Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.1.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98092	0.823
27DAP/17DAP	0.609	0.058
39DAP/27DAP	0.90597	0.462
41DAP/39DAP	0.85191	0.483
42DAP/41DAP	1.01782	1
43DAP/42DAP	0.97058	0.91
47DAP/43DAP	0.44122	0.049
52DAP/47DAP	0.96682	0.693
57DAP/52DAP	1.09513	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.49965	0.007
17DAP/reference	1.20416	0.023
27DAP/reference	0.86906	0.098
39DAP/reference	0.91947	0.267
41DAP/reference	0.89776	0.434
42DAP/reference	0.99932	0.628
43DAP/reference	0.86546	0.033
47DAP/reference	1.07036	0.937
52DAP/reference	0.99043	0.598
57DAP/reference	1.12831	0.127

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79737	0.109
27DAP/17DAP	1.0207	0.973
39DAP/27DAP	0.75814	0.043
41DAP/39DAP	1.22408	0.393
42DAP/41DAP	0.92631	0.461
43DAP/42DAP	0.89378	0.189
47DAP/43DAP	0.96257	0.833
52DAP/47DAP	0.94454	0.79
57DAP/52DAP	0.88823	0.494
57DAP/7DAP	0.47023	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.48383	0.028
17DAP/reference	1.33129	0.014
27DAP/reference	1.06279	0.371
39DAP/reference	1.36351	0.032
41DAP/reference	1.10882	0.215
42DAP/reference	1.07484	0.233
43DAP/reference	1.16475	0.289
47DAP/reference	1.05584	0.604
52DAP/reference	0.86538	0.022
57DAP/reference	1.02832	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.54346	0.07
17DAP/reference	1.44116	0.012
27DAP/reference	1.1747	0.195
39DAP/reference	1.08295	0.529
41DAP/reference	0.94483	0.307
42DAP/reference	1.05137	0.969
43DAP/reference	1.02594	0.957
47DAP/reference	0.98861	0.543
52DAP/reference	0.88826	0.101
57DAP/reference	1.00514	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.795	0.016
17DAP/reference	1.34522	0.182
27DAP/reference	1.00567	0.883
39DAP/reference	1.14259	0.097
41DAP/reference	1.05291	0.777
42DAP/reference	1.10342	0.481
43DAP/reference	0.94284	0.432
47DAP/reference	0.80773	0.014
52DAP/reference	0.73239	0.158
57DAP/reference	1.25589	0.648

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.3061	0.752
26DAP/20DAP	1.09266	0.713
34DAP/26DAP	1.09359	1
51DAP/34DAP	1.27611	0.988
52DAP/51DAP	1.32992	0.213
53DAP/52DAP	0.91031	0.715
55DAP/53DAP	1.1827	1
57DAP/55DAP	0.93888	0.736
62DAP/57DAP	1.0047	1
68DAP/62DAP	1.07746	0.767
68DAP/14DAP	0.86824	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.23548	0.558

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.18004	0.176
Mature Green Tomato/Ripe Tomato	11.8741	0.015
Immature Eggplant/Mature Eggplant	0.70486	0.064
Ripe Pepper/Ripe Tomato	11.2146	0.244
Mature Eggplant/Ripe Tomato	4.54523

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.89951
12-2/M82	0.83825
12-4/M82	0.85472	1
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	N/A	N/A
3-2/M82	1.54418	0.84
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	3.21799	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	0.60551
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.9651
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.72689	0.418
IL12-4/WTpooled	0.68915	0.478
IL1-4/WTpooled	1.45828	1
WT/WTpooled	0.93791	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	0.63242	0.341

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04897	0.921
DC3000/delta hrp 6h	1.10755	1
DC3000/delta hrp 12h	1.0012	1
DC3000/delta hrp 24h	0.94503	0.629

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11084	0.208
DC3000 delta B/DC3000 delta AB	0.57814	0.03

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98179	1
Exp 36h	0.7083	0.456
Exp 60h	0.64783	0.253

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

hybridization	ratio	FDR (corrected p value)
self-self	1.09125	1
Var 0h	1.22323	0.325
Var 12h I row2-row1	0.72021
Var 12h NI row2-row1	0.96004	0.906
Var 36h I row2-row1	1.13113	0.908
Var 36h NI row2-row1	0.77796	0.584
Var 60h I row2-row1	1.24464	1
Var 60h NI row2-row1	0.91039	1
Time course 0hI-0hNI	0.95134	0.618
Time course 12hI-12hNI	0.98405	0.968
Time course 36hI-36hNI	0.99304	0.693
Time course 60hI-60hNI	1.00894	1

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)	0.97929	0.567
transgenic ySAMdc/azygous control (breaker)	0.54986	0.122
transgenic ySAMdc/azygous control (red)	1.15521	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96756	0.081

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.90997	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.92794	1
Manapal/WT (break)	0.68433	1
Manapal/WT (red)	0.74773	0.181