	1.06014	0.974
39DAP/reference	1.05981	0.909
41DAP/reference	1.27991	0.223
42DAP/reference	1.28122	0.308
43DAP/reference	1.45263	0.032
47DAP/reference	1.11935	0.285
52DAP/reference	1.27761	0.171
57DAP/reference	1.26237	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10305	0.21
17DAP/reference	1.10973	0.338
27DAP/reference	1.04796	0.704
39DAP/reference	0.98109	0.509
41DAP/reference	1.19131	0.177
42DAP/reference	0.92538	0.108
43DAP/reference	1.06913	0.575
47DAP/reference	1.02673	0.841
52DAP/reference	0.97469	0.28
57DAP/reference	1.09191	0.094

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01486	1
17DAP/reference	1.13091	0.612
27DAP/reference	1.42276	0.046
39DAP/reference	1.28004	0.016
41DAP/reference	1.26509	0.031
42DAP/reference	1.04727	0.648
43DAP/reference	1.03373	0.84
47DAP/reference	0.93923	0.089
52DAP/reference	1.18652	0.272
57DAP/reference	0.96556	0.5

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.17115	0.966
26DAP/20DAP	0.95719	1
34DAP/26DAP	1.56024	0.819
51DAP/34DAP	1.06967	0.829
52DAP/51DAP	1.49153	0.446
53DAP/52DAP	1.01421	0.99
55DAP/53DAP	1.00774	0.864
57DAP/55DAP	0.90105	0.664
62DAP/57DAP	1.00834	1
68DAP/62DAP	0.96062	0.81
68DAP/14DAP	0.79213	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.14438	0.527

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.48094	0.089
Mature Green Tomato/Ripe Tomato	1.25508	0.209
Immature Eggplant/Mature Eggplant	0.96382	0.651
Ripe Pepper/Ripe Tomato	0.53744	1
Mature Eggplant/Ripe Tomato	0.86794	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.18018	0.574
1-1-2/M82	0.95713	1
12-2/M82	0.95257
12-4/M82	1.29026
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	1.02794	1
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.61143
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.01974	1
6-2/M82	N/A	N/A
6-3/M82	0.9961	1
7-1/M82	N/A	N/A
7-2/M82	0.77258	0.599
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95571	1
IL2-6/WTpooled	0.54156	0.473
IL7-5/WTpooled	1.16154
IL7-3/WTpooled	1.04866	1
IL12-4/WTpooled	0.92036	0.581
IL1-4/WTpooled	1.06665	1
WT/WTpooled	0.89217	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	0.88646	0.341

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09834	0.921
DC3000/delta hrp 6h	0.91989	0.95
DC3000/delta hrp 12h	0.80292
DC3000/delta hrp 24h	1.03321	0.567

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	10.0383

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8735	1
Exp 36h	0.96754	0.879
Exp 60h	0.93777	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95985
Var 0h	0.93847	1
Var 12h I row2-row1	1.35892	0.473
Var 12h NI row2-row1	0.97219	0.906
Var 36h I row2-row1	0.96505	1
Var 36h NI row2-row1	0.75575	0.276
Var 60h I row2-row1	1.33436	0.543
Var 60h NI row2-row1	1.09983	0.904
Time course 0hI-0hNI	1.02192	1
Time course 12hI-12hNI	1.00171	1
Time course 36hI-36hNI	0.99638	0.73
Time course 60hI-60hNI	1.09565	0.426

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)	0.99622	0.931
transgenic ySAMdc/azygous control (breaker)	1.17391	1
transgenic ySAMdc/azygous control (red)	1.15542	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01074	0.495

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.72407	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87892	1
Manapal/WT (break)	1.19015	1
Manapal/WT (red)	1.09658	1