Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.15.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20275	0.681
27DAP/17DAP	1.17853	0.809
39DAP/27DAP	1.2983	0.692
41DAP/39DAP	0.89709	0.619
42DAP/41DAP	0.92449	1
43DAP/42DAP	0.85635	0.767
47DAP/43DAP	0.98101	0.895
52DAP/47DAP	0.88398	0.627
57DAP/52DAP	1.33624	0.817

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26516	0.05
17DAP/reference	1.17442	0.355
27DAP/reference	1.38901	0.02
39DAP/reference	1.23823	0.093
41DAP/reference	1.25115	0.013
42DAP/reference	1.27228	0.009
43DAP/reference	1.12885	0.233
47DAP/reference	1.05498	0.817
52DAP/reference	1.05094	0.951
57DAP/reference	0.94402	0.358

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.73674	0.29
27DAP/17DAP	1.59363	0.245
39DAP/27DAP	1.33606	0.565
41DAP/39DAP	0.76761	0.276
42DAP/41DAP	1.49497	0.55
43DAP/42DAP	0.88411	0.293
47DAP/43DAP	0.862	0.102
52DAP/47DAP	0.97846	0.925
57DAP/52DAP	1.0232	0.971
57DAP/7DAP	2.38273	0.204

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17565	0.185
17DAP/reference	0.90354	0.167
27DAP/reference	1.11564	0.107
39DAP/reference	1.03148	1
41DAP/reference	1.06394	0.918
42DAP/reference	1.29051	0.405
43DAP/reference	0.94047	0.202
47DAP/reference	1.35618	0.36
52DAP/reference	0.94769	0.363
57DAP/reference	0.786	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81212	0.176
17DAP/reference	1.08348	0.644
27DAP/reference	1.18465	0.192
39DAP/reference	1.03339	1
41DAP/reference	1.04203	0.718
42DAP/reference	0.97734	0.482
43DAP/reference	1.26058	0.319
47DAP/reference	0.96512	0.446
52DAP/reference	1.00028	0.666
57DAP/reference	1.03698	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17215	0.212
17DAP/reference	0.88606	0.364
27DAP/reference	0.9671	0.376
39DAP/reference	1.36372	0.175
41DAP/reference	0.95467	0.293
42DAP/reference	0.7494	0.032
43DAP/reference	0.84381	0.059
47DAP/reference	0.95136	0.452
52DAP/reference	0.94702	0.551
57DAP/reference	0.81825	0.131

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.66687	0.305
26DAP/20DAP	1.30123	0.195
34DAP/26DAP	1.70563	0.819
51DAP/34DAP	1.07379	1
52DAP/51DAP	1.44109	0.404
53DAP/52DAP	1.27082	0.502
55DAP/53DAP	1.02476	0.939
57DAP/55DAP	1.10809	0.969
62DAP/57DAP	1.06419	1
68DAP/62DAP	0.7511	0.109
68DAP/14DAP	0.75953

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.19769	0.068

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.63468	0.053
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.15912
Mature Eggplant/Ripe Tomato	0.28351	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96979	0.944
1-1-2/M82	1.18237	1
12-2/M82	1.55553	0.61
12-4/M82	1.00872	1
1-3/M82	0.75036	1
2-1-1/M82	0.95976	0.92
2-1/M82	0.66317	0.322
2-6/M82	1.00551	1
3-2/M82	0.04381
4-1-1/M82	0.84435	1
4-1/M82	0.69244
4-3-2/M82	0.95637
4-3/M82	1.43953	1
5-3/M82	0.61043	0.49
6-2/M82	1.3276
6-3/M82	0.89639	1
7-1/M82	0.80932
7-2/M82	1.31928
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	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.85872
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	0.98907	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9546	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.3841	1
DC3000/delta hrp 24h	0.65612	0.034

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89714	1
Exp 36h	0.81384	0.879
Exp 60h	0.63499	0.522

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	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	1.41139
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	0.85766	0.266
Time course 12hI-12hNI	0.83983	0.05
Time course 36hI-36hNI	0.5025	0.038
Time course 60hI-60hNI	1.12284	0.16

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.35505	1
transgenic ySAMdc/azygous control (red)	0.96162	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.91207	0.242

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.51972	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.44185	0.14
Manapal/WT (break)	0.92224	1
Manapal/WT (red)	0.91551	0.607