Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.16.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86179	0.318
27DAP/17DAP	1.02849	1
39DAP/27DAP	1.0445	0.876
41DAP/39DAP	1.33788	0.597
42DAP/41DAP	1.03839	0.992
43DAP/42DAP	0.79983	0.467
47DAP/43DAP	1.24222	0.455
52DAP/47DAP	0.98627	0.903
57DAP/52DAP	1.08194	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05529	0.662
17DAP/reference	1.09122	0.239
27DAP/reference	1.04227	0.58
39DAP/reference	1.12394	0.032
41DAP/reference	1.07437	0.624
42DAP/reference	0.89623	0.01
43DAP/reference	1.10773	0.189
47DAP/reference	1.00551	0.636
52DAP/reference	0.92938	0.275
57DAP/reference	0.86474	0.045

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04652	0.642
27DAP/17DAP	0.95734	0.782
39DAP/27DAP	1.03476	0.718
41DAP/39DAP	0.83881	0.137
42DAP/41DAP	1.03995	0.824
43DAP/42DAP	1.14422	0.192
47DAP/43DAP	0.96213	0.712
52DAP/47DAP	0.90036	0.433
57DAP/52DAP	0.9898	0.823
57DAP/7DAP	0.71678	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85505	0.104
17DAP/reference	0.96254	0.389
27DAP/reference	0.92753	0.135
39DAP/reference	0.57588	0.073
41DAP/reference	0.71786	0.012
42DAP/reference	0.85131	0.05
43DAP/reference	0.92789	0.279
47DAP/reference	0.98703	0.671
52DAP/reference	0.86673	0.033
57DAP/reference	0.8719	0.074

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13456	0.104
17DAP/reference	1.11081	0.285
27DAP/reference	0.99856	0.642
39DAP/reference	1.04652	1
41DAP/reference	1.11795	0.234
42DAP/reference	1.11731	0.596
43DAP/reference	1.36005	0.105
47DAP/reference	1.08634	0.321
52DAP/reference	0.95953	0.433
57DAP/reference	1.09876	0.807

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.011	0.804
17DAP/reference	0.95659	0.571
27DAP/reference	0.915	0.416
39DAP/reference	0.99624	0.755
41DAP/reference	1.00788	1
42DAP/reference	0.98922	0.816
43DAP/reference	0.93256	0.398
47DAP/reference	1.02592	0.901
52DAP/reference	0.89932	0.351
57DAP/reference	0.94924	0.424

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.83831	0.966
26DAP/20DAP	0.91744	1
34DAP/26DAP	1.12589	1
51DAP/34DAP	1.03615	0.911
52DAP/51DAP	0.82354	1
53DAP/52DAP	0.99694	0.983
55DAP/53DAP	1.08095	0.861
57DAP/55DAP	1.39829	0.171
62DAP/57DAP	0.99946	1
68DAP/62DAP	0.78628	0.579
68DAP/14DAP	0.59824	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.89238	0.024

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.99771	0.863
Mature Green Tomato/Ripe Tomato	0.90624	0.317
Immature Eggplant/Mature Eggplant	1.15983	0.198
Ripe Pepper/Ripe Tomato	0.96657
Mature Eggplant/Ripe Tomato	0.72391	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.06348
1-3/M82	1.34174
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
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	1.0648
4-3/M82	N/A	N/A
5-3/M82	0.99745	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.0364
7-2/M82	N/A	N/A
9-3-2/M82	0.83971

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.9688	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.38734	1
IL7-3/WTpooled	1.0848
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.16039	1
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	1.00069	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93898	1
DC3000/delta hrp 6h	1.09534	0.582
DC3000/delta hrp 12h	1.00533	1
DC3000/delta hrp 24h	1.1031	0.553

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.76793	0.183
DC3000 delta B/DC3000 delta AB	0.84782	0.152

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.80526	1
Exp 36h	0.9259	0.749
Exp 60h	1.0441	0.563

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	0.69584
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	0.89814
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	0.90586
Var 60h I row2-row1	0.96416
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	0.97932	0.621
Time course 60hI-60hNI	N/A	N/A

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)	1.01361	0.798
transgenic ySAMdc/azygous control (breaker)	1.31561	0.178
transgenic ySAMdc/azygous control (red)	0.9445	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01443	0.395

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.21161	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.11325	0.14
Manapal/WT (break)	0.97839	1
Manapal/WT (red)	0.98596	0.863